build.log

build.log (text/plain), 833.13 KB, created by Agostino Sarubbo on 2024-03-26 08:32:24 UTC

 * Package:    sci-biology/pysam-0.21.0:0
 * Repository: gentoo
 * Maintainer: [e-mail]
 * USE:        abi_x86_32 elibc_glibc kernel_linux python_targets_python3_10 python_targets_python3_11 x86
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox


@@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@
This information may help you to understand if this is a duplicate or if this bug exists after you pushed a fix;
This ebuild was merged at the following commit:
https://github.com/gentoo-mirror/gentoo/commit/05bec097ea3d92328189702c799b1970c0f8921b  (Tue Mar 26 07:03:59 UTC 2024)
@@@@@ END @@@@@



##################
# emerge --info: #
##################
Portage 3.0.63 (python 3.12.2-final-0, default/linux/x86/17.0, gcc-14, glibc-2.39-r2, 6.1.66-gentoo-dist i686)
=================================================================
System uname: Linux-6.1.66-gentoo-dist-i686-AMD_EPYC_7513_32-Core_Processor-with-glibc2.39
KiB Mem:   263452516 total,  38285296 free
KiB Swap:          0 total,         0 free
Timestamp of repository gentoo: Tue, 26 Mar 2024 07:03:58 +0000
sh bash 5.2_p26
ld GNU ld (Gentoo 2.42 p3) 2.42.0
app-misc/pax-utils:        1.3.7::gentoo
app-shells/bash:           5.2_p26::gentoo
dev-build/autoconf:        2.72-r1::gentoo
dev-build/automake:        1.16.5-r2::gentoo
dev-build/cmake:           3.29.0::gentoo
dev-build/libtool:         2.4.7-r3::gentoo
dev-build/make:            4.4.1-r1::gentoo
dev-build/meson:           1.4.0-r1::gentoo
dev-lang/perl:             5.38.2-r2::gentoo
dev-lang/python:           3.10.14::gentoo, 3.11.8_p1::gentoo, 3.12.2_p1::gentoo
sys-apps/baselayout:       2.15::gentoo
sys-apps/openrc:           0.53.1::gentoo
sys-apps/sandbox:          2.38::gentoo
sys-devel/binutils:        2.42-r1::gentoo
sys-devel/binutils-config: 5.5::gentoo
sys-devel/gcc:             14.0.1_pre20240324::gentoo
sys-devel/gcc-config:      2.11::gentoo
sys-kernel/linux-headers:  6.7::gentoo (virtual/os-headers)
sys-libs/glibc:            2.39-r2::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    volatile: True
    sync-rsync-verify-max-age: 3
    sync-rsync-verify-metamanifest: yes
    sync-rsync-extra-opts: 
    sync-rsync-verify-jobs: 1

Binary Repositories:

gentoobinhost
    priority: 1
    sync-uri: https://gentoo.osuosl.org/releases/x86/binpackages/17.0/i686

ACCEPT_KEYWORDS="x86 ~x86"
ACCEPT_LICENSE="* MIT"
CBUILD="i686-pc-linux-gnu"
CFLAGS="-O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
CHOST="i686-pc-linux-gnu"
CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt"
CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo"
CXXFLAGS="-O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
DISTDIR="/var/tmp/portage/sci-biology/pysam-0.21.0/distdir"
EMERGE_DEFAULT_OPTS="--complete-graph y --with-bdeps=y -1 -k -b --backtrack=100"
ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR XDG_STATE_HOME"
FCFLAGS="-O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync merge-wait network-sandbox news parallel-fetch pid-sandbox pkgdir-index-trusted preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms sign split-log strict unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr"
FFLAGS="-O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo/ http://ftp.belnet.be/pub/rsync.gentoo.org/gentoo/ http://distfiles.gentoo.org"
LANG="C.UTF8"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0"
LEX="flex"
MAKEOPTS="-j16"
PKGDIR="/root/tbci/binpkg"
PORTAGE_CONFIGROOT="/"
PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git"
PORTAGE_TMPDIR="/var/tmp"
SHELL="/bin/bash"
USE="acl bzip2 cli crypt debug dri elogind fortran gdbm iconv ipv6 jumbo-build libtirpc native-symlinks ncurses nls openmp pam pcre readline seccomp split-usr ssl test-rust unicode x86 xattr zlib" ABI_X86="32" ELIBC="glibc" KERNEL="linux" PYTHON_TARGETS="python3_10 python3_11"
Unset:  ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CC, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXX, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, INSTALL_MASK, LC_ALL, LD, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, PYTHONPATH, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS





##############################
# emerge history (qlop -mv): #
##############################
2024-03-26T08:12:35 >>> sci-libs/htslib-1.17




