Attachment 842759 Details for Bug 886065 – build.log

build.log

build.log (text/plain), 120.83 KB, created by Agostino Sarubbo on 2022-12-15 08:06:17 UTC

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Creator: Agostino Sarubbo

Created: 2022-12-15 08:06:17 UTC

Size: 120.83 KB

patch

obsolete

> * Package:    sci-biology/wise-2.4.0_alpha-r1:0
> * Repository: gentoo
> * Maintainer: sci-biology@gentoo.org
> * USE:        abi_x86_64 amd64 elibc_glibc kernel_linux userland_GNU
> * 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/420c9bb0270a709952c98e97127230a35560955b  (Thu Dec 15 05:46:51 UTC 2022)
>@@@@@ END @@@@@
>
>
>
>##################
># emerge --info: #
>##################
>Portage 3.0.41 (python 3.10.9-final-0, default/linux/amd64/17.1, gcc-12, glibc-2.36-r6, 5.15.77-gentoo-dist x86_64)
>=================================================================
>System uname: Linux-5.15.77-gentoo-dist-x86_64-AMD_EPYC_7513_32-Core_Processor-with-glibc2.36
>KiB Mem:   263533016 total,   3053964 free
>KiB Swap:          0 total,         0 free
>Timestamp of repository gentoo: Thu, 15 Dec 2022 05:46:51 +0000
>sh bash 5.2_p15
>ld GNU ld (Gentoo 2.39 p5) 2.39.0
>app-misc/pax-utils:        1.3.5::gentoo
>app-shells/bash:           5.2_p15::gentoo
>dev-lang/perl:             5.36.0-r1::gentoo
>dev-lang/python:           3.8.16::gentoo, 3.9.16::gentoo, 3.10.9::gentoo, 3.11.1::gentoo
>dev-util/cmake:            3.25.1::gentoo
>dev-util/meson:            0.64.1::gentoo
>sys-apps/baselayout:       2.9::gentoo
>sys-apps/openrc:           0.45.2-r2::gentoo
>sys-apps/sandbox:          2.29::gentoo
>sys-devel/autoconf:        2.71-r5::gentoo
>sys-devel/automake:        1.16.5::gentoo
>sys-devel/binutils:        2.39-r4::gentoo
>sys-devel/binutils-config: 5.4.1::gentoo
>sys-devel/clang:           15.0.6::gentoo
>sys-devel/gcc:             12.2.1_p20221210::gentoo
>sys-devel/gcc-config:      2.8::gentoo
>sys-devel/libtool:         2.4.7-r1::gentoo
>sys-devel/llvm:            15.0.6::gentoo
>sys-devel/make:            4.4::gentoo
>sys-kernel/linux-headers:  6.0::gentoo (virtual/os-headers)
>sys-libs/glibc:            2.36-r6::gentoo
>Repositories:
>
>gentoo
>    location: /usr/portage
>    sync-type: rsync
>    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
>    priority: -1000
>    sync-rsync-verify-metamanifest: yes
>    sync-rsync-extra-opts: 
>    sync-rsync-verify-max-age: 24
>    sync-rsync-verify-jobs: 1
>
>ACCEPT_KEYWORDS="amd64 ~amd64"
>ACCEPT_LICENSE="* BSD"
>CBUILD="x86_64-pc-linux-gnu"
>CC="clang"
>CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
>CHOST="x86_64-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 /etc/texmf/language.dat.d /etc/texmf/language.def.d /etc/texmf/updmap.d /etc/texmf/web2c"
>CXX="clang++"
>CXXFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
>DISTDIR="/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/distdir"
>EMERGE_DEFAULT_OPTS="--with-bdeps=y -1 -k -b"
>ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY 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 -g0 -pipe -march=x86-64 -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 multilib-strict network-sandbox news parallel-fetch pid-sandbox 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 -g0 -pipe -march=x86-64 -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 amd64 bzip2 cli crypt dri elogind fortran gdbm iconv ipv6 jumbo-build libglvnd libtirpc multilib native-symlinks ncurses nls nptl openmp pam pcre readline seccomp split-usr ssl test-rust unicode xattr zlib" ABI_X86="64" ELIBC="glibc" KERNEL="linux" USERLAND="GNU"
>Unset:  ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, 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, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS
>
>
>
>
>
>##############################
># emerge history (qlop -mv): #
>##############################
>2022-12-15T07:37:02 >>> sci-biology/hmmer-2.3.2-r5
>2022-12-15T07:37:03 >>> dev-libs/icu-72.1
>2022-12-15T07:37:05 >>> media-libs/libjpeg-turbo-2.1.4
>2022-12-15T07:37:06 >>> dev-libs/zziplib-0.13.72-r2
>2022-12-15T07:37:08 >>> app-text/libpaper-2.0.4
>2022-12-15T07:37:09 >>> app-text/dvipsk-2021.1_p20210325-r1
>2022-12-15T07:37:11 >>> sys-apps/ed-1.18
>2022-12-15T07:37:12 >>> virtual/jpeg-100-r1
>2022-12-15T07:37:13 >>> x11-misc/xdg-user-dirs-0.18
>2022-12-15T07:37:16 >>> app-shells/tcsh-6.24.01-r1
>2022-12-15T07:37:15 >>> media-libs/libwebp-1.2.4
>2022-12-15T07:37:17 >>> app-text/docbook-xml-dtd-4.3-r2
>2022-12-15T07:37:18 >>> dev-libs/kpathsea-6.3.3_p20210325-r1
>2022-12-15T07:37:21 >>> dev-perl/MRO-Compat-0.130.0-r1
>2022-12-15T07:37:22 >>> dev-perl/XString-0.5.0
>2022-12-15T07:37:23 >>> dev-perl/PadWalker-2.500.0
>2022-12-15T07:37:20 >>> virtual/perl-Test-Simple-1.302.190
>2022-12-15T07:37:24 >>> dev-perl/Class-Data-Inheritable-0.90.0
>2022-12-15T07:37:25 >>> dev-lang/nasm-2.15.05
>2022-12-15T07:37:29 >>> dev-perl/Sub-Install-0.928.0-r1
>2022-12-15T07:37:27 >>> virtual/perl-Storable-3.260.0
>2022-12-15T07:37:28 >>> virtual/perl-Sys-Syslog-0.360.0-r2
>2022-12-15T07:37:30 >>> dev-perl/Devel-StackTrace-2.40.0
>2022-12-15T07:37:31 >>> dev-perl/Sub-Identify-0.140.0-r1
>2022-12-15T07:37:32 >>> dev-perl/Package-Stash-XS-0.290.0
>2022-12-15T07:37:33 >>> dev-perl/Variable-Magic-0.620.0-r1
>2022-12-15T07:37:34 >>> dev-perl/PerlIO-utf8_strict-0.8.0
>2022-12-15T07:37:35 >>> dev-perl/Role-Tiny-2.2.4
>2022-12-15T07:37:36 >>> dev-perl/Perl-Tidy-20211029.0.0
>2022-12-15T07:37:37 >>> dev-perl/Ref-Util-XS-0.117.0
>2022-12-15T07:37:39 >>> dev-perl/File-Which-1.270.0
>2022-12-15T07:37:40 >>> dev-perl/CPAN-Meta-Check-0.14.0-r1
>2022-12-15T07:37:41 >>> dev-perl/ExtUtils-HasCompiler-0.23.0
>2022-12-15T07:37:42 >>> dev-perl/Capture-Tiny-0.480.0-r1
>2022-12-15T07:37:44 >>> dev-perl/Module-Runtime-0.16.0-r1
>2022-12-15T07:37:43 >>> dev-perl/Sub-Quote-2.6.6-r1
>2022-12-15T07:37:45 >>> media-libs/harfbuzz-5.3.1-r1
>2022-12-15T07:37:54 >>> dev-libs/ptexenc-1.3.9_p20210325-r1
>2022-12-15T07:37:56 >>> dev-tex/bibtexu-3.71_p20210325
>2022-12-15T07:37:55 >>> app-text/ps2pkm-1.8_p20210325-r1
>2022-12-15T07:38:02 >>> dev-perl/Devel-Caller-2.60.0-r2
>2022-12-15T07:38:05 >>> dev-perl/Test-Fatal-0.16.0
>2022-12-15T07:38:10 >>> media-libs/gd-2.3.3-r1
>2022-12-15T07:38:15 >>> dev-perl/Exception-Class-1.450.0
>2022-12-15T07:38:22 >>> dev-perl/File-Slurper-0.12.0
>2022-12-15T07:38:26 >>> dev-perl/Ref-Util-0.204.0
>2022-12-15T07:38:28 >>> dev-perl/File-HomeDir-1.6.0
>2022-12-15T07:38:34 >>> dev-perl/Dist-CheckConflicts-0.110.0-r1
>2022-12-15T07:38:35 >>> dev-perl/Module-Implementation-0.90.0-r1
>2022-12-15T07:38:45 >>> dev-perl/Devel-LexAlias-0.50.0-r1
>2022-12-15T07:38:53 >>> dev-perl/Config-AutoConf-0.320.0
>2022-12-15T07:39:00 >>> dev-perl/Package-Stash-0.390.0
>2022-12-15T07:39:03 >>> dev-perl/Eval-Closure-0.140.0-r1
>2022-12-15T07:39:06 >>> dev-perl/Params-Util-1.102.0
>2022-12-15T07:39:10 >>> dev-perl/Params-ValidationCompiler-0.300.0
>2022-12-15T07:39:11 >>> dev-perl/Specio-0.480.0
>2022-12-15T07:39:12 >>> dev-perl/Data-OptList-0.112.0
>2022-12-15T07:39:18 >>> dev-perl/Sub-Exporter-0.988.0
