build.log

build.log (text/plain), 88.16 KB, created by Agostino Sarubbo on 2022-09-04 07:34:28 UTC

 * Package:    sci-biology/augustus-3.4.0-r2:0
 * Repository: gentoo
 * Maintainer: [e-mail]
 * 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/gentoo/commit/6c83a787829ad36a5cf7e165769ec5463c22bd60  (Sat Sep  3 22:19:50 UTC 2022)
@@@@@ END @@@@@



@@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@
This ebuild was merged (directly or as a dependency) because of the following commit:
https://github.com/gentoo/gentoo/commit/405d411472329b890d43b44367b7874514c30379
@@@@@ END @@@@@



##################
# emerge --info: #
##################
Portage 3.0.35 (python 3.10.6-final-0, default/linux/amd64/17.1, gcc-12.2.0, glibc-2.35-r8, 5.10.133-gentoo x86_64)
=================================================================
System uname: Linux-5.10.133-gentoo-x86_64-Intel-R-_Xeon-R-_CPU_E5-2650_v4_@_2.20GHz-with-glibc2.35
KiB Mem:   264024340 total, 159577260 free
KiB Swap:          0 total,         0 free
sh bash 5.1_p16-r2
ld GNU ld (Gentoo 2.38 p4) 2.38
app-misc/pax-utils:        1.3.5::gentoo
app-shells/bash:           5.1_p16-r2::gentoo
dev-lang/perl:             5.36.0::gentoo
dev-lang/python:           3.8.13_p7::gentoo, 3.9.13_p5::gentoo, 3.10.6_p3::gentoo, 3.11.0_rc1_p1::gentoo
dev-util/cmake:            3.24.1::gentoo
dev-util/meson:            0.63.1::gentoo
sys-apps/baselayout:       2.8-r2::gentoo
sys-apps/openrc:           0.45.2::gentoo
sys-apps/sandbox:          2.29::gentoo
sys-devel/autoconf:        2.71-r1::gentoo
sys-devel/automake:        1.16.5::gentoo
sys-devel/binutils:        2.38-r2::gentoo
sys-devel/binutils-config: 5.4.1::gentoo
sys-devel/gcc:             12.2.0::gentoo
sys-devel/gcc-config:      2.5-r1::gentoo
sys-devel/libtool:         2.4.7::gentoo
sys-devel/make:            4.3::gentoo
sys-kernel/linux-headers:  5.19::gentoo (virtual/os-headers)
sys-libs/glibc:            2.35-r8::gentoo
Repositories:

gentoo
    location: /usr/portage
    sync-type: rsync
    sync-uri: rsync://rsync.gentoo.org/gentoo-portage
    priority: -1000
    sync-rsync-verify-jobs: 1
    sync-rsync-extra-opts: 
    sync-rsync-verify-max-age: 24
    sync-rsync-verify-metamanifest: yes

ACCEPT_KEYWORDS="amd64 ~amd64"
ACCEPT_LICENSE="* Artistic"
AR="x86_64-pc-linux-gnu-ar"
AS="x86_64-pc-linux-gnu-as"
CBUILD="x86_64-pc-linux-gnu"
CC="x86_64-pc-linux-gnu-gcc"
CFLAGS="-O2 -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"
CPP="x86_64-pc-linux-gnu-gcc -E"
CXX="x86_64-pc-linux-gnu-g++"
CXXFLAGS="-O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
DISTDIR="/var/tmp/portage/sci-biology/augustus-3.4.0-r2/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"
FCFLAGS="-O2 -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 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0"
GCOV="x86_64-pc-linux-gnu-gcov"
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="en_US.utf8"
LD="x86_64-pc-linux-gnu-ld"
LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0"
MAKEOPTS="-j45"
NM="x86_64-pc-linux-gnu-nm"
OBJCOPY="x86_64-pc-linux-gnu-objcopy"
OBJDUMP="x86_64-pc-linux-gnu-objdump"
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"
RANLIB="x86_64-pc-linux-gnu-ranlib"
READELF="x86_64-pc-linux-gnu-readelf"
SHELL="/bin/bash"
STRIP="x86_64-pc-linux-gnu-strip"
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 unicode xattr zlib" ABI_X86="64" ELIBC="glibc" KERNEL="linux" USERLAND="GNU"
Unset:  ADDR2LINE, ARFLAGS, ASFLAGS, CCLD, CONFIG_SHELL, CPPFLAGS, CTARGET, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GPROF, INSTALL_MASK, LC_ALL, LEX, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RUSTFLAGS, SIZE, STRINGS, YACC, YFLAGS