#######################################
# installed packages (qlist -ICvUSS): #
#######################################
acct-group/audio-0-r3:0
acct-group/cdrom-0-r3:0
acct-group/dialout-0-r3:0
acct-group/disk-0-r3:0
acct-group/floppy-0-r1:0
acct-group/input-0-r3:0
acct-group/kmem-0-r3:0
acct-group/kvm-0-r3:0
acct-group/lp-0-r3:0
acct-group/man-0-r3:0
acct-group/messagebus-0-r3:0
acct-group/polkitd-0-r3:0
acct-group/portage-0-r2:0
acct-group/render-0-r3:0
acct-group/root-0-r2:0
acct-group/sgx-0-r2:0
acct-group/sshd-0-r3:0
acct-group/tape-0-r3:0
acct-group/tty-0-r3:0
acct-group/usb-0-r3:0
acct-group/video-0-r3:0
acct-user/man-1-r3:0
acct-user/messagebus-0-r3:0
acct-user/polkitd-0-r3:0
acct-user/portage-0-r3:0
acct-user/sshd-0-r3:0
app-admin/eselect-1.4.27-r1:0 -doc -emacs -vim-syntax
app-admin/perl-cleaner-2.31:0 -pkgcore
app-alternatives/awk-4:0 -busybox gawk -mawk -nawk split-usr
app-alternatives/bc-0:0 -gh gnu
app-alternatives/bzip2-1:0 -lbzip2 -pbzip2 reference split-usr
app-alternatives/cpio-0:0 gnu -libarchive split-usr
app-alternatives/gzip-1:0 -pigz reference split-usr
app-alternatives/lex-0-r1:0 flex -reflex
app-alternatives/ninja-1:0 reference -samurai
app-alternatives/sh-0:0 bash -busybox -dash -ksh -lksh -mksh
app-alternatives/tar-0:0 gnu -libarchive split-usr
app-alternatives/yacc-1-r2:0 bison -byacc -reference
app-arch/bzip2-1.0.8-r5:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static -static-libs -verify-sig
app-arch/cpio-2.15:0 nls
app-arch/gzip-1.13:0 -pic -static -verify-sig
app-arch/libarchive-3.7.2-r2:0/13 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 acl -blake2 bzip2 e2fsprogs -expat iconv -lz4 lzma -lzo -nettle -static-libs -test -verify-sig xattr -zstd
app-arch/tar-1.35:0 acl -minimal nls -selinux -verify-sig xattr
app-arch/unzip-6.0_p27-r1:0 bzip2 -natspec unicode
app-arch/xz-utils-5.6.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -cpu_flags_arm_crc32 -doc extra-filters nls -pgo -static-libs -verify-sig
app-arch/zstd-1.5.5-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -lz4 lzma -static-libs -test zlib
app-crypt/gnupg-2.4.5:0 bzip2 -doc -ldap nls readline -selinux smartcard ssl -test tofu -tools -tpm -usb -user-socket -verify-sig -wks-server
app-crypt/gpgme-1.23.2:1/11.6.15.2 -common-lisp cxx debug -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -qt5 -qt6 -static-libs -test -verify-sig
app-crypt/libb2-0.98.1-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -native-cflags openmp -static-libs
app-crypt/libmd-1.1.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
app-crypt/pinentry-1.3.0-r2:0 -X -caps -efl -emacs -gtk -keyring ncurses -qt5 -qt6 -verify-sig -wayland
app-crypt/rhash-1.4.4-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug nls ssl -static-libs
app-editors/nano-7.2-r1:0 -debug -justify -magic -minimal ncurses nls spell -static unicode
app-eselect/eselect-fontconfig-20220403:0
app-eselect/eselect-iptables-20220320:0
app-eselect/eselect-lib-bin-symlink-0.1.1-r1:0
app-eselect/eselect-pinentry-0.7.4:0
app-i18n/man-pages-ja-20180315-r1:0
app-i18n/man-pages-l10n-4.19.0:0 l10n_cs l10n_da l10n_de l10n_el l10n_es l10n_fi l10n_fr l10n_hu l10n_id l10n_it l10n_mk l10n_nb l10n_nl l10n_pl l10n_pt-BR l10n_ro l10n_ru l10n_sr l10n_sv l10n_uk l10n_vi
app-i18n/man-pages-zh_CN-1.6.4.0:0
app-misc/ca-certificates-20240203.3.98:0 -cacert
app-misc/editor-wrapper-4-r1:0
app-misc/mime-types-2.1.54:0 -nginx
app-misc/pax-utils-1.3.7:0 -caps -man -python -python_single_target_python3_10 python_single_target_python3_11 -seccomp -test
app-misc/tmux-3.4:0 debug -selinux -systemd -utempter -vim-syntax
app-portage/eix-0.36.7-r1:0 debug -doc nls -sqlite
app-portage/elt-patches-20240324:0
app-portage/gemato-20.5:0 gpg -pretty-log python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test -tools
app-portage/gentoolkit-0.6.5:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
app-portage/getuto-1.11:0 -test
app-portage/portage-utils-0.96.1:0 openmp qmanifest qtegrity -static
app-shells/bash-5.2_p26:0 -afs -bashlogger -examples -mem-scramble net nls -pgo -plugins readline -verify-sig
app-shells/bash-completion-2.11:0 eselect -test
app-shells/gentoo-bashcomp-20230313:0
app-shells/push-3.4:0
app-shells/quoter-4.2:0
app-text/ansifilter-2.20:0 -gui -verify-sig
app-text/asciidoc-10.2.0:0 -python_single_target_pypy3 -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12
app-text/build-docbook-catalog-2.4:0
app-text/docbook-xml-dtd-4.5-r2:4.5
app-text/docbook-xml-dtd-4.4-r3:4.4
app-text/docbook-xml-dtd-4.2-r3:4.2
app-text/docbook-xml-dtd-4.1.2-r7:4.1.2
app-text/docbook-xsl-ns-stylesheets-1.79.1:0 -ruby
app-text/docbook-xsl-stylesheets-1.79.1-r4:0 -ruby
app-text/manpager-1:0
app-text/opensp-1.5.2-r10:0 -doc nls -static-libs -test
app-text/po4a-0.71:0 -test -test
app-text/sgml-common-0.6.3-r7:0
app-text/xmlto-0.0.28-r11:0 -latex text
dev-build/autoconf-2.72-r1:2.72 -emacs -verify-sig
dev-build/autoconf-archive-2023.02.20:0
dev-build/autoconf-wrapper-20231224:0
dev-build/automake-1.16.5-r2:1.16 -test
dev-build/automake-wrapper-20221207:0
dev-build/cmake-3.29.0:0 -dap -doc -gui ncurses -qt6 -test -test -verify-sig
dev-build/gtk-doc-am-1.33.2:0
dev-build/libtool-2.4.7-r3:2 -vanilla
dev-build/make-4.4.1-r1:0 -doc -guile nls -static -test -verify-sig
dev-build/meson-1.4.0-r1:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test -verify-sig
dev-build/meson-format-array-0:0 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
dev-build/ninja-1.11.1-r5:0 -doc -test
dev-db/sqlite-3.45.2:3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug -doc -icu readline -secure-delete -static-libs -tcl -test -tools
dev-lang/duktape-2.7.0-r3:0/2.7.0
dev-lang/perl-5.38.2-r2:0/5.38 -berkdb debug -doc gdbm ithreads -minimal -quadmath
dev-lang/python-3.12.2_p1:3.12 -bluetooth -build debug ensurepip -examples gdbm -libedit ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig
dev-lang/python-3.11.8_p1:3.11 -bluetooth -build debug ensurepip -examples gdbm -libedit ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig
dev-lang/python-3.10.14:3.10 -bluetooth -build debug ensurepip -examples gdbm -libedit ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig
dev-lang/python-exec-2.4.10:2 native-symlinks python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-lang/python-exec-conf-2.4.6:2 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
dev-lang/tcl-8.6.14:0/8.6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug threads
dev-libs/boehm-gc-8.2.6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -cxx large -static-libs threads
dev-libs/elfutils-0.191:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 bzip2 -debuginfod -lzma nls -static-libs -test utils -verify-sig -zstd
dev-libs/expat-2.6.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -examples -static-libs -test unicode
dev-libs/glib-2.78.4-r1:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -dbus debug elf -gtk-doc mime -selinux -static-libs -sysprof -systemtap -test -utils xattr
dev-libs/gmp-6.3.0-r1:0/10.4 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 asm cpudetection cxx -doc -pic -static-libs
dev-libs/gobject-introspection-1.78.1:0 -doctool -gtk-doc -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 -test
dev-libs/gobject-introspection-common-1.78.1:0
dev-libs/isl-0.26:0/23 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs
dev-libs/jsoncpp-1.9.5:0/25 -doc -test
dev-libs/libassuan-2.5.7:0 -verify-sig
dev-libs/libatomic_ops-7.8.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
dev-libs/libbsd-0.11.8:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs -verify-sig
dev-libs/libevent-2.1.12-r1:0/2.1-7 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 clock-gettime debug -malloc-replacement ssl -static-libs -test -verbose-debug -verify-sig
dev-libs/libffi-3.4.6:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug -exec-static-trampoline -pax-kernel -static-libs -test
dev-libs/libgcrypt-1.10.3-r2:0/20 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 asm -cpu_flags_arm_aes -cpu_flags_arm_neon -cpu_flags_arm_sha1 -cpu_flags_arm_sha2 -cpu_flags_ppc_altivec -cpu_flags_ppc_vsx2 -cpu_flags_ppc_vsx3 cpu_flags_x86_aes cpu_flags_x86_avx cpu_flags_x86_avx2 -cpu_flags_x86_padlock -cpu_flags_x86_sha cpu_flags_x86_sse4_1 -doc getentropy -static-libs -verify-sig
dev-libs/libgpg-error-1.48:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -common-lisp nls -static-libs -test -verify-sig
dev-libs/libksba-1.6.6:0 -static-libs -verify-sig
dev-libs/libpcre2-10.43:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 bzip2 jit -libedit pcre16 pcre32 readline -static-libs unicode -valgrind -verify-sig zlib
dev-libs/libpipeline-1.5.7:0 -test
dev-libs/libtasn1-4.19.0:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs -test -verify-sig
dev-libs/libunistring-1.2:0/5 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc -static-libs
dev-libs/libuv-1.48.0:0/1 -verify-sig
dev-libs/libxml2-2.12.6:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -debug -examples ftp -icu -lzma python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 readline -static-libs -test
dev-libs/libxslt-1.1.39:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 crypt debug -examples -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -static-libs
dev-libs/lzo-2.10:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -examples split-usr -static-libs
dev-libs/mpc-1.3.1:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs
dev-libs/mpfr-4.2.1:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs -verify-sig
dev-libs/nettle-3.9.1:0/8-6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 asm -cpu_flags_arm_aes -cpu_flags_arm_neon -cpu_flags_arm_sha1 -cpu_flags_arm_sha2 -cpu_flags_ppc_altivec -cpu_flags_ppc_vsx2 -cpu_flags_ppc_vsx3 cpu_flags_x86_aes cpu_flags_x86_pclmul -cpu_flags_x86_sha -doc gmp -static-libs -verify-sig
dev-libs/npth-1.7-r1:0 -test
dev-libs/openssl-3.2.1-r1:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 asm cpu_flags_x86_sse2 -fips -ktls -rfc3779 -sctp -static-libs -test -tls-compression -vanilla -verify-sig -verify-sig -weak-ssl-ciphers
dev-libs/popt-1.19-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 nls -static-libs
dev-perl/Encode-EUCJPASCII-0.30.0-r1:0 -test
dev-perl/Encode-HanExtra-0.230.0-r3:0
dev-perl/Encode-Locale-1.50.0-r1:0 -test
dev-perl/ExtUtils-CChecker-0.110.0:0 -test
dev-perl/File-BaseDir-0.90.0:0 -test
dev-perl/File-DesktopEntry-0.220.0-r1:0 -test
dev-perl/File-MimeInfo-0.330.0:0 -test
dev-perl/IO-Socket-SSL-2.85.0:0 -examples -idn -test
dev-perl/IPC-System-Simple-1.300.0:0 -test
dev-perl/Locale-gettext-1.70.0-r1:0 -test
dev-perl/MIME-Charset-1.13.1:0 l10n_ja l10n_zh -test
dev-perl/Module-Build-0.423.400:0 -test
dev-perl/Mozilla-CA-20999999-r1:0 -test
dev-perl/Net-SSLeay-1.940.0:0 -examples -examples -minimal -test
dev-perl/Pod-Parser-1.660.0:0 -test
dev-perl/Regexp-IPv6-0.30.0-r2:0 -test
dev-perl/SGMLSpm-1.1-r2:0 -test
dev-perl/Syntax-Keyword-Try-0.290.0:0 -test
dev-perl/TermReadKey-2.380.0-r1:0 -examples -test
dev-perl/Text-CharWidth-0.40.0-r2:0 -test
dev-perl/Text-WrapI18N-0.60.0-r2:0 -test
dev-perl/Unicode-LineBreak-2019.1.0:0
dev-perl/URI-5.210.0:0 -test
dev-perl/XS-Parse-Keyword-0.380.0:0 -test
dev-perl/YAML-Tiny-1.740.0:0 -minimal -test
dev-python/certifi-3021.3.16-r4:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/charset-normalizer-3.3.2:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/cython-3.0.9:0 debug -doc python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/editables-0.5:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/ensurepip-pip-24.0:0
dev-python/ensurepip-setuptools-69.2.0:0
dev-python/ensurepip-wheels-100:0
dev-python/flit-core-3.9.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/gentoo-common-1:0
dev-python/gpep517-15:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/hatchling-1.22.4:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/idna-3.6:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/installer-0.7.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/jaraco-context-4.3.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/jaraco-functools-4.0.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/jaraco-text-3.12.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/jinja-3.1.3:0 -doc -examples python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/lxml-5.1.0:0 debug -doc -examples python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test threads
dev-python/markupsafe-2.1.5:0 debug python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/more-itertools-10.2.0:0 -doc python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/nspektr-0.5.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/ordered-set-4.1.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/packaging-24.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/pathspec-0.12.1:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/platformdirs-4.2.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/pluggy-1.4.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/pypy3-7.3.15:0/pypy310-pp73-384 gdbm ncurses sqlite -tk
dev-python/pypy3_10-7.3.15:0/pypy310-pp73-384 ensurepip gdbm jit ncurses sqlite -tk
dev-python/pypy3_10-exe-bin-7.3.15:7.3.15
dev-python/PySocks-1.7.1-r2:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
dev-python/requests-2.31.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -socks5 -test test-rust
dev-python/setuptools-69.2.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/setuptools-scm-8.0.4:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/tomli-2.0.1-r1:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/trove-classifiers-2024.3.25:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/typing-extensions-4.10.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-python/urllib3-2.2.1:0 -brotli -http2 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test -zstd