>2022-12-15T07:39:21 >>> dev-perl/Sub-Exporter-Progressive-0.1.13-r1
>2022-12-15T07:39:24 >>> dev-perl/B-Hooks-EndOfScope-0.240.0-r1
>2022-12-15T07:39:25 >>> dev-perl/Devel-GlobalDestruction-0.140.0-r1
>2022-12-15T07:39:28 >>> dev-perl/namespace-clean-0.270.0-r1
>2022-12-15T07:39:31 >>> dev-perl/namespace-autoclean-0.290.0
>2022-12-15T07:39:34 >>> dev-perl/Log-Dispatch-2.700.0
>2022-12-15T07:39:37 >>> app-text/texlive-core-2021-r5
>2022-12-15T07:39:41 >>> dev-texlive/texlive-basic-2021
>2022-12-15T07:39:47 >>> dev-texlive/texlive-fontutils-2021
>2022-12-15T07:39:48 >>> dev-texlive/texlive-fontsrecommended-2021
>2022-12-15T07:39:49 >>> dev-texlive/texlive-latex-2021
>2022-12-15T07:40:02 >>> dev-texlive/texlive-latexrecommended-2021
>2022-12-15T07:40:06 >>> virtual/latex-base-1.0
>
>
>
>
>#######################################
># installed packages (qlist -ICvUSS): #
>#######################################
>acct-group/audio-0-r1:0
>acct-group/cdrom-0-r1:0
>acct-group/dialout-0-r1:0
>acct-group/disk-0-r1:0
>acct-group/input-0-r1:0
>acct-group/kmem-0-r1:0
>acct-group/kvm-0-r1:0
>acct-group/lp-0-r1:0
>acct-group/man-0-r1:0
>acct-group/messagebus-0-r1:0
>acct-group/polkitd-0-r1:0
>acct-group/portage-0:0
>acct-group/render-0-r1:0
>acct-group/sgx-0:0
>acct-group/sshd-0-r1:0
>acct-group/tape-0-r1:0
>acct-group/tty-0-r1:0
>acct-group/video-0-r1:0
>acct-user/man-1-r1:0
>acct-user/messagebus-0-r1:0
>acct-user/polkitd-0-r1:0
>acct-user/portage-0:0
>acct-user/sshd-0-r1:0
>app-admin/eselect-1.4.20:0 -doc -emacs -vim-syntax
>app-admin/perl-cleaner-2.30:0
>app-alternatives/awk-3:0 -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/gzip-0:0 -pigz reference split-usr
>app-alternatives/lex-0-r1:0 flex -reflex
>app-alternatives/tar-0:0 gnu -libarchive split-usr
>app-alternatives/yacc-1-r2:0 bison -byacc -reference
>app-arch/bzip2-1.0.8-r4:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 split-usr -static -static-libs -verify-sig
>app-arch/gzip-1.12-r3:0 -pic -static -verify-sig
>app-arch/libarchive-3.6.1-r1:0/13 -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 -verify-sig xattr -zstd
>app-arch/tar-1.34-r2:0 acl -minimal nls -selinux -verify-sig xattr
>app-arch/unzip-6.0_p27-r1:0 bzip2 -natspec unicode
>app-arch/xz-utils-5.4.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 extra-filters nls split-usr -static-libs -verify-sig
>app-arch/zstd-1.5.2-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 -lz4 split-usr -static-libs
>app-crypt/gnupg-2.3.8:0 bzip2 -doc -ldap nls readline -selinux smartcard ssl -test tofu -tools -tpm -usb -user-socket -verify-sig -wks-server
>app-crypt/gpgme-1.18.0-r2:1/11.6.15.1 -common-lisp cxx -python python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -qt5 -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/pinentry-1.2.1-r1:0 -caps -efl -emacs -gnome-keyring -gtk ncurses -qt5 -verify-sig
>app-crypt/rhash-1.4.3:0 -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 ssl -static-libs
>app-editors/nano-7.1:0 -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-0.7.2:0
>app-i18n/man-pages-ja-20180315-r1:0
>app-i18n/man-pages-l10n-4.14.0-r1:0 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_sr l10n_sv l10n_uk l10n_vi
>app-i18n/man-pages-ru-5.03.2390.2390.20191017-r1:0
>app-i18n/man-pages-zh_CN-1.6.3.6:0
>app-misc/c_rehash-1.7-r1:0
>app-misc/ca-certificates-20211016.3.86:0 -cacert
>app-misc/editor-wrapper-4-r1:0
>app-misc/mime-types-2.1.53:0 -nginx
>app-misc/pax-utils-1.3.5:0 -caps man -python python_single_target_python3_10 -python_single_target_python3_11 -python_single_target_python3_8 -python_single_target_python3_9 seccomp -test
>app-misc/tmux-3.3a-r1:0 -debug -selinux -systemd -utempter -vim-syntax
>app-portage/eix-0.36.5:0 -debug -doc nls -sqlite
>app-portage/elt-patches-20221210:0
>app-portage/gemato-17.0:0 gpg -pretty-log python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test -tools
>app-portage/gentoolkit-0.6.1-r3:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
>app-portage/portage-utils-0.94.4:0 openmp qmanifest qtegrity -static
>app-shells/bash-5.2_p15:0 -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-20190211-r1:0
>app-shells/push-3.4:0
>app-shells/quoter-4.2:0
>app-shells/tcsh-6.24.01-r1:0 -doc nls
>app-text/ansifilter-2.18:0 -qt5
>app-text/build-docbook-catalog-2.3-r1:0
>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-4.3-r2:4.3
>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-stylesheets-1.79.1-r3:0 -ruby
>app-text/dvipsk-2021.1_p20210325-r1:0 doc -source
>app-text/libpaper-2.0.4:0/2
>app-text/manpager-1:0
>app-text/opensp-1.5.2-r9:0 -doc nls -static-libs -test
>app-text/po4a-0.68:0 -test -test
>app-text/ps2pkm-1.8_p20210325-r1:0
>app-text/sgml-common-0.6.3-r7:0
>app-text/texlive-core-2021-r5:0 -X -cjk -doc luajittex -source -tk -xetex -xindy
>app-text/xmlto-0.0.28-r10:0 -latex text
>dev-db/sqlite-3.40.0:3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -doc -icu readline -secure-delete -static-libs -tcl -test -tools
>dev-lang/duktape-2.7.0-r3:0/2.7.0
>dev-lang/nasm-2.15.05:0 -doc
>dev-lang/perl-5.36.0-r1:0/5.36 -berkdb -debug -doc gdbm ithreads -minimal -quadmath
>dev-lang/python-3.11.1:3.11 -bluetooth -build ensurepip -examples gdbm -hardened -libedit -lto ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig
>dev-lang/python-3.10.9:3.10 -bluetooth -build ensurepip -examples gdbm -hardened -libedit -lto ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig xml
>dev-lang/python-3.9.16:3.9 -bluetooth -build ensurepip -examples gdbm -hardened -lto ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig xml
>dev-lang/python-3.8.16:3.8 -bluetooth -build ensurepip -examples gdbm -hardened -lto ncurses -pgo readline sqlite ssl -test -tk -valgrind -verify-sig -wininst xml
>dev-lang/python-exec-2.4.9:2 native-symlinks python_targets_pypy3 python_targets_python3_10 python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
>dev-lang/python-exec-conf-2.4.6:2 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
>dev-lang/tcl-8.6.13:0/8.6 -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-8.2.2-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 -cxx large -static-libs threads
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>dev-libs/mpc-1.3.1_rc1:0/3 -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
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>media-libs/fontconfig-2.14.1-r1:1.0 -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-2.12.1-r2:2 -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 -infinality png -static-libs -svg -utils
>media-libs/gd-2.3.3-r1:2/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -avif cpu_flags_x86_sse -fontconfig -heif jpeg png -static-libs -test -tiff -truetype webp -xpm zlib
>media-libs/harfbuzz-5.3.1-r1:0/4.0.0 -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/libjpeg-turbo-2.1.4:0/0.2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_neon -java -java -static-libs
>media-libs/libpng-1.6.39:0/16 -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
>media-libs/libwebp-1.2.4:0/7 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_neon cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 -gif jpeg -opengl png -static-libs -swap-16bit-csp -tiff
>net-dns/c-ares-1.18.1:0/2 -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
>net-dns/libidn2-2.3.4:0/2 -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-1.8.8-r5:0/1.8.3 -conntrack -netlink -nftables -pcap split-usr -static-libs
>net-libs/gnutls-3.7.8:0/30.30 -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 -guile idn nls openssl -pkcs11 seccomp -sslv2 -sslv3 -static-libs -test -test-full tls-heartbeat -tools -valgrind -verify-sig zlib -zstd
>net-libs/libmnl-1.0.5:0/0.2.0 -examples -verify-sig
>net-libs/libnsl-2.0.0-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 -static-libs
>net-libs/libtirpc-1.3.3:0/3 -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 split-usr -static-libs
>net-libs/nghttp2-1.51.0:0/1.14 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cxx -debug -hpack-tools -jemalloc -static-libs -test -utils -xml
>net-misc/curl-7.86.0-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 adns -alt-svc -brotli -curl_ssl_gnutls -curl_ssl_mbedtls -curl_ssl_nss curl_ssl_openssl -curl_ssl_rustls ftp -gnutls -gopher -hsts http2 -idn imap ipv6 -kerberos -ldap -mbedtls -nghttp3 -nss openssl pop3 progress-meter -quiche -rtmp -rustls -samba smtp -ssh ssl -sslv3 -static-libs -telnet -test tftp -verify-sig -websockets -zstd
>net-misc/dhcpcd-9.4.1:0 -debug embedded ipv6 -privsep udev
>net-misc/iputils-20221126:0 arping -caps -clockdiff -doc filecaps -idn nls -test -tracepath
>net-misc/netifrc-0.7.3-r1:0 dhcp
>net-misc/openssh-9.1_p1:0 -X -X509 -abi_mips_n32 -audit -debug -hpn -kerberos -ldns -libedit -livecd pam pie -sctp -security-key -selinux ssl -static -test -verify-sig -xmss
>net-misc/rsync-3.2.7-r1:0 acl -examples iconv -lz4 python_single_target_python3_10 -python_single_target_python3_8 -python_single_target_python3_9 -rrsync ssl -stunnel -system-zlib -verify-sig xattr -xxhash -zstd
>net-misc/wget-1.21.3-r1:0 -cookie-check -debug -gnutls -idn ipv6 -metalink nls -ntlm pcre ssl -static -test -uuid -verify-sig zlib
>perl-core/Compress-Raw-Zlib-2.202.0:0
>perl-core/File-Temp-0.231.100:0
>sci-biology/hmmer-2.3.2-r5:2 -cpu_flags_ppc_altivec -test
>sec-keys/openpgp-keys-gentoo-release-20220101:0 -test
>sys-apps/acl-2.3.1-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 split-usr -static-libs
>sys-apps/attr-2.5.1-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 -debug nls split-usr -static-libs
>sys-apps/baselayout-2.9:0 -build split-usr
>sys-apps/coreutils-9.1-r2:0 acl -caps -gmp -hostname -kill -multicall nls openssl -selinux split-usr -static -test -vanilla -verify-sig xattr
>sys-apps/dbus-1.15.2:0 -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
>sys-apps/debianutils-5.7:0 installkernel -static
>sys-apps/diffutils-3.8:0 nls -static -verify-sig
>sys-apps/ed-1.18:0 -verify-sig
>sys-apps/file-5.43-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 bzip2 -lzma -python python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -seccomp -static-libs -verify-sig zlib
>sys-apps/findutils-4.9.0-r2:0 nls -selinux -static -test -verify-sig
>sys-apps/gawk-5.2.1:0 -mpfr nls -pma readline -verify-sig
>sys-apps/gentoo-functions-0.17:0
>sys-apps/grep-3.8-r1:0 egrep-fgrep nls pcre -static -verify-sig
>sys-apps/groff-1.22.4:0 -X -examples -uchardet
>sys-apps/help2man-1.49.2:0 nls
>sys-apps/install-xattr-0.8:0
>sys-apps/iproute2-6.1.0:0 -atm -berkdb -bpf -caps -elf iptables -libbsd -minimal -nfs -selinux split-usr
>sys-apps/kbd-2.5.1:0 nls pam -test
>sys-apps/kmod-30:0 -debug -doc lzma -pkcs7 -python python_targets_python3_10 python_targets_python3_8 python_targets_python3_9 -static-libs tools zlib zstd
>sys-apps/less-608-r1:0 pcre unicode
>sys-apps/man-db-2.11.1:0 manpager nls seccomp -selinux -static-libs zlib
>sys-apps/man-pages-6.01:0 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
>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-0.45.2-r2:0 -audit -bash -debug ncurses netifrc -newnet pam -selinux -sysv-utils unicode
>sys-apps/portage-3.0.41:0 -apidoc -build -doc -gentoo-dev ipc native-extensions python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 rsync-verify -selinux -test xattr
>sys-apps/sandbox-2.29:0 -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-4.13-r1:0/4 acl -audit -bcrypt -cracklib nls pam -selinux -skey split-usr -su -verify-sig xattr
>sys-apps/systemd-utils-251.9:0 -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 kmod -selinux split-usr -split-usr -sysusers -test tmpfiles udev
>sys-apps/sysvinit-3.05:0 -ibm nls -selinux -static -verify-sig
>sys-apps/texinfo-7.0.1:0 nls standalone -static
>sys-apps/util-linux-2.38.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -audit -build -caps cramfs -cryptsetup -fdformat hardlink -kill logger -magic ncurses nls pam -python python_targets_python3_10 python_targets_python3_8 python_targets_python3_9 readline -rtas -selinux -slang split-usr -static-libs su suid -systemd -test -tty-helpers -udev unicode -verify-sig
>sys-apps/which-2.21:0
>sys-auth/elogind-246.10-r2:0 acl -audit cgroup-hybrid -debug -doc pam policykit -selinux -test
>sys-auth/pambase-20220214:0 -caps -debug elogind -gnome-keyring -homed -minimal -mktemp nullok -pam_krb5 -pam_ssh passwdqc -pwhistory -pwquality -securetty -selinux sha512 -systemd -yescrypt
>sys-auth/passwdqc-2.0.2-r1:0
>sys-auth/polkit-122:0 daemon duktape -examples -gtk introspection -kde pam -selinux -systemd -test
>sys-devel/autoconf-2.71-r5:2.71 -emacs
>sys-devel/autoconf-archive-2022.09.03:0
>sys-devel/autoconf-wrapper-20221207:0
>sys-devel/automake-1.16.5:1.16 -test
>sys-devel/automake-wrapper-11-r1:0
>sys-devel/bc-1.07.1-r6:0 -libedit readline -static
>sys-devel/binutils-2.39-r4:2.39 -cet -default-gold -doc -gold -gprofng -multitarget nls -pgo plugins -static-libs -test -vanilla
>sys-devel/binutils-config-5.4.1:0 native-symlinks
>sys-devel/bison-3.8.2-r2:0 -examples nls -static -test -verify-sig
>sys-devel/clang-15.0.6:15/15 -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 -doc extra llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai -llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore pie python_single_target_python3_10 -python_single_target_python3_11 -python_single_target_python3_8 -python_single_target_python3_9 static-analyzer -test -test -verify-sig -xml
>sys-devel/clang-common-15.0.6:0 -default-compiler-rt -default-libcxx -default-lld -llvm-libunwind -stricter -verify-sig
>sys-devel/clang-runtime-15.0.6:15.0.6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 abi_x86_32 abi_x86_64 -abi_x86_x32 compiler-rt -libcxx openmp sanitize
>sys-devel/clang-toolchain-symlinks-15-r2:15 -gcc-symlinks -multilib-symlinks native-symlinks
>sys-devel/flex-2.6.4-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 nls -static -test
>sys-devel/gcc-12.2.1_p20221210:12 -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 multilib nls nptl -objc -objc++ -objc-gc openmp -pch -pgo pie sanitize ssp -systemtap -test -valgrind -vanilla -vtv -zstd
>sys-devel/gcc-config-2.8:0 cc-wrappers native-symlinks