dev-python/wheel-0.43.0:0 python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 -test
dev-util/checkbashisms-2.23.5:0
dev-util/desktop-file-utils-0.27-r1:0
dev-util/glib-utils-2.78.4:0 -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12
dev-util/gperf-3.1-r2:0
dev-util/pkgconf-2.1.1:0/4 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 native-symlinks -test
dev-util/re2c-3.1:0 debug -test
dev-vcs/git-2.44.0:0 blksha1 -cgi curl -cvs -doc gpg -highlight iconv -keyring -mediawiki nls pcre -perforce -perl -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 safe-directory -selinux -subversion -test -tk webdav -xinetd
media-fonts/liberation-fonts-2.1.5:0 -X -X -fontforge
media-gfx/graphite2-1.3.14_p20210810-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -perl -test
media-libs/fontconfig-2.15.0:1.0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc nls -test
media-libs/freetype-2.13.2:2 -X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 adobe-cff -brotli bzip2 cleartype-hinting debug -doc -fontforge harfbuzz png -static-libs -svg -utils
media-libs/harfbuzz-8.3.1:0/6.0.0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 cairo debug -doc -experimental glib graphite -icu introspection -test truetype
media-libs/libpng-1.6.43:0/16 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -apng -cpu_flags_arm_neon cpu_flags_x86_sse -static-libs -test
net-dns/c-ares-1.27.0:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs -test -verify-sig
net-dns/libidn2-2.3.7:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 nls -static-libs -verify-sig
net-firewall/iptables-1.8.10-r1:0/1.8.3 -conntrack -netlink -nftables -pcap -static-libs -test
net-libs/gnutls-3.8.3:0/30.30 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -brotli cxx -dane -doc -examples idn nls openssl -pkcs11 seccomp -sslv2 -sslv3 -static-libs -test -test-full tls-heartbeat -tools -verify-sig zlib -zstd
net-libs/libmnl-1.0.5:0/0.2.0 -examples -verify-sig
net-libs/libnsl-2.0.1:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs
net-libs/libpsl-0.21.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -icu idn -test
net-libs/libtirpc-1.3.4-r2:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -kerberos -static-libs
net-libs/nghttp2-1.60.0:0/1.14 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug -hpack-tools -jemalloc -static-libs -systemd -test -utils -xml
net-misc/curl-8.6.0-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 adns alt-svc -brotli -curl_ssl_gnutls -curl_ssl_mbedtls curl_ssl_openssl -curl_ssl_rustls ftp -gnutls -gopher hsts http2 -idn imap -kerberos -ldap -mbedtls -nghttp3 openssl pop3 progress-meter psl -rtmp -rustls -samba smtp -ssh ssl -sslv3 -static-libs -telnet -test tftp -verify-sig -websockets -zstd
net-misc/dhcpcd-10.0.6-r2:0 debug embedded ipv6 -privsep udev
net-misc/iputils-20240117:0 arping -caps -clockdiff -doc filecaps -idn nls -test -tracepath
net-misc/netifrc-0.7.8:0 dhcp
net-misc/openssh-9.7_p1-r2:0 -abi_mips_n32 -audit -debug -kerberos -ldns -libedit -livecd pam -pie -security-key -selinux ssl -static -test -verify-sig -xmss
net-misc/rsync-3.2.7-r4:0 acl -examples iconv -lz4 -python_single_target_python3_10 python_single_target_python3_11 -rrsync ssl -stunnel -system-zlib -verify-sig xattr -xxhash -zstd
net-misc/wget-1.21.4:0 -cookie-check debug -gnutls -idn ipv6 -metalink nls -ntlm pcre ssl -static -test -uuid -verify-sig zlib
perl-core/File-Temp-0.231.100:0
perl-core/Math-BigInt-1.999.842:0 -examples -test
sci-libs/htslib-1.17:0/3 bzip2 -curl lzma
sec-keys/openpgp-keys-gentoo-release-20230329:0 -test
sys-apps/acl-2.3.2-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 nls -static-libs
sys-apps/attr-2.5.2-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug nls -static-libs
sys-apps/baselayout-2.15:0 -build split-usr
sys-apps/coreutils-9.4-r1:0 acl -caps -gmp -hostname -kill -multicall nls openssl -selinux split-usr -static -test -vanilla -verify-sig xattr
sys-apps/dbus-1.15.8:0 -X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug -doc elogind -selinux -static-libs -systemd -test -test -valgrind
sys-apps/diffutils-3.10:0 nls -verify-sig
sys-apps/file-5.45-r4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 bzip2 -lzip -lzma -python python_targets_python3_10 python_targets_python3_11 -seccomp -static-libs -verify-sig zlib -zstd
sys-apps/findutils-4.9.0-r2:0 nls -selinux -static -test -verify-sig
sys-apps/gawk-5.3.0-r1:0 -mpfr nls -pma readline -verify-sig
sys-apps/gentoo-functions-0.19:0
sys-apps/grep-3.11:0 egrep-fgrep nls pcre -static -verify-sig
sys-apps/groff-1.23.0:0 -X -examples -uchardet
sys-apps/help2man-1.49.3:0 nls
sys-apps/install-xattr-0.8-r1:0
sys-apps/iproute2-6.6.0-r3:0 -atm -berkdb -bpf -caps -elf iptables -minimal -nfs -selinux
sys-apps/kbd-2.6.4:0 nls pam -selinux -test
sys-apps/kmod-32-r1:0 debug -doc lzma -pkcs7 split-usr -static-libs tools zlib zstd
sys-apps/less-643-r1:0 pcre -test
sys-apps/locale-gen-2.23-r1:0
sys-apps/man-db-2.12.0:0 manpager nls seccomp -selinux -static-libs zlib
sys-apps/man-pages-6.06:0 l10n_cs l10n_da l10n_de l10n_el l10n_es l10n_fi l10n_fr l10n_hu l10n_id l10n_it l10n_ja l10n_mk l10n_nb l10n_nl l10n_pl l10n_pt-BR l10n_ro l10n_ru l10n_sr l10n_sv l10n_uk l10n_vi l10n_zh-CN -verify-sig
sys-apps/miscfiles-1.5-r4:0 -minimal
sys-apps/net-tools-2.10:0 arp hostname ipv6 -nis nls -plipconfig -selinux -slattach -static
sys-apps/openrc-0.53.1:0 -audit -bash debug ncurses netifrc -newnet pam -s6 -selinux -sysv-utils sysvinit unicode
sys-apps/portage-3.0.63:0 -apidoc -build -doc -gentoo-dev ipc native-extensions python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 rsync-verify -selinux -test xattr
sys-apps/sandbox-2.38:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 nnp
sys-apps/sed-4.9:0 acl nls -selinux -static -verify-sig
sys-apps/shadow-4.14.6:0/4 acl -audit -cracklib nls pam -selinux -skey split-usr -su -systemd -verify-sig xattr
sys-apps/systemd-utils-254.10:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 acl -boot -kernel-install kmod -python_single_target_python3_10 python_single_target_python3_11 -python_single_target_python3_12 -secureboot -selinux split-usr -sysusers -test tmpfiles udev -ukify
sys-apps/sysvinit-3.08:0 -ibm nls -selinux -static -verify-sig
sys-apps/texinfo-7.1-r1:0 nls standalone -static
sys-apps/util-linux-2.39.3-r5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -audit -build -caps cramfs -cryptsetup -fdformat hardlink -kill logger -magic ncurses nls pam -python python_targets_python3_10 python_targets_python3_11 python_targets_python3_12 readline -rtas -selinux -slang -static-libs su suid -systemd -test -tty-helpers -udev unicode -verify-sig
sys-apps/which-2.21:0
sys-auth/elogind-252.9:0 acl -audit cgroup-hybrid debug -doc pam policykit -selinux -test
sys-auth/pambase-20240128:0 -caps -debug elogind -gnome-keyring -homed -minimal -mktemp nullok -pam_krb5 -pam_ssh passwdqc -pwhistory -pwquality -securetty -selinux sha512 -sssd -systemd -yescrypt
sys-auth/passwdqc-2.0.3-r1:0
sys-auth/polkit-124-r1:0 daemon duktape -examples -gtk introspection -kde pam -selinux -systemd -test
sys-devel/bc-1.07.1-r6:0 -libedit readline -static
sys-devel/binutils-2.42-r1:2.42 -cet -debuginfod -doc -gold -gprofng -hardened -multitarget nls -pgo plugins -static-libs -test -vanilla -zstd
sys-devel/binutils-config-5.5:0 native-symlinks
sys-devel/bison-3.8.2-r2:0 -examples nls -static -test -verify-sig
sys-devel/flex-2.6.4-r6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 nls -static -test
sys-devel/gcc-14.0.1_pre20240324:14 -ada -cet -custom-cflags cxx -d -debug -default-stack-clash-protection -default-znow -doc -fixed-point fortran -go graphite -hardened -ieee-long-double -jit -libssp lto -modula2 -multilib nls -objc -objc++ -objc-gc openmp -pch -pgo pie -rust sanitize ssp -systemtap -test -valgrind -vanilla -vtv -zstd
sys-devel/gcc-config-2.11:0 cc-wrappers native-symlinks
sys-devel/gettext-0.22.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 acl cxx -doc -emacs -git -java -java ncurses nls openmp -static-libs -verify-sig xattr
sys-devel/gnuconfig-20230731:0
sys-devel/m4-1.4.19-r2:0 -examples nls -verify-sig
sys-devel/patch-2.7.6-r5:0 -static -test -verify-sig xattr
sys-fs/e2fsprogs-1.47.0-r3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -cron -fuse nls -static-libs -test tools
sys-fs/udev-init-scripts-35:0
sys-kernel/dracut-060_pre20240104-r4:0 -selinux -test
sys-kernel/gentoo-kernel-bin-6.1.82:6.1.82 initramfs -test
sys-kernel/installkernel-33:0 dracut -efistub -grub -refind -systemd -systemd-boot -uki -ukify
sys-kernel/linux-headers-6.7:0 -headers-only
sys-libs/gdbm-1.23:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 berkdb nls readline -static-libs -test -verify-sig
sys-libs/glibc-2.39-r2:2.2 -audit -caps -cet -compile-locales -custom-cflags -doc -gd -hash-sysv-compat -headers-only multiarch -multilib -multilib-bootstrap -nscd -perl -profile -selinux ssp -stack-realign static-libs -suid -systemd -systemtap -test -vanilla
sys-libs/libcap-2.69-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 pam -static-libs -tools
sys-libs/libseccomp-2.5.5-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 debug -experimental-loong -python python_targets_python3_10 python_targets_python3_11 -static-libs -test
sys-libs/libxcrypt-4.4.36-r3:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 compat -headers-only -static-libs system -test
sys-libs/ncurses-6.4_p20230401:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -ada cxx debug -doc -gpm -minimal -profile split-usr -split-usr stack-realign -static-libs -test tinfo -trace -verify-sig
sys-libs/pam-1.5.3-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -audit -berkdb -debug filecaps -nis -selinux
sys-libs/readline-8.2_p10:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs unicode -utils -verify-sig
sys-libs/timezone-data-2024a-r1:0 -leaps-timezone nls -zic-slim
sys-libs/zlib-1.3.1-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 minizip -static-libs -verify-sig
sys-process/procps-4.0.4-r1:0/0-ng -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 elogind kill -modern-top ncurses nls -selinux -static-libs -systemd -test unicode
sys-process/psmisc-23.7:0 -X -apparmor nls -selinux -test
virtual/acl-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs
virtual/dev-manager-0-r2:0
virtual/dist-kernel-6.1.82:0/6.1.82
virtual/editor-0-r7:0
virtual/libc-1-r1:0
virtual/libcrypt-2-r1:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -static-libs
virtual/libelf-3-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
virtual/libiconv-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
virtual/libintl-0-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
virtual/libudev-251-r2:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -systemd
virtual/man-0-r4:0
virtual/openssh-0:0 ssl
virtual/os-headers-0-r2:0
virtual/package-manager-1:0
virtual/pager-0-r1:0
virtual/perl-bignum-0.660.0:0
virtual/perl-Carp-1.540.0:0
virtual/perl-CPAN-2.360.0:0
virtual/perl-CPAN-Meta-2.150.10-r7:0
virtual/perl-CPAN-Meta-YAML-0.18.0-r9:0
virtual/perl-Data-Dumper-2.188.0:0
virtual/perl-Encode-3.190.0:0
virtual/perl-Exporter-5.770.0-r1:0
virtual/perl-ExtUtils-CBuilder-0.280.238:0
virtual/perl-ExtUtils-Install-2.220.0:0
virtual/perl-ExtUtils-MakeMaker-7.700.0:0
virtual/perl-ExtUtils-Manifest-1.730.0-r2:0
virtual/perl-ExtUtils-ParseXS-3.510.0:0
virtual/perl-File-Path-2.180.0-r2:0
virtual/perl-File-Spec-3.880.0:0
virtual/perl-File-Temp-0.231.100:0
virtual/perl-Getopt-Long-2.540.0:0
virtual/perl-JSON-PP-4.160.0-r1:0
virtual/perl-libnet-3.150.0:0 ssl
virtual/perl-Math-BigInt-1.999.842:0
virtual/perl-Math-BigInt-FastCalc-0.501.300:0
virtual/perl-Math-BigRat-0.262.400:0
virtual/perl-Math-Complex-1.620.0:0
virtual/perl-MIME-Base64-3.160.100_rc:0
virtual/perl-Module-Metadata-1.0.37-r3:0
virtual/perl-parent-0.241.0:0
virtual/perl-Parse-CPAN-Meta-2.150.10-r7:0
virtual/perl-Perl-OSType-1.10.0-r7:0
virtual/perl-podlators-5.10.0:0
virtual/perl-Scalar-List-Utils-1.630.0:0
virtual/perl-Test-Harness-3.440.0-r1:0
virtual/perl-Text-ParseWords-3.310.0-r1:0
virtual/perl-Unicode-Collate-1.310.0-r1:0
virtual/perl-version-0.992.900-r1:0
virtual/pkgconfig-3:0 native-symlinks
virtual/service-manager-1-r1:0
virtual/ssh-0-r2:0 -minimal
virtual/tmpfiles-0-r5:0 -systemd
virtual/ttf-fonts-1-r2:0
virtual/udev-217-r7:0 -systemd
virtual/w3m-1:0
www-client/pybugz-0.14:0 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
www-client/w3m-0.5.3_p20230121:0 -X -fbcon -gdk-pixbuf -gpm -imlib l10n_ja -lynxkeymap nls -nntp ssl unicode -xface
x11-base/xcb-proto-1.16.0:0 python_targets_python3_10 python_targets_python3_11 python_targets_python3_12
x11-base/xorg-proto-2023.2:0 -test
x11-libs/cairo-1.18.0:0 X -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -aqua -debug glib -gtk-doc -test
x11-libs/libX11-1.8.8:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc -test
x11-libs/libXau-1.0.11:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc
x11-libs/libxcb-1.16.1:0/1.12 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc -doc -selinux -test xkb
x11-libs/libXdmcp-1.1.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc
x11-libs/libXext-1.3.6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -doc
x11-libs/libXrender-0.9.11:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32
x11-libs/pixman-0.43.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 -abi_x86_64 -abi_x86_x32 -cpu_flags_arm_iwmmxt -cpu_flags_arm_iwmmxt2 -cpu_flags_arm_neon -cpu_flags_ppc_altivec cpu_flags_x86_mmxext cpu_flags_x86_sse2 cpu_flags_x86_ssse3 -loongson2f -static-libs -test
x11-libs/xtrans-1.5.0:0 -doc
x11-misc/compose-tables-1.8.8:0
x11-misc/shared-mime-info-2.4-r1:0 -test
x11-misc/xdg-utils-1.2.1-r1:0 -X -dbus -doc -gnome