>sys-devel/gettext-0.21.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 acl -cvs cxx -doc -emacs -git -java -java ncurses nls openmp -static-libs -verify-sig
>sys-devel/gnuconfig-20221007:0
>sys-devel/libtool-2.4.7-r1:2 -vanilla
>sys-devel/llvm-15.0.6:15/15 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 binutils-plugin -debug -doc -doc -exegesis -libedit libffi llvm_targets_AArch64 llvm_targets_AMDGPU -llvm_targets_ARC llvm_targets_ARM llvm_targets_AVR llvm_targets_BPF -llvm_targets_CSKY -llvm_targets_DirectX llvm_targets_Hexagon llvm_targets_Lanai -llvm_targets_LoongArch -llvm_targets_M68k llvm_targets_MSP430 llvm_targets_Mips llvm_targets_NVPTX llvm_targets_PowerPC llvm_targets_RISCV -llvm_targets_SPIRV llvm_targets_Sparc llvm_targets_SystemZ llvm_targets_VE llvm_targets_WebAssembly llvm_targets_X86 llvm_targets_XCore ncurses -test -verify-sig -xar -xml -z3 -zstd
>sys-devel/llvm-common-15.0.6:0 -verify-sig
>sys-devel/llvm-toolchain-symlinks-15-r1:15 -multilib-symlinks native-symlinks
>sys-devel/llvmgold-15:0
>sys-devel/m4-1.4.19:0 -examples nls -verify-sig
>sys-devel/make-4.4:0 -guile nls -static -verify-sig
>sys-devel/patch-2.7.6-r5:0 -static -test -verify-sig xattr
>sys-fs/e2fsprogs-1.46.5-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 -cron -fuse -lto nls split-usr -static-libs -test tools
>sys-fs/udev-init-scripts-35:0
>sys-kernel/installkernel-gentoo-5:0 -grub
>sys-kernel/linux-headers-6.0:0 -headers-only
>sys-libs/binutils-libs-2.39-r4:0/2.39 -64-bit-bfd -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cet -multitarget nls -static-libs
>sys-libs/compiler-rt-15.0.6:15.0.6 abi_x86_32 abi_x86_64 clang -debug -test -verify-sig
>sys-libs/compiler-rt-sanitizers-15.0.6:15.0.6 abi_x86_32 abi_x86_64 asan cfi clang -debug dfsan gwp-asan hwasan libfuzzer lsan memprof msan orc profile safestack scudo -shadowcallstack -test -test tsan ubsan -verify-sig xray
>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-2.36-r6:2.2 -audit -caps -cet -compile-locales -crypt -custom-cflags -doc -gd -hash-sysv-compat -headers-only multiarch multilib -multilib-bootstrap -nscd -profile -selinux ssp stack-realign static-libs -suid -systemd -systemtap -test -vanilla
>sys-libs/libcap-2.66:0 -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 split-usr -static-libs -tools
>sys-libs/libomp-15.0.6:0/15 -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 -hwloc -llvm_targets_AMDGPU -llvm_targets_NVPTX -offload -ompt -test -verify-sig
>sys-libs/libseccomp-2.5.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -experimental-loong -python python_targets_python3_10 python_targets_python3_8 python_targets_python3_9 -static-libs -test
>sys-libs/libxcrypt-4.4.33:0/1 -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 split-usr -static-libs system -test
>sys-libs/ncurses-6.3_p20221203:0/6 -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-1.5.2-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 -audit -berkdb -debug filecaps -nis -selinux split-usr
>sys-libs/readline-8.2_p1:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 split-usr -static-libs unicode -utils -verify-sig
>sys-libs/timezone-data-2022g:0 -leaps-timezone nls -zic-slim
>sys-libs/zlib-1.2.13-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 split-usr -static-libs -verify-sig
>sys-process/procps-3.3.17-r1:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 elogind kill -modern-top ncurses nls -selinux split-usr -static-libs -systemd -test unicode
>sys-process/psmisc-23.6:0 -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/editor-0-r4:0
>virtual/jpeg-100-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 -static-libs
>virtual/latex-base-1.0:0
>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-232-r7:0/1 -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/os-headers-0-r2:0
>virtual/package-manager-1:0
>virtual/pager-0-r1:0
>virtual/perl-Carp-1.520.0-r2:0
>virtual/perl-Compress-Raw-Bzip2-2.103.0-r3:0
>virtual/perl-Compress-Raw-Zlib-2.202.0:0
>virtual/perl-CPAN-2.330.0:0
>virtual/perl-CPAN-Meta-2.150.10-r6:0
>virtual/perl-CPAN-Meta-Requirements-2.140.0-r8:0
>virtual/perl-CPAN-Meta-YAML-0.18.0-r8:0
>virtual/perl-Data-Dumper-2.184.0:0
>virtual/perl-Digest-MD5-2.580.0-r1:0
>virtual/perl-Encode-3.170.0:0
>virtual/perl-Exporter-5.770.0:0
>virtual/perl-ExtUtils-CBuilder-0.280.236-r1:0
>virtual/perl-ExtUtils-Install-2.200.0-r1:0
>virtual/perl-ExtUtils-MakeMaker-7.640.0:0
>virtual/perl-ExtUtils-Manifest-1.730.0-r1:0
>virtual/perl-ExtUtils-ParseXS-3.450.0:0
>virtual/perl-File-Path-2.180.0-r1:0
>virtual/perl-File-Spec-3.840.0:0
>virtual/perl-File-Temp-0.231.100:0
>virtual/perl-Getopt-Long-2.520.0-r1:0
>virtual/perl-IO-1.500.0:0
>virtual/perl-IO-Compress-2.106.0:0
>virtual/perl-IO-Socket-IP-0.410.0-r1:0
>virtual/perl-JSON-PP-4.70.0:0
>virtual/perl-libnet-3.140.0:0 ssl
>virtual/perl-MIME-Base64-3.160.0-r1:0
>virtual/perl-Module-Metadata-1.0.37-r2:0
>virtual/perl-parent-0.238.0-r2:0
>virtual/perl-Parse-CPAN-Meta-2.150.10-r6:0
>virtual/perl-Perl-OSType-1.10.0-r6:0
>virtual/perl-podlators-4.140.0-r3:0
>virtual/perl-Scalar-List-Utils-1.620.0:0
>virtual/perl-Storable-3.260.0:0
>virtual/perl-Sys-Syslog-0.360.0-r2:0
>virtual/perl-Test-Harness-3.440.0:0
>virtual/perl-Test-Simple-1.302.190:0
>virtual/perl-Text-ParseWords-3.310.0:0
>virtual/perl-Time-Local-1.300.0-r1:0
>virtual/perl-version-0.992.900:0
>virtual/perl-XSLoader-0.310.0:0
>virtual/pkgconfig-2-r1:0
>virtual/service-manager-1-r1:0
>virtual/ssh-0-r1:0 -minimal
>virtual/tmpfiles-0-r3:0
>virtual/ttf-fonts-1-r2:0
>virtual/udev-217-r5:0
>virtual/w3m-1:0
>www-client/pybugz-0.13-r2:0 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
>www-client/w3m-0.5.3_p20220429-r1:0 -X -fbcon -gdk-pixbuf -gpm -imlib l10n_ja -lynxkeymap nls -nntp ssl unicode -xface
>x11-apps/xprop-1.2.6:0
>x11-apps/xset-1.2.5:0
>x11-base/xcb-proto-1.15.2:0 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
>x11-base/xorg-proto-2022.2:0 -test
>x11-libs/cairo-1.17.6:0 -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 -gles2-only -gles3 glib -gtk-doc -opengl -test
>x11-libs/libICE-1.1.1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
>x11-libs/libSM-1.2.3-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 -doc ipv6 uuid
>x11-libs/libX11-1.8.2-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 -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-1.15-r1:0/1.12 -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-1.1.4-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 -doc
>x11-libs/libXext-1.3.5:0 -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/libXmu-1.1.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc
>x11-libs/libXt-1.2.1:0 -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 -test
>x11-libs/pixman-0.42.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -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-1.4.0:0 -doc
>x11-misc/compose-tables-1.8.2:0
>x11-misc/shared-mime-info-2.2:0 -test
>x11-misc/xdg-user-dirs-0.18:0 -gtk
>x11-misc/xdg-utils-1.1.3_p20210805-r1:0 -dbus -doc -gnome
>
>
>#######################
># build.log           #
>#######################
>>>> Unpacking source...
>>>> Unpacking wise2.4.0alpha.tar.gz to /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work
>>>> Unpacking wise-2.4.0_alpha-patchset.tar.bz2 to /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work
>>>> Source unpacked in /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work
>>>> Preparing source in /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha ...
> * Applying wise-2.4.0_alpha-glibc-2.10.patch ...
> [ ok ]
> * Applying wise-2.4.0_alpha-cflags.patch ...
> [ ok ]
> * Applying wise-api.tex.patch ...
>patching file api.tex
>Hunk #4 succeeded at 5551 with fuzz 1 (offset 496 lines).
> [ ok ]
>>>> Source prepared.
>>>> Configuring source in /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha ...
>>>> Source configured.
>>>> Compiling source in /var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha ...
>make -j16 -C src all 
>make: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src'
>(cd base   ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" libwisebase.a )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/base'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wiseconfig.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wisestring.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wiseerror.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wisememman.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wisefile.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wiserandom.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wisetime.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wiseoverlay.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  wisestreaminterface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  commandline.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  linesubs.c
>wisefile.dy:72:33: warning: format specifies type 'int' but the argument has type 'FILE *' (aka 'struct _IO_FILE *') [-Wformat]
>  fprintf(stderr,"Closing %d\n",ofp);
>                          ~~    ^~~
>1 warning generated.
>ar ru libwisebase.a wiseconfig.o wisestring.o wiseerror.o wisememman.o wisefile.o wiserandom.o wisetime.o wiseoverlay.o wisestreaminterface.o commandline.o linesubs.o
>ar: creating libwisebase.a
>if test -x /bin/ranlib; then /bin/ranlib libwisebase.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libwisebase.a; else exit 0; fi
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/base'
>(cd HMMer2 ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" libhmmer.a )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/HMMer2'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c alphabet.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c core_algorithms.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c debug.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c emit.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c emulation.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c histogram.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c hmmio.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c mathsupport.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c masks.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c misc.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c modelmakers.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c plan7.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c plan9.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c prior.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c tophits.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c trace.c		
>prior.c:102:12: warning: call to undeclared library function 'strcmp' with type 'int (const char *, const char *)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
>  if      (strcmp(sptr, "DIRICHLET") == 0) pri->strategy = PRI_DCHLET;
>           ^
>prior.c:102:12: note: include the header <string.h> or explicitly provide a declaration for 'strcmp'
>alphabet.c:236:9: warning: logical not is only applied to the left hand side of this bitwise operator [-Wlogical-not-parentheses]
>    if (! ainfo->sqinfo[idx].flags & SQINFO_LEN) {
>        ^                          ~
>alphabet.c:236:9: note: add parentheses after the '!' to evaluate the bitwise operator first
>    if (! ainfo->sqinfo[idx].flags & SQINFO_LEN) {
>        ^
>          (                                    )
>alphabet.c:236:9: note: add parentheses around left hand side expression to silence this warning
>    if (! ainfo->sqinfo[idx].flags & SQINFO_LEN) {
>        ^
>        (                         )
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c aligneval.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c alignio.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c cluster.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c dayhoff.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c file.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c getopt.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c gnuregex.c		
>1 warning generated.
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c interleaved.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c iupac.c		
>gnuregex.c:795:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_set_syntax (syntax)
>^
>gnuregex.c:1175:37: warning: passing arguments to 'at_begline_loc_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                || at_begline_loc_p (pattern, p, syntax))
>                                    ^
>gnuregex.c:1190:37: warning: passing arguments to 'at_endline_loc_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                || at_endline_loc_p (p, pend, syntax))
>                                    ^
>gnuregex.c:1296:21: warning: passing arguments to 'store_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                    STORE_JUMP (jump, b, laststart);
>                    ^
>gnuregex.c:903:13: note: expanded from macro 'STORE_JUMP'
>  store_op1 (op, loc, (to) - (loc) - 3)
>            ^
>gnuregex.c:1301:19: warning: passing arguments to 'store_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                  STORE_JUMP (maybe_pop_jump, b, laststart - 3);
>                  ^
>gnuregex.c:903:13: note: expanded from macro 'STORE_JUMP'
>  store_op1 (op, loc, (to) - (loc) - 3)
>            ^
>gnuregex.c:1310:13: warning: passing arguments to 'insert_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>            INSERT_JUMP (keep_string_p ? on_failure_keep_string_jump
>            ^
>gnuregex.c:911:14: note: expanded from macro 'INSERT_JUMP'
>  insert_op1 (op, loc, (to) - (loc) - 3, b)
>             ^
>gnuregex.c:1324:17: warning: passing arguments to 'insert_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                INSERT_JUMP (dummy_failure_jump, laststart, laststart + 6);
>                ^
>gnuregex.c:911:14: note: expanded from macro 'INSERT_JUMP'
>  insert_op1 (op, loc, (to) - (loc) - 3, b)
>             ^
>gnuregex.c:1407:39: warning: passing arguments to 'compile_range' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                      = compile_range (&p, pend, translate, syntax, b);
>                                      ^
>gnuregex.c:1418:41: warning: passing arguments to 'compile_range' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                    ret = compile_range (&p, pend, translate, syntax, b);
>                                        ^
>gnuregex.c:1616:17: warning: add explicit braces to avoid dangling else [-Wdangling-else]
>                else
>                ^
>gnuregex.c:1629:19: warning: passing arguments to 'store_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                  STORE_JUMP (jump_past_alt, fixup_alt_jump, b - 1);
>                  ^
>gnuregex.c:903:13: note: expanded from macro 'STORE_JUMP'
>  store_op1 (op, loc, (to) - (loc) - 3)
>            ^
>gnuregex.c:1636:17: warning: add explicit braces to avoid dangling else [-Wdangling-else]
>                else
>                ^
>gnuregex.c:1686:15: warning: passing arguments to 'insert_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>              INSERT_JUMP (on_failure_jump, begalt, b + 6);
>              ^
>gnuregex.c:911:14: note: expanded from macro 'INSERT_JUMP'
>  insert_op1 (op, loc, (to) - (loc) - 3, b)
>             ^
>gnuregex.c:1707:17: warning: passing arguments to 'store_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                STORE_JUMP (jump_past_alt, fixup_alt_jump, b);
>                ^
>gnuregex.c:903:13: note: expanded from macro 'STORE_JUMP'
>  store_op1 (op, loc, (to) - (loc) - 3)
>            ^
>gnuregex.c:1801:22: warning: passing arguments to 'insert_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                     INSERT_JUMP (jump, laststart, b + 3);
>                     ^
>gnuregex.c:911:14: note: expanded from macro 'INSERT_JUMP'
>  insert_op1 (op, loc, (to) - (loc) - 3, b)
>             ^
>gnuregex.c:1826:22: warning: passing arguments to 'insert_op2' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                     INSERT_JUMP2 (succeed_n, laststart,
>                     ^
>gnuregex.c:915:14: note: expanded from macro 'INSERT_JUMP2'
>  insert_op2 (op, loc, (to) - (loc) - 3, arg, b)
>             ^
>gnuregex.c:1835:33: warning: passing arguments to 'insert_op2' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                     insert_op2 (set_number_at, laststart, 5, lower_bound, b);
>                                ^
>gnuregex.c:1846:26: warning: passing arguments to 'store_op2' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                         STORE_JUMP2 (jump_n, b, laststart + 5,
>                         ^
>gnuregex.c:907:13: note: expanded from macro 'STORE_JUMP2'
>  store_op2 (op, loc, (to) - (loc) - 3, arg)
>            ^
>gnuregex.c:1864:37: warning: passing arguments to 'insert_op2' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                         insert_op2 (set_number_at, laststart, b - laststart,
>                                    ^
>gnuregex.c:1958:42: warning: passing arguments to 'group_in_compile_stack' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>              if (group_in_compile_stack (compile_stack, c1))
>                                         ^
>1 warning generated.