#############
# build.log #
#############


>>> Unpacking source...
>>> Unpacking pysam-0.21.0.gh.tar.gz to /var/tmp/portage/sci-biology/pysam-0.21.0/work
>>> Source unpacked in /var/tmp/portage/sci-biology/pysam-0.21.0/work
>>> Preparing source in /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0 ...
 * Applying pysam-0.21.0-cython-3.patch ...
 [ ok ]
 * Will copy sources from /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0
 * python3_10: copying to /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10
 * python3_11: copying to /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11
 * Build system packages:
 *   dev-python/setuptools         : 69.2.0
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0 ...
 * python3_10: running distutils-r1_run_phase python_compile
python3.10 setup.py build_ext --inplace -j1
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running build_ext
Compiling pysam/libchtslib.pyx because it changed.
[1/1] Cythonizing pysam/libchtslib.pyx
building 'pysam.libchtslib' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/htslib_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libchtslib.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/htslib_util.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libchtslib.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libchtslib.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension
Compiling pysam/libcsamtools.pyx because it changed.
[1/1] Cythonizing pysam/libcsamtools.pyx
building 'pysam.libcsamtools' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/lz4
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcsamtools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/amplicon_stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam2depth.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_addrprg.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_ampliconclip.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_aux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_cat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_color.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_fastq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_flags.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_import.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_index.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_lpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_markdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_mate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_md.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_plbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_plcmd.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_quickcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_rmdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_rmdupse.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_samples.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_sort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_split.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_stat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bamshuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bamtk.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bedcov.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bedidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/consensus_pileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/coverage.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/cram_size.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
samtools/cram_size.c.pysam.c: In function ‘cram_size’:
samtools/cram_size.c.pysam.c:563:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  563 |     fprintf(outfp, "Total file size       %18"PRId64"\n", end);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~
      |                                                           |
      |                                                           off_t {aka long int}
In file included from /usr/include/htslib/hts.h:33,
                 from /usr/include/htslib/sam.h:33,
                 from samtools/cram_size.c.pysam.c:39:
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
samtools/cram_size.c.pysam.c:564:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  564 |     fprintf(outfp, "Format overhead size  %18"PRId64"\n", end - tot_size);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~~~~~~~~~~~~
      |                                                               |
      |                                                               off_t {aka long int}
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/cut_target.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/dict.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/faidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/lz4/lz4.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/padding.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/phase.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/reference.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/reset.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_opts.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_utils.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_view.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/samtools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/stats_isize.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/tmp_file.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamtools.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/amplicon_stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam2depth.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_addrprg.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_ampliconclip.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_aux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_cat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_color.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_fastq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_flags.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_import.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_index.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_lpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_markdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_mate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_md.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plcmd.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_quickcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdupse.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_samples.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_sort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_split.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_stat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamshuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamtk.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedcov.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/consensus_pileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/coverage.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cram_size.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cut_target.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/dict.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/faidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/lz4/lz4.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/padding.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/phase.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reference.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reset.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_opts.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_utils.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_view.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/samtools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats_isize.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/tmp_file.c.pysam.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcsamtools.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbcftools.pyx because it changed.
[1/1] Cythonizing pysam/libcbcftools.pyx
building 'pysam.libcbcftools' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/HMM.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/abuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf_iaux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf_indel.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam_sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bcftools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/ccall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/cols.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/convert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/csq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/dist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/em.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/extsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/filter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/gvcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/hclust.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/kmin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/main.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/mcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/mpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/ploidy.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/prob1.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/read_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/regidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/smpl_ilist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/str_finder.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/tabix.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/tsv2vcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfannotate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfcnv.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfconcat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfconvert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcffilter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfgtcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfhead.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfindex.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfisec.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfmerge.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfnorm.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfplugin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfquery.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfroh.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfsom.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfstats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfview.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcmp.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/version.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbcftools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/HMM.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/abuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_iaux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_indel.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam_sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bcftools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ccall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/cols.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/convert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/csq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/dist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/em.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/extsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/filter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/gvcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/hclust.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/kmin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/main.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ploidy.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/prob1.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/read_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/regidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/smpl_ilist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/str_finder.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tabix.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tsv2vcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfannotate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcnv.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconcat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconvert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcffilter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfgtcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfhead.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfindex.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfisec.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfmerge.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfnorm.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfplugin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfquery.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfroh.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsom.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfstats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfview.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcmp.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/version.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcftools.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcbcftools.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcutils.pyx because it changed.
[1/1] Cythonizing pysam/libcutils.pyx
building 'pysam.libcutils' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcutils.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/pysam_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcutils.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/pysam_util.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcsamtools.cpython-310-i386-linux-gnu -lcbcftools.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcutils.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
warning: pysam/libcalignmentfile.pyx:2572:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2577:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2582:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2621:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2626:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2631:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
Compiling pysam/libcalignmentfile.pyx because it changed.
[1/1] Cythonizing pysam/libcalignmentfile.pyx
building 'pysam.libcalignmentfile' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcalignmentfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’:
pysam/libcalignmentfile.c:20465:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
20465 |             (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr));
      |                   ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’:
pysam/libcalignmentfile.c:37142:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
37142 |         (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0));
      |               ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignmentfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcalignmentfile.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcsamfile.pyx because it changed.
[1/1] Cythonizing pysam/libcsamfile.pyx
building 'pysam.libcsamfile' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcsamfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcsamfile.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcalignedsegment.pyx because it changed.
[1/1] Cythonizing pysam/libcalignedsegment.pyx
building 'pysam.libcalignedsegment' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcalignedsegment.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignedsegment.c: In function ‘__pyx_pf_5pysam_18libcalignedsegment_14AlignedSegment_18fromstring’:
pysam/libcalignedsegment.c:35708:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
35708 |   (void)(sam_parse1((&__pyx_v_line), __pyx_v_dest->header->ptr, __pyx_v_dest->_delegate));
      |         ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignedsegment.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcalignedsegment.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libctabix.pyx because it changed.
[1/1] Cythonizing pysam/libctabix.pyx
building 'pysam.libctabix' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libctabix.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabix.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libctabix.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcfaidx.pyx because it changed.
[1/1] Cythonizing pysam/libcfaidx.pyx
building 'pysam.libcfaidx' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcfaidx.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcfaidx.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcfaidx.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbcf.pyx because it changed.
[1/1] Cythonizing pysam/libcbcf.pyx
building 'pysam.libcbcf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’:
pysam/libcbcf.c:85868:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
85868 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’:
pysam/libcbcf.c:80546:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80546 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_13VariantHeader_20add_meta’:
pysam/libcbcf.c:44264:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44264 |           bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18));
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c:44290:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44290 |           bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted);
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_4__dealloc__’:
pysam/libcbcf.c:80241:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80241 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcbcf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbgzf.pyx because it changed.
[1/1] Cythonizing pysam/libcbgzf.pyx
building 'pysam.libcbgzf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbgzf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbgzf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcbgzf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libctabixproxies.pyx because it changed.
[1/1] Cythonizing pysam/libctabixproxies.pyx
building 'pysam.libctabixproxies' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libctabixproxies.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabixproxies.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libctabixproxies.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
warning: pysam/libcvcf.pyx:1083:27: Unreachable code
Compiling pysam/libcvcf.pyx because it changed.
[1/1] Cythonizing pysam/libcvcf.pyx
building 'pysam.libcvcf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcvcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcvcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam/libcvcf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
python3.10 setup.py build -j 1 -j1
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running build
running build_py
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/config.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/version.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/utils.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/samtools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/bcftools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/Pileup.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include
copying pysam/include/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include
package init file 'samtools/__init__.py' not found (or not a regular file)
package init file 'bcftools/__init__.py' not found (or not a regular file)
running egg_info
creating pysam.egg-info
writing pysam.egg-info/PKG-INFO
writing dependency_links to pysam.egg-info/dependency_links.txt
writing requirements to pysam.egg-info/requires.txt
writing top-level names to pysam.egg-info/top_level.txt
writing manifest file 'pysam.egg-info/SOURCES.txt'
ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any
reading manifest file 'pysam.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'KNOWN_BUGS'
warning: no files found matching 'THANKS'
no previously-included directories found matching 'tests/'
warning: no files found matching 'htslib/LICENSE'
warning: no files found matching 'htslib/README'
warning: no files found matching '*.[ch]' under directory 'htslib'
warning: no previously-included files found matching 'htslib/*config*.h'
warning: no files found matching 'htslib/configure.ac'
warning: no files found matching 'htslib/m4/*.m4'
warning: no files found matching 'htslib/*.in'
warning: no files found matching 'htslib/configure'
warning: no files found matching 'htslib/version.sh'
warning: no files found matching 'htslib/Makefile'
warning: no files found matching 'htslib/*.mk'
warning: no previously-included files found matching 'htslib/config.mk'
warning: no previously-included files found matching 'htslib/htscodecs.mk'
adding license file 'COPYING'
adding license file 'AUTHORS'
writing manifest file 'pysam.egg-info/SOURCES.txt'
/usr/lib/python3.10/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.samtools.lz4' is absent from the `packages` configuration.
!!

        ********************************************************************************
        ############################
        # Package would be ignored #
        ############################
        Python recognizes 'pysam.include.samtools.lz4' as an importable package[^1],
        but it is absent from setuptools' `packages` configuration.

        This leads to an ambiguous overall configuration. If you want to distribute this
        package, please make sure that 'pysam.include.samtools.lz4' is explicitly added
        to the `packages` configuration field.

        Alternatively, you can also rely on setuptools' discovery methods
        (for example by using `find_namespace_packages(...)`/`find_namespace:`
        instead of `find_packages(...)`/`find:`).

        You can read more about "package discovery" on setuptools documentation page:

        - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

        If you don't want 'pysam.include.samtools.lz4' to be distributed and are
        already explicitly excluding 'pysam.include.samtools.lz4' via
        `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
        you can try to use `exclude_package_data`, or `include-package-data=False` in
        combination with a more fine grained `package-data` configuration.

        You can read more about "package data files" on setuptools documentation page:

        - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


        [^1]: For Python, any directory (with suitable naming) can be imported,
              even if it does not contain any `.py` files.
              On the other hand, currently there is no concept of package data
              directory, all directories are treated like packages.
        ********************************************************************************

!!
  check.warn(importable)
copying pysam/cbcftools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/csamtools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/htslib_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/htslib_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignedsegment.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignedsegment.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignedsegment.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignedsegment.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignmentfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignmentfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignmentfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcalignmentfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcftools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcftools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcftools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbcftools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbgzf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbgzf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcbgzf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcfaidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcfaidx.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcfaidx.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcfaidx.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libchtslib.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libchtslib.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libchtslib.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libchtslib.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamtools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamtools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamtools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcsamtools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabix.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabix.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabix.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabixproxies.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabixproxies.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabixproxies.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libctabixproxies.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcutils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcutils.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcutils.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcutils.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcvcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcvcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/libcvcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/py.typed -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/pysam_stream.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/pysam_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/pysam_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/version.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
copying pysam/version.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/amplicon_stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/amplicon_stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam2depth.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam2depth.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_addrprg.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_addrprg.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_aux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_aux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_cat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_cat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_color.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_color.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_fastq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_fastq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_flags.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_flags.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_import.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_import.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_index.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_index.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_markdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_markdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_mate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_mate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_md.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_md.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_plcmd.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_plcmd.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_quickcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_quickcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_rmdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_rmdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_rmdupse.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_rmdupse.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_samples.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_samples.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_sort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_sort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_split.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_split.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_stat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bam_stat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bamshuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bamshuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bamtk.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bamtk.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bedcov.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bedcov.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bedidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bedidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/bedidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/coverage.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/coverage.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/cram_size.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/cram_size.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/cut_target.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/cut_target.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/dict.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/dict.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/faidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/faidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/padding.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/padding.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/phase.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/phase.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/reference.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/reference.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/reset.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/reset.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_opts.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_opts.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_opts.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_utils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_utils.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_utils.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_view.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sam_view.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/samtools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/samtools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/samtools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/splaysort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/stats_isize.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/stats_isize.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/stats_isize.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/tmp_file.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/tmp_file.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/tmp_file.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4
copying samtools/samtools_config_vars.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
copying samtools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/HMM.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/HMM.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/HMM.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/abuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/abuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/abuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_iaux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_iaux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_indel.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_indel.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bcftools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bcftools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bcftools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/bin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/call.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/ccall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/ccall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/cigar_state.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/cols.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/cols.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/cols.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/convert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/convert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/convert.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/csq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/csq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/dbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/dist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/dist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/dist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/em.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/em.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/extsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/extsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/extsort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/filter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/filter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/filter.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/gvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/gvcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/gvcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/hclust.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/hclust.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/hclust.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/hex.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/khash_str2str.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/kheap.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/kmin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/kmin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/kmin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/main.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/main.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/mcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/mcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/mpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/mpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/mw.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/ploidy.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/ploidy.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/ploidy.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/prob1.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/prob1.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/prob1.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/rbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/regidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/regidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/regidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/str_finder.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/str_finder.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/str_finder.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/tabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/tabix.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/utlist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/variantkey.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfannotate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfannotate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfcnv.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfcnv.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfconcat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfconcat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfconvert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfconvert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcffilter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcffilter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfgtcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfgtcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfhead.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfhead.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfindex.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfindex.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfisec.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfisec.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfmerge.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfmerge.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfnorm.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfnorm.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfplugin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfplugin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfquery.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfquery.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfroh.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfroh.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfsom.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfsom.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfstats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfstats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfview.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcfview.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcmp.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcmp.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/vcmp.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/version.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/version.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
copying bcftools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools
warning: build_py: byte-compiling is disabled, skipping.

running build_ext
building 'pysam.libchtslib' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/htslib_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libchtslib.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/htslib_util.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libchtslib.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension
building 'pysam.libcsamtools' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcsamtools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/amplicon_stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam2depth.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_addrprg.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_ampliconclip.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_aux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_cat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_color.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_fastq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_flags.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_import.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_index.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_lpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_markdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_mate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_md.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_plbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_plcmd.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_quickcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_rmdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_rmdupse.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_samples.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_sort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_split.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bam_stat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bamshuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bamtk.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bedcov.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/bedidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/consensus_pileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/coverage.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/cram_size.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
samtools/cram_size.c.pysam.c: In function ‘cram_size’:
samtools/cram_size.c.pysam.c:563:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  563 |     fprintf(outfp, "Total file size       %18"PRId64"\n", end);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~
      |                                                           |
      |                                                           off_t {aka long int}
In file included from /usr/include/htslib/hts.h:33,
                 from /usr/include/htslib/sam.h:33,
                 from samtools/cram_size.c.pysam.c:39:
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
samtools/cram_size.c.pysam.c:564:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  564 |     fprintf(outfp, "Format overhead size  %18"PRId64"\n", end - tot_size);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~~~~~~~~~~~~
      |                                                               |
      |                                                               off_t {aka long int}
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/cut_target.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/dict.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/faidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/lz4/lz4.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/padding.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/phase.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/reference.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/reset.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_opts.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_utils.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sam_view.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/samtools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/stats_isize.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c samtools/tmp_file.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamtools.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/amplicon_stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam2depth.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_addrprg.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_ampliconclip.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_aux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_cat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_color.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_fastq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_flags.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_import.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_index.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_lpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_markdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_mate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_md.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_plcmd.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_quickcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_rmdupse.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_samples.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_sort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_split.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bam_stat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamshuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bamtk.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedcov.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/bedidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/consensus_pileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/coverage.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cram_size.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/cut_target.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/dict.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/faidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/lz4/lz4.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/padding.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/phase.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reference.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/reset.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_opts.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_utils.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sam_view.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/samtools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/stats_isize.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/samtools/tmp_file.c.pysam.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbcftools' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/HMM.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/abuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf_iaux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam2bcf_indel.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bam_sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bcftools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/bin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/ccall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/cols.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/convert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/csq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/dist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/em.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/extsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/filter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/gvcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/hclust.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/kmin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/main.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/mcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/mpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/ploidy.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/prob1.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/read_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/regidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/smpl_ilist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/str_finder.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/tabix.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/tsv2vcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfannotate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfcnv.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfconcat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfconvert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcffilter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfgtcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfhead.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfindex.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfisec.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfmerge.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfnorm.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfplugin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfquery.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfroh.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfsom.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfstats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcfview.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/vcmp.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c bcftools/version.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbcftools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/HMM.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/abuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_iaux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam2bcf_indel.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bam_sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bcftools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/bin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ccall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/cols.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/convert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/csq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/dist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/em.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/extsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/filter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/gvcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/hclust.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/kmin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/main.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/mpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/ploidy.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/prob1.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/read_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/regidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/smpl_ilist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/str_finder.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tabix.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/tsv2vcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfannotate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfcnv.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconcat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfconvert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcffilter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfgtcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfhead.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfindex.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfisec.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfmerge.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfnorm.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfplugin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfquery.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfroh.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsom.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfstats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcfview.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/vcmp.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/bcftools/version.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcftools.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcutils' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcutils.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/pysam_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcutils.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/pysam_util.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcsamtools.cpython-310-i386-linux-gnu -lcbcftools.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcalignmentfile' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcalignmentfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’:
pysam/libcalignmentfile.c:20465:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
20465 |             (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr));
      |                   ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’:
pysam/libcalignmentfile.c:37142:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
37142 |         (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0));
      |               ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignmentfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcsamfile' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcsamfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcsamfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcalignedsegment' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcalignedsegment.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignedsegment.c: In function ‘__pyx_pf_5pysam_18libcalignedsegment_14AlignedSegment_18fromstring’:
pysam/libcalignedsegment.c:35708:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
35708 |   (void)(sam_parse1((&__pyx_v_line), __pyx_v_dest->header->ptr, __pyx_v_dest->_delegate));
      |         ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcalignedsegment.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libctabix' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libctabix.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabix.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcfaidx' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcfaidx.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcfaidx.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbcf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’:
pysam/libcbcf.c:85868:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
85868 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’:
pysam/libcbcf.c:80546:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80546 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_13VariantHeader_20add_meta’:
pysam/libcbcf.c:44264:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44264 |           bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18));
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c:44290:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44290 |           bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted);
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_4__dealloc__’:
pysam/libcbcf.c:80241:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80241 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbgzf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcbgzf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcbgzf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbgzf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libctabixproxies' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libctabixproxies.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libctabixproxies.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcvcf' extension
i686-pc-linux-gnu-gcc -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10 -I/usr/include/python3.10 -c pysam/libcvcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/temp.linux-i686-3.10/pysam/libcvcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-310-i386-linux-gnu -lcutils.cpython-310-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.cpython-310-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
 * python3_11: running distutils-r1_run_phase python_compile
python3.11 setup.py build_ext --inplace -j1
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running build_ext
Compiling pysam/libchtslib.pyx because it changed.
[1/1] Cythonizing pysam/libchtslib.pyx
building 'pysam.libchtslib' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/htslib_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libchtslib.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/htslib_util.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libchtslib.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libchtslib.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension
Compiling pysam/libcsamtools.pyx because it changed.
[1/1] Cythonizing pysam/libcsamtools.pyx
building 'pysam.libcsamtools' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/lz4
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcsamtools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/amplicon_stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam2depth.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_addrprg.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_ampliconclip.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_aux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_cat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_color.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_fastq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_flags.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_import.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_index.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_lpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_markdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_mate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_md.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_plbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_plcmd.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_quickcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_rmdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_rmdupse.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_samples.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_sort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_split.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_stat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bamshuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bamtk.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bedcov.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bedidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/consensus_pileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/coverage.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/cram_size.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
samtools/cram_size.c.pysam.c: In function ‘cram_size’:
samtools/cram_size.c.pysam.c:563:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  563 |     fprintf(outfp, "Total file size       %18"PRId64"\n", end);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~
      |                                                           |
      |                                                           off_t {aka long int}
In file included from /usr/include/htslib/hts.h:33,
                 from /usr/include/htslib/sam.h:33,
                 from samtools/cram_size.c.pysam.c:39:
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
samtools/cram_size.c.pysam.c:564:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  564 |     fprintf(outfp, "Format overhead size  %18"PRId64"\n", end - tot_size);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~~~~~~~~~~~~
      |                                                               |
      |                                                               off_t {aka long int}
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/cut_target.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/dict.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/faidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/lz4/lz4.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/padding.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/phase.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/reference.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/reset.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_opts.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_utils.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_view.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/samtools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/stats_isize.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/tmp_file.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamtools.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/amplicon_stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam2depth.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_addrprg.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_ampliconclip.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_aux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_cat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_color.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_fastq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_flags.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_import.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_index.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_lpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_markdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_mate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_md.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plcmd.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_quickcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdupse.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_samples.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_sort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_split.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_stat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamshuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamtk.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedcov.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/consensus_pileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/coverage.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cram_size.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cut_target.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/dict.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/faidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/lz4/lz4.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/padding.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/phase.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reference.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reset.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_opts.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_utils.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_view.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/samtools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats_isize.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/tmp_file.c.pysam.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcsamtools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbcftools.pyx because it changed.
[1/1] Cythonizing pysam/libcbcftools.pyx
building 'pysam.libcbcftools' extension
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/HMM.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/abuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf_iaux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf_indel.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam_sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bcftools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/ccall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/cols.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/convert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/csq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/dist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/em.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/extsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/filter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/gvcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/hclust.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/kmin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/main.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/mcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/mpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/ploidy.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/prob1.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/read_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/regidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/smpl_ilist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/str_finder.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/tabix.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/tsv2vcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfannotate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfcnv.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfconcat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfconvert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcffilter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfgtcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfhead.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfindex.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfisec.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfmerge.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfnorm.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfplugin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfquery.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfroh.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfsom.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfstats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfview.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcmp.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/version.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbcftools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/HMM.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/abuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_iaux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_indel.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam_sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bcftools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ccall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/cols.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/convert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/csq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/dist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/em.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/extsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/filter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/gvcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/hclust.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/kmin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/main.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ploidy.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/prob1.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/read_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/regidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/smpl_ilist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/str_finder.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tabix.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tsv2vcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfannotate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcnv.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconcat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconvert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcffilter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfgtcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfhead.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfindex.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfisec.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfmerge.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfnorm.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfplugin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfquery.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfroh.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsom.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfstats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfview.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcmp.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/version.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcftools.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcbcftools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcutils.pyx because it changed.
[1/1] Cythonizing pysam/libcutils.pyx
building 'pysam.libcutils' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcutils.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/pysam_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcutils.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/pysam_util.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcsamtools.cpython-311-i386-linux-gnu -lcbcftools.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcutils.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
warning: pysam/libcalignmentfile.pyx:2572:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2577:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2582:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2621:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2626:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
warning: pysam/libcalignmentfile.pyx:2631:49: Casting a GIL-requiring function into a nogil function circumvents GIL validation
Compiling pysam/libcalignmentfile.pyx because it changed.
[1/1] Cythonizing pysam/libcalignmentfile.pyx
building 'pysam.libcalignmentfile' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcalignmentfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’:
pysam/libcalignmentfile.c:20465:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
20465 |             (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr));
      |                   ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’:
pysam/libcalignmentfile.c:37142:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
37142 |         (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0));
      |               ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignmentfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcsamfile.pyx because it changed.
[1/1] Cythonizing pysam/libcsamfile.pyx
building 'pysam.libcsamfile' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcsamfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcsamfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcalignedsegment.pyx because it changed.
[1/1] Cythonizing pysam/libcalignedsegment.pyx
building 'pysam.libcalignedsegment' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcalignedsegment.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignedsegment.c: In function ‘__pyx_pf_5pysam_18libcalignedsegment_14AlignedSegment_18fromstring’:
pysam/libcalignedsegment.c:35708:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
35708 |   (void)(sam_parse1((&__pyx_v_line), __pyx_v_dest->header->ptr, __pyx_v_dest->_delegate));
      |         ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignedsegment.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libctabix.pyx because it changed.
[1/1] Cythonizing pysam/libctabix.pyx
building 'pysam.libctabix' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libctabix.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabix.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libctabix.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcfaidx.pyx because it changed.
[1/1] Cythonizing pysam/libcfaidx.pyx
building 'pysam.libcfaidx' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcfaidx.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcfaidx.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcfaidx.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbcf.pyx because it changed.
[1/1] Cythonizing pysam/libcbcf.pyx
building 'pysam.libcbcf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’:
pysam/libcbcf.c:85868:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
85868 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’:
pysam/libcbcf.c:80546:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80546 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_13VariantHeader_20add_meta’:
pysam/libcbcf.c:44264:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44264 |           bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18));
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c:44290:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44290 |           bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted);
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_4__dealloc__’:
pysam/libcbcf.c:80241:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80241 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcbcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libcbgzf.pyx because it changed.
[1/1] Cythonizing pysam/libcbgzf.pyx
building 'pysam.libcbgzf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbgzf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbgzf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcbgzf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
Compiling pysam/libctabixproxies.pyx because it changed.
[1/1] Cythonizing pysam/libctabixproxies.pyx
building 'pysam.libctabixproxies' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libctabixproxies.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabixproxies.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
warning: pysam/libcvcf.pyx:1083:27: Unreachable code
Compiling pysam/libcvcf.pyx because it changed.
[1/1] Cythonizing pysam/libcvcf.pyx
building 'pysam.libcvcf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcvcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcvcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam/libcvcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
python3.11 setup.py build -j 1 -j1
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running build
running build_py
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/config.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/version.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/utils.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/samtools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/bcftools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/Pileup.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include
copying pysam/include/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include
package init file 'samtools/__init__.py' not found (or not a regular file)
package init file 'bcftools/__init__.py' not found (or not a regular file)
running egg_info
creating pysam.egg-info
writing pysam.egg-info/PKG-INFO
writing dependency_links to pysam.egg-info/dependency_links.txt
writing requirements to pysam.egg-info/requires.txt
writing top-level names to pysam.egg-info/top_level.txt
writing manifest file 'pysam.egg-info/SOURCES.txt'
ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any
reading manifest file 'pysam.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'KNOWN_BUGS'
warning: no files found matching 'THANKS'
no previously-included directories found matching 'tests/'
warning: no files found matching 'htslib/LICENSE'
warning: no files found matching 'htslib/README'
warning: no files found matching '*.[ch]' under directory 'htslib'
warning: no previously-included files found matching 'htslib/*config*.h'
warning: no files found matching 'htslib/configure.ac'
warning: no files found matching 'htslib/m4/*.m4'
warning: no files found matching 'htslib/*.in'
warning: no files found matching 'htslib/configure'
warning: no files found matching 'htslib/version.sh'
warning: no files found matching 'htslib/Makefile'
warning: no files found matching 'htslib/*.mk'
warning: no previously-included files found matching 'htslib/config.mk'
warning: no previously-included files found matching 'htslib/htscodecs.mk'
adding license file 'COPYING'
adding license file 'AUTHORS'
writing manifest file 'pysam.egg-info/SOURCES.txt'
/usr/lib/python3.11/site-packages/setuptools/command/build_py.py:207: _Warning: Package 'pysam.include.samtools.lz4' is absent from the `packages` configuration.
!!