>gnuregex.c:2024:5: warning: passing arguments to 'store_op1' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>    STORE_JUMP (jump_past_alt, fixup_alt_jump, b);
>    ^
>gnuregex.c:903:13: note: expanded from macro 'STORE_JUMP'
>  store_op1 (op, loc, (to) - (loc) - 3)
>            ^
>gnuregex.c:1049:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>regex_compile (pattern, size, syntax, bufp)
>^
>gnuregex.c:2050:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>store_op1 (op, loc, arg)
>^
>gnuregex.c:2063:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>store_op2 (op, loc, arg1, arg2)
>^
>gnuregex.c:2078:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>insert_op1 (op, loc, arg, end)
>^
>gnuregex.c:2097:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>insert_op2 (op, loc, arg1, arg2, end)
>^
>gnuregex.c:2118:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>at_begline_loc_p (pattern, p, syntax)
>^
>gnuregex.c:2137:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>at_endline_loc_p (p, pend, syntax)
>^
>gnuregex.c:2159:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>group_in_compile_stack (compile_stack, regnum)
>^
>gnuregex.c:2187:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>compile_range (p_ptr, pend, translate, syntax, b)
>^
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c msf.c		
>gnuregex.c:2519:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_compile_fastmap (bufp)
>^
>gnuregex.c:2804:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_set_registers (bufp, regs, num_regs, starts, ends)
>^
>gnuregex.c:2821:33: warning: expression which evaluates to zero treated as a null pointer constant of type 'regoff_t *' (aka 'int *') [-Wnon-literal-null-conversion]
>      regs->start = regs->end = (regoff_t) 0;
>                                ^~~~~~~~~~~~
>gnuregex.c:2831:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_search (bufp, string, size, startpos, range, regs)
>^
>gnuregex.c:2864:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_search_2 (bufp, string1, size1, string2, size2, startpos, range, regs, stop)
>^
>gnuregex.c:3123:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_match (bufp, string, size, pos, regs)
>^
>gnuregex.c:3148:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>re_match_2 (bufp, string1, size1, string2, size2, pos, regs, stop)
>^
>gnuregex.c:3604:43: warning: passing arguments to 'group_match_null_string_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>              = group_match_null_string_p (&p1, pend, reg_info);
>                                          ^
>gnuregex.c:3752:31: warning: cast to smaller integer type 'int' from 'char *' [-Wpointer-to-int-cast]
>                          if ((int) old_regend[r] >= (int) regstart[r])
>                              ^~~~~~~~~~~~~~~~~~~
>gnuregex.c:3752:54: warning: cast to smaller integer type 'int' from 'char *' [-Wpointer-to-int-cast]
>                          if ((int) old_regend[r] >= (int) regstart[r])
>                                                     ^~~~~~~~~~~~~~~~~
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c revcomp.c		
>gnuregex.c:3758:19: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>                  PUSH_FAILURE_POINT (p1 + mcnt, d, -2);
>                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2394:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (lowest_active_reg);                              \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:3758:19: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>                  PUSH_FAILURE_POINT (p1 + mcnt, d, -2);
>                  ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2397:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (highest_active_reg);                             \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c selex.c		
>gnuregex.c:3822:38: warning: passing arguments to 'bcmp_translate' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                    ? bcmp_translate (d, d2, mcnt, translate) 
>                                     ^
>gnuregex.c:3905:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (p + mcnt, NULL, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2394:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (lowest_active_reg);                              \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:3905:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (p + mcnt, NULL, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2397:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (highest_active_reg);                             \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:3958:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (p + mcnt, d, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2394:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (lowest_active_reg);                              \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:3958:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (p + mcnt, d, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2397:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (highest_active_reg);                             \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4064:13: warning: cast to smaller integer type 'unsigned int' from 'fail_stack_elt_t' (aka 'unsigned char *') [-Wpointer-to-int-cast]
>            POP_FAILURE_POINT (sdummy, pdummy,
>            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2482:14: note: expanded from macro 'POP_FAILURE_POINT'
>  high_reg = (unsigned) POP_FAILURE_ITEM ();                            \
>             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4064:13: warning: cast to smaller integer type 'unsigned int' from 'fail_stack_elt_t' (aka 'unsigned char *') [-Wpointer-to-int-cast]
>            POP_FAILURE_POINT (sdummy, pdummy,
>            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2485:13: note: expanded from macro 'POP_FAILURE_POINT'
>  low_reg = (unsigned) POP_FAILURE_ITEM ();                             \
>            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4097:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (0, 0, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2394:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (lowest_active_reg);                              \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4097:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (0, 0, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2397:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (highest_active_reg);                             \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4110:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (0, 0, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2394:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (lowest_active_reg);                              \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4110:11: warning: cast to 'fail_stack_elt_t' (aka 'unsigned char *') from smaller integer type 'unsigned int' [-Wint-to-pointer-cast]
>          PUSH_FAILURE_POINT (0, 0, -2);
>          ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2397:5: note: expanded from macro 'PUSH_FAILURE_POINT'
>    PUSH_FAILURE_ITEM (highest_active_reg);                             \
>    ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2315:42: note: expanded from macro 'PUSH_FAILURE_ITEM'
>  fail_stack.stack[fail_stack.avail++] = (fail_stack_elt_t) item
>                                         ^~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4278:11: warning: cast to smaller integer type 'unsigned int' from 'fail_stack_elt_t' (aka 'unsigned char *') [-Wpointer-to-int-cast]
>          POP_FAILURE_POINT (d, p,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2482:14: note: expanded from macro 'POP_FAILURE_POINT'
>  high_reg = (unsigned) POP_FAILURE_ITEM ();                            \
>             ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:4278:11: warning: cast to smaller integer type 'unsigned int' from 'fail_stack_elt_t' (aka 'unsigned char *') [-Wpointer-to-int-cast]
>          POP_FAILURE_POINT (d, p,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>gnuregex.c:2485:13: note: expanded from macro 'POP_FAILURE_POINT'
>  low_reg = (unsigned) POP_FAILURE_ITEM ();                             \
>            ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c sqerror.c		
>interleaved.c:165:82: warning: size argument in 'strncmp' call is a comparison [-Wmemsize-comparison]
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                                                           ~~~~~~~~~~~~~~~~~~~~~~^~~~
>interleaved.c:165:32: note: did you mean to compare the result of 'strncmp' instead?
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                               ^                                                     ~
>                                                                                )
>interleaved.c:165:60: note: explicitly cast the argument to size_t to silence this warning
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                                                           ^
>                                                           (size_t)(                 )
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c sqio.c		
>interleaved.c:240:82: warning: size argument in 'strncmp' call is a comparison [-Wmemsize-comparison]
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                                                           ~~~~~~~~~~~~~~~~~~~~~~^~~~
>interleaved.c:240:32: note: did you mean to compare the result of 'strncmp' instead?
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                               ^                                                     ~
>                                                                                )
>interleaved.c:240:60: note: explicitly cast the argument to size_t to silence this warning
>  if (expected_name != NULL && strncmp(buf, expected_name, strlen(expected_name) == 0))
>                                                           ^
>                                                           (size_t)(                 )
>gnuregex.c:4394:48: warning: passing arguments to 'alt_match_null_string_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>                  if (!alt_match_null_string_p (p1, p1 + mcnt - 3, 
>                                               ^
>gnuregex.c:4424:44: warning: passing arguments to 'alt_match_null_string_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>              if (!alt_match_null_string_p (p1, p1 + mcnt, reg_info))
>                                           ^
>gnuregex.c:4439:46: warning: passing arguments to 'common_op_match_null_string_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>          if (!common_op_match_null_string_p (&p1, end, reg_info))
>                                             ^
>gnuregex.c:4344:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>group_match_null_string_p (p, end, reg_info)
>^
>gnuregex.c:4475:46: warning: passing arguments to 'common_op_match_null_string_p' without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>          if (!common_op_match_null_string_p (&p1, end, reg_info))
>                                             ^
>gnuregex.c:4453:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>alt_match_null_string_p (p, end, reg_info)
>^
>gnuregex.c:4490:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>common_op_match_null_string_p (p, end, reg_info)
>^
>gnuregex.c:4578:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>bcmp_translate (s1, s2, len, translate)
>^
>gnuregex.c:4720:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>regcomp (preg, pattern, cflags)
>^
>gnuregex.c:4795:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>regexec (preg, string, nmatch, pmatch, eflags)
>^
>gnuregex.c:4860:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>regerror (errcode, preg, errbuf, errbuf_size)
>^
>gnuregex.c:4904:1: warning: a function definition without a prototype is deprecated in all versions of C and is not supported in C2x [-Wdeprecated-non-prototype]
>regfree (preg)
>^
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c sre_ctype.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c sre_math.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c sre_string.c		
>sqio.c:1033:9: warning: comparison of array 'sp' equal to a null pointer is always false [-Wtautological-pointer-compare]
>    if (sp==NULL || *sp=='\0')
>        ^~  ~~~~
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c stack.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c translate.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c types.c		
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include   -c weight.c		
>2 warnings generated.