        ********************************************************************************
        ############################
        # Package would be ignored #
        ############################
        Python recognizes 'pysam.include.samtools.lz4' as an importable package[^1],
        but it is absent from setuptools' `packages` configuration.

        This leads to an ambiguous overall configuration. If you want to distribute this
        package, please make sure that 'pysam.include.samtools.lz4' is explicitly added
        to the `packages` configuration field.

        Alternatively, you can also rely on setuptools' discovery methods
        (for example by using `find_namespace_packages(...)`/`find_namespace:`
        instead of `find_packages(...)`/`find:`).

        You can read more about "package discovery" on setuptools documentation page:

        - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

        If you don't want 'pysam.include.samtools.lz4' to be distributed and are
        already explicitly excluding 'pysam.include.samtools.lz4' via
        `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
        you can try to use `exclude_package_data`, or `include-package-data=False` in
        combination with a more fine grained `package-data` configuration.

        You can read more about "package data files" on setuptools documentation page:

        - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


        [^1]: For Python, any directory (with suitable naming) can be imported,
              even if it does not contain any `.py` files.
              On the other hand, currently there is no concept of package data
              directory, all directories are treated like packages.
        ********************************************************************************

!!
  check.warn(importable)
copying pysam/cbcftools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/csamtools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/htslib_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/htslib_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignedsegment.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignedsegment.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignedsegment.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignedsegment.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignmentfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignmentfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignmentfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcalignmentfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcftools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcftools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcftools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbcftools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbgzf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbgzf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcbgzf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcfaidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcfaidx.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcfaidx.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcfaidx.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libchtslib.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libchtslib.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libchtslib.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libchtslib.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamtools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamtools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamtools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcsamtools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabix.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabix.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabix.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabixproxies.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabixproxies.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabixproxies.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libctabixproxies.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcutils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcutils.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcutils.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcutils.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcvcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcvcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/libcvcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/py.typed -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/pysam_stream.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/pysam_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/pysam_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/version.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
copying pysam/version.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/amplicon_stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/amplicon_stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam2depth.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam2depth.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_addrprg.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_addrprg.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_ampliconclip.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_aux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_aux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_cat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_cat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_color.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_color.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_fastq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_fastq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_flags.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_flags.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_import.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_import.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_index.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_index.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_lpileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_markdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_markdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_mate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_mate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_md.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_md.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_plbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_plcmd.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_plcmd.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_quickcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_quickcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_rmdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_rmdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_rmdupse.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_rmdupse.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_samples.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_samples.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_sort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_sort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_split.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_split.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_stat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bam_stat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bamshuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bamshuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bamtk.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bamtk.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bedcov.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bedcov.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bedidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bedidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/bedidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/consensus_pileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/coverage.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/coverage.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/cram_size.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/cram_size.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/cut_target.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/cut_target.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/dict.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/dict.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/faidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/faidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/padding.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/padding.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/phase.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/phase.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/reference.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/reference.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/reset.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/reset.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_opts.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_opts.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_opts.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_utils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_utils.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_utils.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_view.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sam_view.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/samtools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/samtools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/samtools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/splaysort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/stats_isize.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/stats_isize.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/stats_isize.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/tmp_file.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/tmp_file.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/tmp_file.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4
copying samtools/lz4/lz4.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4
copying samtools/samtools_config_vars.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
copying samtools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/HMM.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/HMM.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/HMM.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/abuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/abuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/abuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_iaux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_iaux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_indel.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam2bcf_indel.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bam_sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bcftools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bcftools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bcftools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/bin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/call.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/ccall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/ccall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/cigar_state.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/cols.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/cols.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/cols.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/convert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/convert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/convert.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/csq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/csq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/dbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/dist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/dist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/dist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/em.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/em.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/extsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/extsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/extsort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/filter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/filter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/filter.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/gvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/gvcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/gvcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/hclust.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/hclust.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/hclust.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/hex.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/khash_str2str.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/kheap.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/kmin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/kmin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/kmin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/main.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/main.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/mcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/mcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/mpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/mpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/mw.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/ploidy.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/ploidy.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/ploidy.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/prob1.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/prob1.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/prob1.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/rbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/read_consensus.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/regidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/regidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/regidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/smpl_ilist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/str_finder.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/str_finder.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/str_finder.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/tabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/tabix.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/tsv2vcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/utlist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/variantkey.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfannotate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfannotate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfcnv.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfcnv.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfconcat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfconcat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfconvert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfconvert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcffilter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcffilter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfgtcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfgtcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfhead.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfhead.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfindex.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfindex.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfisec.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfisec.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfmerge.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfmerge.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfnorm.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfnorm.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfplugin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfplugin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfquery.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfquery.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfroh.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfroh.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfsom.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfsom.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfstats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfstats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfview.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcfview.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcmp.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcmp.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/vcmp.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/version.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/version.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
copying bcftools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools
warning: build_py: byte-compiling is disabled, skipping.