>1 warning generated.
>67 warnings generated.
>ar rcv  libhmmer.a alphabet.o    core_algorithms.o debug.o	          emit.o emulation.o   histogram.o       hmmio.o           mathsupport.o masks.o       misc.o            modelmakers.o     plan7.o plan9.o       prior.o           tophits.o         trace.o aligneval.o   alignio.o         cluster.o         dayhoff.o file.o        getopt.o          gnuregex.o        interleaved.o iupac.o       msf.o             revcomp.o         selex.o sqerror.o     sqio.o            sre_ctype.o       sre_math.o sre_string.o  stack.o           translate.o       types.o weight.o
>a - alphabet.o
>a - core_algorithms.o
>a - debug.o
>a - emit.o
>a - emulation.o
>a - histogram.o
>a - hmmio.o
>a - mathsupport.o
>a - masks.o
>a - misc.o
>a - modelmakers.o
>a - plan7.o
>a - plan9.o
>a - prior.o
>a - tophits.o
>a - trace.o
>a - aligneval.o
>a - alignio.o
>a - cluster.o
>a - dayhoff.o
>a - file.o
>a - getopt.o
>a - gnuregex.o
>a - interleaved.o
>a - iupac.o
>a - msf.o
>a - revcomp.o
>a - selex.o
>a - sqerror.o
>a - sqio.o
>a - sre_ctype.o
>a - sre_math.o
>a - sre_string.o
>a - stack.o
>a - translate.o
>a - types.o
>a - weight.o
>if test -x /bin/ranlib; then /bin/ranlib libhmmer.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libhmmer.a; else exit 0; fi
>if test -x ranlib; then ranlib libhmmer.a; else exit 0; fi
>chmod 644 libhmmer.a
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/HMMer2'
>(cd dynlibsrc ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" libdyna.a )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dynlibsrc'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ packaln.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ aln.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dnamatrix.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ probability.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ alnrange.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ alnconvert.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ basematrix.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ shattermatrix.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ matrixdebug.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dpenvelope.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dbsearchimpl.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dprunimpl.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ complexsequence.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ complexevalset.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ complexconsensi.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ sequence.c
>dpenvelope.dy:68:1: warning: non-void function does not return a value in all control paths [-Wreturn-type]
>}
>^
>aln.dy:867:65: warning: data argument not used by format string [-Wformat-extra-args]
>      fprintf(ofp," {%3.2f}  ",(double)(*score_to_double)(cuml),cuml);
>                  ~~~~~~~~~~~~                                  ^
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ sequencestream.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ seqalign.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hitlist.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hsp.c
>1 warning generated.
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hspstream.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ codon.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ compmat.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ codonmatrix.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ codonmapper.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ sequencedb.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hscore.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ seqlookup.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ arrayseqlookup.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ genericindexresult.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ linkedlist_lookpos.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ singlenumberspace.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ histogram.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ searchstatinterface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ searchstatlookup.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ proteindb.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ protein.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ pairbase.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ pairbaseseq.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ genomicdb.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ randommodel.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ randomdb.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ genomic.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ cdna.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ cdnadb.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dna.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ embl.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ genomicregion.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ gene.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ transcript.c
>1 warning generated.
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ translation.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ btcanvas.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ asciibtcanvas.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dynlibcross.c
>ar ru libdyna.a packaln.o aln.o dnamatrix.o probability.o alnrange.o alnconvert.o basematrix.o shattermatrix.o matrixdebug.o dpenvelope.o dbsearchimpl.o dprunimpl.o complexsequence.o complexevalset.o complexconsensi.o sequence.o sequencestream.o seqalign.o hitlist.o hsp.o hspstream.o codon.o compmat.o codonmatrix.o codonmapper.o sequencedb.o hscore.o seqlookup.o arrayseqlookup.o genericindexresult.o linkedlist_lookpos.o singlenumberspace.o histogram.o searchstatinterface.o searchstatlookup.o proteindb.o protein.o pairbase.o pairbaseseq.o genomicdb.o randommodel.o randomdb.o genomic.o cdna.o cdnadb.o dna.o embl.o genomicregion.o gene.o transcript.o translation.o btcanvas.o asciibtcanvas.o dynlibcross.o
>ar: creating libdyna.a
>if test -x /bin/ranlib; then /bin/ranlib libdyna.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libdyna.a; else exit 0; fi
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dynlibsrc'
>(cd dynlibsrc ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" libdyna_glib.a )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dynlibsrc'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ subseqhash.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ intallocator.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ proteinstreamedindex.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ shadowseq.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ shadowseqindex.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hsphandler.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hspscaninterface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hsp2hitscan.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hsplookupscan.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ hsplookupthreaded.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ proteinindexcons.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ dnaindexcons.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ staticseq.c
>subseqhash.dy:111:29: warning: cast to 'gconstpointer' (aka 'const void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>  if( g_hash_table_lookup(h,(gconstpointer)seq_number) == NULL ) {
>                            ^~~~~~~~~~~~~~~~~~~~~~~~~
>subseqhash.dy:128:85: warning: cast to 'gconstpointer' (aka 'const void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>  return new_linkedl_SeqLookupResultInterface((SeqLookupPos *)g_hash_table_lookup(h,(gconstpointer)seq_number));
>                                                                                    ^~~~~~~~~~~~~~~~~~~~~~~~~
>subseqhash.dy:160:54: warning: cast to 'gconstpointer' (aka 'const void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>    if((ret = (SeqLookupPos *) g_hash_table_lookup(h,(gconstpointer)seq_number)) == NULL ) {
>                                                     ^~~~~~~~~~~~~~~~~~~~~~~~~
>subseqhash.dy:161:29: warning: cast to 'gpointer' (aka 'void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>      g_hash_table_insert(h,(gpointer)seq_number,p);
>                            ^~~~~~~~~~~~~~~~~~~~
>subseqhash.dy:188:52: warning: cast to 'gconstpointer' (aka 'const void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>  if((ret = (SeqLookupPos *) g_hash_table_lookup(h,(gconstpointer)seq_number)) == NULL ) {
>                                                   ^~~~~~~~~~~~~~~~~~~~~~~~~
>subseqhash.dy:189:27: warning: cast to 'gpointer' (aka 'void *') from smaller integer type 'int' [-Wint-to-void-pointer-cast]
>    g_hash_table_insert(h,(gpointer)seq_number,p);
>                          ^~~~~~~~~~~~~~~~~~~~
>shadowseqindex.dy:285:59: warning: format specifies type 'double' but the argument has type 'unsigned long' [-Wformat]
>  fprintf(ofp,"Head memory %d [%.2f Mbytes]\n",total_head,(total_head*sizeof(ShadowArraySeqHead))/100000);
>                               ~~~~                       ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>                               %.2lu
>hsplookupthreaded.dy:160:3: warning: call to undeclared function 'gettimeofday'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
>  gettimeofday(&t1,NULL);
>  ^
>hsp2hitscan.dy:210:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_utime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:211:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_utime.tv_sec/1000,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:212:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_stime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:213:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_stime.tv_sec/1000
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsplookupthreaded.dy:211:41: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>  fprintf(stderr,"Got seq %d numbers\n",current);
>                          ~~            ^~~~~~~
>                          %ld
>hsplookupthreaded.dy:259:55: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>  fprintf(stderr,"retrieved array with %d elements\n",current_oph);
>                                       ~~             ^~~~~~~~~~~
>                                       %ld
>hsp2hitscan.dy:274:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_utime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:275:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_utime.tv_sec/1000,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:276:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_stime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:277:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_stime.tv_sec/1000
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:287:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_utime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:288:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_utime.tv_sec/1000,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:289:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_stime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:290:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_stime.tv_sec/1000
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:303:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_utime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:304:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_utime.tv_sec/1000,
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:305:4: warning: format specifies type 'int' but the argument has type '__time_t' (aka 'long') [-Wformat]
>          use.ru_stime.tv_sec,
>          ^~~~~~~~~~~~~~~~~~~
>hsp2hitscan.dy:306:4: warning: format specifies type 'int' but the argument has type 'long' [-Wformat]
>          use.ru_stime.tv_sec/1000
>          ^~~~~~~~~~~~~~~~~~~~~~~~
>hsplookupthreaded.dy:561:1: warning: non-void function does not return a value [-Wreturn-type]
>}
>^
>6 warnings generated.