running build_ext
building 'pysam.libchtslib' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/htslib_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/htslib_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libchtslib.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libchtslib.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/htslib_util.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libchtslib.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
creating samtools/samtools_config_vars.h for 'pysam.libcsamtools' extension
building 'pysam.libcsamtools' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcsamtools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamtools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/amplicon_stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/amplicon_stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam2depth.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam2depth.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_addrprg.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_addrprg.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_ampliconclip.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_ampliconclip.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_aux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_aux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_cat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_cat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_color.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_color.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_fastq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_fastq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_flags.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_flags.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_import.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_import.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_index.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_index.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_lpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_lpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_markdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_markdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_mate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_mate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_md.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_md.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_plbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_plcmd.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plcmd.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_quickcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_quickcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_rmdup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_rmdupse.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdupse.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_samples.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_samples.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_sort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_sort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_split.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_split.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bam_stat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_stat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bamshuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamshuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bamtk.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamtk.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bedcov.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedcov.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/bedidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/consensus_pileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/consensus_pileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/coverage.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/coverage.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/cram_size.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cram_size.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
samtools/cram_size.c.pysam.c: In function ‘cram_size’:
samtools/cram_size.c.pysam.c:563:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  563 |     fprintf(outfp, "Total file size       %18"PRId64"\n", end);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~
      |                                                           |
      |                                                           off_t {aka long int}
In file included from /usr/include/htslib/hts.h:33,
                 from /usr/include/htslib/sam.h:33,
                 from samtools/cram_size.c.pysam.c:39:
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
samtools/cram_size.c.pysam.c:564:20: warning: format ‘%lld’ expects argument of type ‘long long int’, but argument 3 has type ‘off_t’ {aka ‘long int’} [-Wformat=]
  564 |     fprintf(outfp, "Format overhead size  %18"PRId64"\n", end - tot_size);
      |                    ^~~~~~~~~~~~~~~~~~~~~~~~~~~            ~~~~~~~~~~~~~~
      |                                                               |
      |                                                               off_t {aka long int}
/usr/include/inttypes.h:57:41: note: format string is defined here
   57 | # define PRId64         __PRI64_PREFIX "d"
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/cut_target.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cut_target.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/dict.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/dict.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/faidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/faidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/lz4/lz4.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/lz4/lz4.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/padding.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/padding.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/phase.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/phase.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/reference.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reference.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/reset.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reset.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_opts.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_opts.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_utils.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_utils.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sam_view.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_view.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/samtools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/samtools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/stats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/stats_isize.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats_isize.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c samtools/tmp_file.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/tmp_file.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamtools.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/amplicon_stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam2depth.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_addrprg.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_ampliconclip.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_aux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_cat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_color.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_fastq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_flags.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_import.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_index.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_lpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_markdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_mate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_md.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_plcmd.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_quickcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_rmdupse.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_samples.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_sort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_split.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bam_stat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamshuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bamtk.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedcov.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/bedidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/consensus_pileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/coverage.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cram_size.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/cut_target.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/dict.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/faidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/lz4/lz4.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/padding.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/phase.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reference.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/reset.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_opts.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_utils.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sam_view.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/samtools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/stats_isize.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/samtools/tmp_file.c.pysam.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbcftools' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/HMM.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/HMM.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/abuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/abuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf_iaux.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_iaux.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam2bcf_indel.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_indel.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bam_sample.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam_sample.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bcftools.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bcftools.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/bin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/ccall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ccall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/cols.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/cols.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/convert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/convert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/csq.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/csq.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/dist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/dist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/em.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/em.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/extsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/extsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/filter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/filter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/gvcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/gvcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/hclust.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/hclust.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/kmin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/kmin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/main.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/main.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/mcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/mpileup.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mpileup.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/ploidy.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ploidy.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/prob1.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/prob1.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/read_consensus.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/read_consensus.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/regidx.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/regidx.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/reheader.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/reheader.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/smpl_ilist.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/smpl_ilist.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/str_finder.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/str_finder.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/tabix.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tabix.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/tsv2vcf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tsv2vcf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfannotate.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfannotate.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfbuf.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfbuf.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfcall.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcall.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfcnv.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcnv.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfconcat.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconcat.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfconvert.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconvert.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcffilter.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcffilter.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfgtcheck.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfgtcheck.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfhead.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfhead.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfindex.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfindex.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfisec.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfisec.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfmerge.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfmerge.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfnorm.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfnorm.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfplugin.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfplugin.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfquery.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfquery.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfroh.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfroh.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfsom.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsom.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfsort.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsort.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfstats.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfstats.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcfview.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfview.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/vcmp.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcmp.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c bcftools/version.c.pysam.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/version.c.pysam.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbcftools.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcftools.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/HMM.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/abuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_iaux.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam2bcf_indel.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bam_sample.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bcftools.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/bin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ccall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/cols.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/convert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/csq.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/dist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/em.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/extsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/filter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/gvcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/hclust.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/kmin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/main.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/mpileup.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/ploidy.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/prob1.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/read_consensus.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/regidx.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/reheader.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/smpl_ilist.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/str_finder.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tabix.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/tsv2vcf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfannotate.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfbuf.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcall.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfcnv.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconcat.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfconvert.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcffilter.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfgtcheck.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfhead.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfindex.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfisec.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfmerge.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfnorm.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfplugin.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfquery.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfroh.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsom.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfsort.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfstats.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcfview.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/vcmp.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/bcftools/version.c.pysam.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcftools.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcutils' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcutils.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcutils.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/pysam_util.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/pysam_util.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcutils.o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/pysam_util.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcsamtools.cpython-311-i386-linux-gnu -lcbcftools.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcalignmentfile' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcalignmentfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignmentfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignmentfile.c: In function ‘__pyx_pf_5pysam_17libcalignmentfile_13AlignmentFile_6_open’:
pysam/libcalignmentfile.c:20465:20: warning: ignoring return value of ‘sam_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
20465 |             (void)(sam_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_hdr));
      |                   ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcalignmentfile.c: In function ‘__pyx_f_5pysam_17libcalignmentfile_20IteratorRowSelection_cnext’:
pysam/libcalignmentfile.c:37142:16: warning: ignoring return value of ‘bgzf_seek’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
37142 |         (void)(bgzf_seek(hts_get_bgzfp(__pyx_v_self->__pyx_base.htsfile), __pyx_v_pos, 0));
      |               ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignmentfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcsamfile' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcsamfile.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamfile.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcsamfile.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcalignedsegment' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcalignedsegment.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignedsegment.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcalignedsegment.c: In function ‘__pyx_pf_5pysam_18libcalignedsegment_14AlignedSegment_18fromstring’:
pysam/libcalignedsegment.c:35708:10: warning: ignoring return value of ‘sam_parse1’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
35708 |   (void)(sam_parse1((&__pyx_v_line), __pyx_v_dest->header->ptr, __pyx_v_dest->_delegate));
      |         ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcalignedsegment.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libctabix' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libctabix.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabix.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabix.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcfaidx' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcfaidx.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcfaidx.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcfaidx.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbcf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
pysam/libcbcf.c: In function ‘__pyx_f_5pysam_7libcbcf_11VariantFile_write’:
pysam/libcbcf.c:85868:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
85868 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_6close’:
pysam/libcbcf.c:80546:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80546 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_13VariantHeader_20add_meta’:
pysam/libcbcf.c:44264:11: warning: ignoring return value of ‘bcf_hrec_add_key’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44264 |           bcf_hrec_add_key(__pyx_v_hrec, __pyx_t_17, ((int)__pyx_t_18));
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c:44290:11: warning: ignoring return value of ‘bcf_hrec_set_val’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
44290 |           bcf_hrec_set_val(__pyx_v_hrec, (__pyx_v_hrec->nkeys - 1), __pyx_t_19, ((int)__pyx_t_18), __pyx_v_quoted);
      |           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pysam/libcbcf.c: In function ‘__pyx_pf_5pysam_7libcbcf_11VariantFile_4__dealloc__’:
pysam/libcbcf.c:80241:18: warning: ignoring return value of ‘bcf_hdr_write’ declared with attribute ‘warn_unused_result’ [-Wunused-result]
80241 |           (void)(bcf_hdr_write(__pyx_v_self->__pyx_base.htsfile, __pyx_v_self->header->ptr));
      |                 ~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcbgzf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcbgzf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbgzf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcbgzf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbgzf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libctabixproxies' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libctabixproxies.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabixproxies.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libctabixproxies.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
building 'pysam.libcvcf' extension
i686-pc-linux-gnu-gcc -Wsign-compare -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -fPIC -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -I/usr/include -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/samtools/lz4 -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/bcftools -I/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11 -I/usr/include/python3.11 -c pysam/libcvcf.c -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcvcf.o -Wno-unused -Wno-strict-prototypes -Wno-sign-compare -Wno-error=declaration-after-statement
i686-pc-linux-gnu-gcc -shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -O2 -march=i686 -mfpmath=sse -msse2 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/temp.linux-i686-3.11/pysam/libcvcf.o -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/pysam -L/usr/lib -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam -L/usr/lib -lz -lhts -lchtslib.cpython-311-i386-linux-gnu -lcutils.cpython-311-i386-linux-gnu -o /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.cpython-311-i386-linux-gnu.so -Wl,-rpath,$ORIGIN
>>> Source compiled.
 * Skipping make test/check due to ebuild restriction.
>>> Test phase [disabled because of RESTRICT=test]: sci-biology/pysam-0.21.0

>>> Install sci-biology/pysam-0.21.0 into /var/tmp/portage/sci-biology/pysam-0.21.0/image
 * python3_10: running distutils-r1_run_phase distutils-r1_python_install
python3.10 setup.py install --skip-build --root=/var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running install
/usr/lib/python3.10/distutils/cmd.py:62: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
running install_lib
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbgzf.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.cpython-310-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/version.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/version.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/pysam_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/pysam_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/pysam_stream.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/py.typed -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcutils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabixproxies.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libctabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamtools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcsamfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libchtslib.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcfaidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbgzf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbgzf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbgzf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcftools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcbcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignmentfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/libcalignedsegment.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/htslib_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/htslib_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/csamtools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/cbcftools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/version.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/version.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcmp.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcmp.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcmp.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfview.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfview.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfstats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfstats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfsom.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfsom.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfroh.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfroh.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfquery.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfquery.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfplugin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfplugin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfnorm.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfnorm.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfmerge.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfmerge.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfisec.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfisec.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfindex.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfindex.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfhead.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfhead.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfgtcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfgtcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcffilter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcffilter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfconvert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfconvert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfconcat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfconcat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfcnv.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfcnv.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfannotate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/vcfannotate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/variantkey.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/utlist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/tsv2vcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/tsv2vcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/tsv2vcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/tabix.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/tabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/str_finder.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/str_finder.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/str_finder.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/smpl_ilist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/smpl_ilist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/smpl_ilist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/regidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/regidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/regidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/read_consensus.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/read_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/read_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/rbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/prob1.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/prob1.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/prob1.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/ploidy.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/ploidy.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/ploidy.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/mw.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/mpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/mpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/mcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/mcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/main.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/main.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/kmin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/kmin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/kmin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/kheap.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/khash_str2str.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/hex.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/hclust.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/hclust.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/hclust.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/gvcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/gvcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/gvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/filter.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/filter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/filter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/extsort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/extsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/extsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/em.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/em.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/dist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/dist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/dist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/dbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/csq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/csq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/convert.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/convert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/convert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/cols.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/cols.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/cols.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/cigar_state.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/ccall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/ccall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/call.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bcftools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bcftools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bcftools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam_sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam_sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam_sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf_indel.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf_indel.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf_iaux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf_iaux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/bam2bcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/abuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/abuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/abuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/HMM.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/HMM.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/bcftools/HMM.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/bcftools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/samtools_config_vars.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4/lz4.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4/lz4.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4/lz4.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/lz4/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/tmp_file.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/tmp_file.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/tmp_file.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/stats_isize.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/stats_isize.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/stats_isize.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/splaysort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/samtools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/samtools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/samtools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_view.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_view.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_utils.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_utils.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_utils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_opts.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_opts.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/sam_opts.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/reset.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/reset.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/reference.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/reference.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/phase.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/phase.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/padding.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/padding.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/faidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/faidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/dict.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/dict.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/cut_target.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/cut_target.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/cram_size.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/cram_size.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/coverage.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/coverage.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/consensus_pileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/consensus_pileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/consensus_pileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bedidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bedidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bedidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bedcov.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bedcov.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bamtk.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bamtk.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bamshuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bamshuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_stat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_stat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_split.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_split.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_sort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_sort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_samples.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_samples.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_rmdupse.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_rmdupse.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_rmdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_rmdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_quickcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_quickcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_plcmd.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_plcmd.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_plbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_plbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_plbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_md.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_md.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_mate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_mate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_markdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_markdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_lpileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_lpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_lpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_index.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_index.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_import.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_import.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_flags.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_flags.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_fastq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_fastq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_color.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_color.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_cat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_cat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_aux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_aux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_ampliconclip.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_ampliconclip.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_ampliconclip.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_addrprg.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam_addrprg.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam2depth.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam2depth.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/bam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/amplicon_stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/amplicon_stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/samtools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/include/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/Pileup.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/bcftools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/samtools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/utils.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/version.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_10/build/lib/pysam/config.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/include/__init__.py to __init__.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/Pileup.py to Pileup.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/__init__.py to __init__.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/bcftools.py to bcftools.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/samtools.py to samtools.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/utils.py to utils.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/version.py to version.cpython-310.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam/config.py to config.cpython-310.pyc
writing byte-compilation script '/var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp7yjodpn1.py'
/usr/bin/python3.10 -Wignore:The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives:DeprecationWarning /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp7yjodpn1.py
removing /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp7yjodpn1.py
writing byte-compilation script '/var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp9v6vecsi.py'
/usr/bin/python3.10 -Wignore:The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives:DeprecationWarning /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp9v6vecsi.py
removing /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmp9v6vecsi.py
running install_egg_info
running egg_info
writing pysam.egg-info/PKG-INFO
writing dependency_links to pysam.egg-info/dependency_links.txt
writing requirements to pysam.egg-info/requires.txt
writing top-level names to pysam.egg-info/top_level.txt
package init file 'samtools/__init__.py' not found (or not a regular file)
package init file 'bcftools/__init__.py' not found (or not a regular file)
ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any
reading manifest file 'pysam.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'KNOWN_BUGS'
warning: no files found matching 'THANKS'
no previously-included directories found matching 'tests/'
warning: no files found matching 'htslib/LICENSE'
warning: no files found matching 'htslib/README'
warning: no files found matching '*.[ch]' under directory 'htslib'
warning: no previously-included files found matching 'htslib/*config*.h'
warning: no files found matching 'htslib/configure.ac'
warning: no files found matching 'htslib/m4/*.m4'
warning: no files found matching 'htslib/*.in'
warning: no files found matching 'htslib/configure'
warning: no files found matching 'htslib/version.sh'
warning: no files found matching 'htslib/Makefile'
warning: no files found matching 'htslib/*.mk'
warning: no previously-included files found matching 'htslib/config.mk'
warning: no previously-included files found matching 'htslib/htscodecs.mk'
adding license file 'COPYING'
adding license file 'AUTHORS'
writing manifest file 'pysam.egg-info/SOURCES.txt'
Copying pysam.egg-info to /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.10/usr/lib/python3.10/site-packages/pysam-0.21.0-py3.10.egg-info
running install_scripts
 * Python extension modules (*.so) found installed. Please set:
 *   DISTUTILS_EXT=1
 * in the ebuild.
 * python3_11: running distutils-r1_run_phase distutils-r1_python_install
python3.11 setup.py install --skip-build --root=/var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11
/var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/setup.py:32: DeprecationWarning: The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives
  from distutils import log
# pysam: cython is available - using cythonize if necessary
# pysam: htslib mode is external
# pysam: HTSLIB_CONFIGURE_OPTIONS=None
running install
/usr/lib/python3.11/distutils/cmd.py:62: SetuptoolsDeprecationWarning: setup.py install is deprecated.
!!