>1 warning generated.
>16 warnings generated.
>4 warnings generated.
>ar ru libdyna_glib.a subseqhash.o intallocator.o proteinstreamedindex.o shadowseq.o shadowseqindex.o hsphandler.o hspscaninterface.o hsp2hitscan.o hsplookupscan.o hsplookupthreaded.o proteinindexcons.o dnaindexcons.o staticseq.o
>ar: creating libdyna_glib.a
>if test -x /bin/ranlib; then /bin/ranlib libdyna_glib.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libdyna_glib.a; else exit 0; fi
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dynlibsrc'
>(cd external ;  make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" all )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/external'
>(cd mott; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include " all)
>make[2]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/external/mott'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include    -c -o mott_api.o mott_api.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include    -c -o gaplib.o gaplib.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../../dynlibsrc -I../../base wise2_mott_bridge.c
>mott_api.c:64:3: warning: call to undeclared library function 'free' with type 'void (void *)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
>  free(freq0);
>  ^
>mott_api.c:64:3: note: include the header <stdlib.h> or explicitly provide a declaration for 'free'
>mott_api.c:179:16: warning: call to undeclared library function 'calloc' with type 'void *(unsigned long, unsigned long)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
>  h = (double*)calloc(*hmax-*hmin+1,sizeof(double))-*hmin;
>               ^
>mott_api.c:179:16: note: include the header <stdlib.h> or explicitly provide a declaration for 'calloc'
>mott_api.c:207:12: warning: call to undeclared library function 'toupper' with type 'int (int)'; ISO C99 and later do not support implicit function declarations [-Wimplicit-function-declaration]
>      freq[toupper(seq[n])]++;
>           ^
>mott_api.c:207:12: note: include the header <ctype.h> or explicitly provide a declaration for 'toupper'
>3 warnings generated.
>ar ru libmott.a mott_api.o gaplib.o wise2_mott_bridge.o
>ar: creating libmott.a
>if test -x /bin/ranlib; then /bin/ranlib libmott.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libmott.a; else exit 0; fi
>make[2]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/external/mott'
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/external'
>(cd socket ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" libwisesocket.a )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/socket'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ functionserver.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ functionclient.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ anonobj.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ transferinterface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ directsocketwrite.c
>functionclient.dy:193:24: warning: incompatible pointer types passing 'struct sockaddr_in *' to parameter of type 'const struct sockaddr *' [-Wincompatible-pointer-types]
>  connect(out->socket, &server, sizeof(server));
>                       ^~~~~~~
>/usr/include/sys/socket.h:126:52: note: passing argument to parameter '__addr' here
>extern int connect (int __fd, __CONST_SOCKADDR_ARG __addr, socklen_t __len);
>                                                   ^
>1 warning generated.
>ar ru libwisesocket.a functionserver.o functionclient.o anonobj.o transferinterface.o directsocketwrite.o
>ar: creating libwisesocket.a
>if test -x /bin/ranlib; then /bin/ranlib libwisesocket.a; else exit 0; fi
>if test -x /usr/bin/ranlib; then /usr/bin/ranlib libwisesocket.a; else exit 0; fi
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/socket'
>(cd dnaindex ; make CC="clang" CFLAGS="-O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread `pkg-config glib-2.0 --cflags`" all )
>make[1]: Entering directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dnaindex'
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_assembly.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_index_interface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_direct.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_hash.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_count.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_glib_index.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models singleseqspace.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models dnamapping.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models largeseqreader.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_untangler.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_contig.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models kmer_assembly_error.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models assembly.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models assembly_stream_interface.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models assembly_stream_fasta.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models assembly_sanger_project.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models assembly_stream_cons.c
>clang -O2 -g0 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c -pthread -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include  -I../base/ -I../dynlibsrc/ -I../models compressed_protein_index.c
>kmer_assembly_untangler.dy:52:65: warning: cast to smaller integer type 'int' from 'KmerAssemblyLink *' (aka 'struct KmerAssemblyLink *') [-Wpointer-to-int-cast]
>    fprintf(ofp,"%3d memory %d, from [%s] to [%s], base %c\n",i,(int)kap->stack[i],back,forw,kap->stack[i]->base);
>                                                                ^~~~~~~~~~~~~~~~~~
>kmer_assembly.dy:365:88: warning: format specifies type 'long' but the argument has type 'KmerAssemblyLink *' (aka 'struct KmerAssemblyLink *') [-Wformat]
>  fprintf(stderr,"    ...unable to remove label %ld from link %ld (%d labels)\n",label,kal,kal->sequence_label_len);
>                                                              ~~~                      ^~~
>kmer_assembly.dy:367:36: warning: more '%' conversions than data arguments [-Wformat-insufficient-args]
>    fprintf(stderr,"     [%ld] is %d label\n",kal->sequence_label[i]);
>                                  ~^
>kmer_assembly_error.dy:351:127: warning: format specifies type 'int' but the argument has type 'int *' [-Wformat]
>        fprintf(stderr,"in considering indel (%d, path %d), real (%c) and error (%c) do not agree at position %d,%d\n",delete_length,current_path,real->base,error->base,real_pos,error_pos);
>                                                       ~~                                                                            ^~~~~~~~~~~~
>kmer_assembly_untangler.dy:568:75: warning: incompatible pointer types passing 'long[10000]' to parameter of type 'int *' [-Wincompatible-pointer-types]
>        lift_backward_tangled_tail(kai,newpath->stack[newpath->stack_len-1],path,transferred_label,transferred_pos,transferred_len);
>                                                                                 ^~~~~~~~~~~~~~~~~
>./kmer_assembly_untangler.h:174:116: note: passing argument to parameter 'start_label' here
>void Wise2_lift_backward_tangled_tail(KmerAssemblyIndex * kai,KmerAssemblyLink * new,KmerAssemblyPath * tail,int * start_label,SinglePosSequence ** positions,int label_len);
>                                                                                                                   ^
>compressed_protein_index.dy:223:10: error: incompatible pointer to integer conversion returning 'void *' from a function with result type 'boolean' (aka 'int') [-Wint-conversion]
>  return NULL;
>         ^~~~
>/usr/lib/llvm/15/bin/../../../../lib/clang/15.0.6/include/stddef.h:89:16: note: expanded from macro 'NULL'
>#  define NULL ((void*)0)
>               ^~~~~~~~~~
>1 error generated.
>make[1]: *** [makefile:80: compressed_protein_index.o] Error 1
>make[1]: *** Waiting for unfinished jobs....
>2 warnings generated.
>1 warning generated.
>2 warnings generated.
>make[1]: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src/dnaindex'
>make: *** [makefile:86: realall] Error 2
>make: Leaving directory '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha/src'
> * ERROR: sci-biology/wise-2.4.0_alpha-r1::gentoo failed (compile phase):
> *   emake failed
> * 
> * If you need support, post the output of `emerge --info '=sci-biology/wise-2.4.0_alpha-r1::gentoo'`,
> * the complete build log and the output of `emerge -pqv '=sci-biology/wise-2.4.0_alpha-r1::gentoo'`.
> * The complete build log is located at '/var/log/emerge-log/build/sci-biology/wise-2.4.0_alpha-r1:20221215-064008.log'.
> * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/temp/build.log'.
> * The ebuild environment file is located at '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/temp/environment'.
> * Working directory: '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha'
> * S: '/var/tmp/portage/sci-biology/wise-2.4.0_alpha-r1/work/wise2.4.0alpha'
>

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