        ********************************************************************************
        Please avoid running ``setup.py`` directly.
        Instead, use pypa/build, pypa/installer or other
        standards-based tools.

        See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details.
        ********************************************************************************

!!
  self.initialize_options()
running install_lib
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbgzf.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.cpython-311-i386-linux-gnu.so -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/version.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/version.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/pysam_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/pysam_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/pysam_stream.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/py.typed -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcutils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabixproxies.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libctabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamtools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcsamfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libchtslib.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcfaidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbgzf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbgzf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbgzf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcftools.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcbcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignmentfile.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.pyx -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.pyi -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.pxd -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/libcalignedsegment.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/htslib_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/htslib_util.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/csamtools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/cbcftools_util.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/version.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/version.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcmp.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcmp.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcmp.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfview.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfview.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfstats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfstats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfsom.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfsom.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfroh.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfroh.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfquery.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfquery.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfplugin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfplugin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfnorm.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfnorm.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfmerge.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfmerge.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfisec.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfisec.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfindex.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfindex.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfhead.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfhead.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfgtcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfgtcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcffilter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcffilter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfconvert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfconvert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfconcat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfconcat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfcnv.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfcnv.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfannotate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/vcfannotate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/variantkey.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/utlist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/tsv2vcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/tsv2vcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/tsv2vcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/tabix.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/tabix.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/str_finder.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/str_finder.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/str_finder.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/smpl_ilist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/smpl_ilist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/smpl_ilist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/regidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/regidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/regidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/read_consensus.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/read_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/read_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/rbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/prob1.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/prob1.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/prob1.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/ploidy.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/ploidy.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/ploidy.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/mw.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/mpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/mpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/mcall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/mcall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/main.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/main.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/kmin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/kmin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/kmin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/kheap.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/khash_str2str.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/hex.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/hclust.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/hclust.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/hclust.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/gvcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/gvcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/gvcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/filter.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/filter.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/filter.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/extsort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/extsort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/extsort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/em.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/em.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/dist.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/dist.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/dist.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/dbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/csq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/csq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/convert.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/convert.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/convert.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/cols.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/cols.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/cols.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/cigar_state.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/ccall.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/ccall.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/call.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bin.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bin.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bin.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bcftools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bcftools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bcftools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam_sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam_sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam_sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf_indel.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf_indel.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf_iaux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf_iaux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/bam2bcf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/abuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/abuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/abuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/HMM.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/HMM.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/bcftools/HMM.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/bcftools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/config.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/samtools_config_vars.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
creating /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4/lz4.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4/lz4.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4/lz4.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/lz4/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools/lz4
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/version.sh -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/tmp_file.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/tmp_file.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/tmp_file.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/stats_isize.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/stats_isize.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/stats_isize.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/splaysort.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/samtools.pysam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/samtools.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/samtools.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sample.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sample.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sample.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_view.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_view.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_utils.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_utils.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_utils.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_opts.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_opts.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/sam_opts.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/reset.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/reset.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/reference.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/reference.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/phase.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/phase.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/padding.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/padding.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/faidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/faidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/dict.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/dict.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/cut_target.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/cut_target.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/cram_size.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/cram_size.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/coverage.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/coverage.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/consensus_pileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/consensus_pileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/consensus_pileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bedidx.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bedidx.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bedidx.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bedcov.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bedcov.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bamtk.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bamtk.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bamshuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bamshuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_stat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_stat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_split.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_split.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_sort.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_sort.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_samples.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_samples.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_rmdupse.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_rmdupse.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_rmdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_rmdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_reheader.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_reheader.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_quickcheck.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_quickcheck.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_plcmd.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_plcmd.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_plbuf.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_plbuf.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_plbuf.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_md.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_md.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_mate.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_mate.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_markdup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_markdup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_lpileup.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_lpileup.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_lpileup.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_index.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_index.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_import.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_import.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_flags.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_flags.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_fastq.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_fastq.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_consensus.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_consensus.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_color.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_color.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_cat.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_cat.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_aux.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_aux.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_ampliconclip.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_ampliconclip.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_ampliconclip.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_addrprg.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam_addrprg.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam2depth.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam2depth.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam.h -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/bam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/amplicon_stats.c.pysam.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/amplicon_stats.c -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/README -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/samtools/LICENSE -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/samtools
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/include/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/Pileup.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/__init__.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/bcftools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/samtools.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/utils.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/version.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
copying /var/tmp/portage/sci-biology/pysam-0.21.0/work/pysam-0.21.0-python3_11/build/lib/pysam/config.py -> /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/include/__init__.py to __init__.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/Pileup.py to Pileup.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/__init__.py to __init__.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/bcftools.py to bcftools.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/samtools.py to samtools.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/utils.py to utils.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/version.py to version.cpython-311.pyc
byte-compiling /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam/config.py to config.cpython-311.pyc
writing byte-compilation script '/var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmpho7qs1rc.py'
/usr/bin/python3.11 -Wignore:The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives:DeprecationWarning /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmpho7qs1rc.py
removing /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmpho7qs1rc.py
writing byte-compilation script '/var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmph8c9wwrs.py'
/usr/bin/python3.11 -Wignore:The distutils package is deprecated and slated for removal in Python 3.12. Use setuptools or check PEP 632 for potential alternatives:DeprecationWarning /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmph8c9wwrs.py
removing /var/tmp/portage/sci-biology/pysam-0.21.0/temp/tmph8c9wwrs.py
running install_egg_info
running egg_info
writing pysam.egg-info/PKG-INFO
writing dependency_links to pysam.egg-info/dependency_links.txt
writing requirements to pysam.egg-info/requires.txt
writing top-level names to pysam.egg-info/top_level.txt
package init file 'samtools/__init__.py' not found (or not a regular file)
package init file 'bcftools/__init__.py' not found (or not a regular file)
ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any
reading manifest file 'pysam.egg-info/SOURCES.txt'
reading manifest template 'MANIFEST.in'
warning: no files found matching 'KNOWN_BUGS'
warning: no files found matching 'THANKS'
no previously-included directories found matching 'tests/'
warning: no files found matching 'htslib/LICENSE'
warning: no files found matching 'htslib/README'
warning: no files found matching '*.[ch]' under directory 'htslib'
warning: no previously-included files found matching 'htslib/*config*.h'
warning: no files found matching 'htslib/configure.ac'
warning: no files found matching 'htslib/m4/*.m4'
warning: no files found matching 'htslib/*.in'
warning: no files found matching 'htslib/configure'
warning: no files found matching 'htslib/version.sh'
warning: no files found matching 'htslib/Makefile'
warning: no files found matching 'htslib/*.mk'
warning: no previously-included files found matching 'htslib/config.mk'
warning: no previously-included files found matching 'htslib/htscodecs.mk'
adding license file 'COPYING'
adding license file 'AUTHORS'
writing manifest file 'pysam.egg-info/SOURCES.txt'
Copying pysam.egg-info to /var/tmp/portage/sci-biology/pysam-0.21.0/image/_python3.11/usr/lib/python3.11/site-packages/pysam-0.21.0-py3.11.egg-info
running install_scripts
 * Using python3.11 in global scope
 * python3_11: running distutils-r1_run_phase distutils-r1_python_install_all
>>> Completed installing sci-biology/pysam-0.21.0 into /var/tmp/portage/sci-biology/pysam-0.21.0/image

 * Final size of build directory: 193872 KiB (189.3 MiB)
 * Final size of installed tree:   70856 KiB ( 69.1 MiB)

 * QA_NOTICE DELETED BY TINDERBOX:
 * 
 * 	Package 'pysam.include.samtools.lz4' is absent from the `packages` configuration.
 * Verifying compiled files for python3.10
 * Verifying compiled files for python3.11
 * 
 * QA Notice: The following deprecated .egg or .egg-info files were found.
 * Please migrate the ebuild to use the PEP517 build.
 * 
 *   /usr/lib/python3.10/site-packages/pysam-0.21.0-py3.10.egg-info
 *   /usr/lib/python3.11/site-packages/pysam-0.21.0-py3.11.egg-info

 * QA Notice: Package seems to be missing a BDEPEND on dev-python/cython.
 * [1/1] Cythonizing pysam/libchtslib.pyx
 * [1/1] Cythonizing pysam/libcsamtools.pyx
 * [1/1] Cythonizing pysam/libcbcftools.pyx
 * [1/1] Cythonizing pysam/libcutils.pyx
 * [1/1] Cythonizing pysam/libcalignmentfile.pyx
 * [1/1] Cythonizing pysam/libcsamfile.pyx
 * [1/1] Cythonizing pysam/libcalignedsegment.pyx
 * [1/1] Cythonizing pysam/libctabix.pyx
 * [1/1] Cythonizing pysam/libcfaidx.pyx
 * [1/1] Cythonizing pysam/libcbcf.pyx
 * [1/1] Cythonizing pysam/libcbgzf.pyx
 * [1/1] Cythonizing pysam/libctabixproxies.pyx
 * [1/1] Cythonizing pysam/libcvcf.pyx
 * [1/1] Cythonizing pysam/libchtslib.pyx
 * [1/1] Cythonizing pysam/libcsamtools.pyx
 * [1/1] Cythonizing pysam/libcbcftools.pyx
 * [1/1] Cythonizing pysam/libcutils.pyx
 * [1/1] Cythonizing pysam/libcalignmentfile.pyx
 * [1/1] Cythonizing pysam/libcsamfile.pyx
 * [1/1] Cythonizing pysam/libcalignedsegment.pyx
 * [1/1] Cythonizing pysam/libctabix.pyx
 * [1/1] Cythonizing pysam/libcfaidx.pyx
 * [1/1] Cythonizing pysam/libcbcf.pyx
 * [1/1] Cythonizing pysam/libcbgzf.pyx
 * [1/1] Cythonizing pysam/libctabixproxies.pyx
 * [1/1] Cythonizing pysam/libcvcf.pyx

strip: i686-pc-linux-gnu-strip --strip-unneeded -N __gentoo_check_ldflags__ -R .comment -R .GCC.command.line -R .note.gnu.gold-version
   /usr/lib/python3.10/site-packages/pysam/libctabixproxies.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcbgzf.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcvcf.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcfaidx.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libctabix.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcsamfile.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcbcf.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcutils.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcalignedsegment.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcalignmentfile.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libchtslib.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcsamtools.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.10/site-packages/pysam/libcbcftools.cpython-310-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libctabixproxies.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcvcf.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcbgzf.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcfaidx.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcbcf.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libctabix.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcsamfile.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcalignedsegment.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcalignmentfile.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcutils.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libchtslib.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcsamtools.cpython-311-i386-linux-gnu.so
   /usr/lib/python3.11/site-packages/pysam/libcbcftools.cpython-311-i386-linux-gnu.so
>>> Done.