##############################
# emerge history (qlop -mv): #
##############################
2022-09-04T00:23:45 >>> virtual/fortran-0-r1
2022-09-04T00:23:39 >>> dev-util/boost-build-1.79.0-r1
2022-09-04T00:23:42 >>> sci-libs/htslib-1.15.1
2022-09-04T00:23:48 >>> sci-libs/gsl-2.7.1-r1
2022-09-04T00:23:54 >>> app-arch/lz4-1.9.4
2022-09-04T00:23:36 >>> sci-libs/suitesparseconfig-5.4.0
2022-09-04T00:23:51 >>> sci-libs/metis-5.1.0-r5
2022-09-04T00:24:18 >>> sci-libs/lapack-3.10.1
2022-09-04T00:23:57 >>> sci-biology/bamtools-2.5.2
2022-09-04T00:24:34 >>> sci-biology/samtools-1.15.1
2022-09-04T00:24:29 >>> dev-libs/boost-1.79.0
2022-09-04T00:24:44 >>> dev-db/mysql-connector-c-8.0.27-r1
2022-09-04T00:25:05 >>> sci-libs/btf-1.2.6
2022-09-04T00:25:02 >>> sci-libs/colamd-2.9.6
2022-09-04T00:25:08 >>> sci-libs/ccolamd-2.9.6
2022-09-04T00:25:11 >>> sci-libs/cxsparse-3.2.0
2022-09-04T00:25:14 >>> sci-libs/ldl-2.2.6
2022-09-04T00:25:17 >>> sci-libs/amd-2.4.6-r1
2022-09-04T00:25:20 >>> sci-libs/camd-2.4.6-r1
2022-09-04T00:25:31 >>> virtual/lapack-3.10
2022-09-04T00:25:35 >>> virtual/blas-3.8
2022-09-04T00:26:24 >>> sci-mathematics/lpsolve-5.5.2.0-r1
2022-09-04T00:26:54 >>> sci-libs/cholmod-3.0.13
2022-09-04T00:27:11 >>> sci-libs/spqr-2.0.9-r2
2022-09-04T00:27:17 >>> sci-libs/umfpack-5.7.9
2022-09-04T00:26:13 >>> dev-db/mysql++-3.3.0
2022-09-04T00:26:43 >>> sci-libs/klu-1.3.9-r2
2022-09-04T00:28:04 >>> sci-libs/suitesparse-5.4.0
2022-09-04T00:28:14 >>> sci-biology/augustus-3.4.0-r2
2022-09-04T00:35:31 >>> app-text/poppler-data-0.4.11
2022-09-04T00:35:42 >>> media-libs/tiff-4.4.0
2022-09-04T00:35:39 >>> app-arch/cpio-2.12-r1
2022-09-04T00:35:34 >>> media-fonts/baekmuk-fonts-2.2-r2
2022-09-04T00:35:49 >>> app-text/libpaper-1.1.28
2022-09-04T00:35:52 >>> media-libs/jbig2dec-0.19
2022-09-04T00:35:46 >>> media-libs/lcms-2.13.1
2022-09-04T00:35:55 >>> net-dns/libidn-1.41
2022-09-04T00:35:59 >>> media-fonts/arphicfonts-0.2.20080216.1-r2
2022-09-04T00:36:03 >>> media-libs/libjpeg-turbo-2.1.4
2022-09-04T00:36:07 >>> dev-lang/nasm-2.15.05
2022-09-04T00:36:10 >>> media-gfx/fontforge-20220308
2022-09-04T00:36:36 >>> app-arch/rpm2targz-2021.03.16
2022-09-04T00:37:00 >>> media-libs/openjpeg-2.5.0-r2
2022-09-04T00:37:24 >>> virtual/jpeg-100-r1
2022-09-04T00:37:37 >>> media-fonts/urw-fonts-2.4.9
2022-09-04T00:37:57 >>> app-text/ghostscript-gpl-9.55.0-r1
2022-09-04T00:38:08 >>> app-doc/doxygen-1.9.5
2022-09-04T00:38:18 >>> sci-biology/augustus-3.4.0-r2
2022-09-04T00:40:20 >>> dev-lang/python-exec-2.4.9
2022-09-04T00:40:20 >>> sys-devel/binutils-config-5.4.1
2022-09-04T00:40:20 >>> sys-devel/gcc-config-2.5-r1




#######################################
# 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-arch/bzip2-1.0.8-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 split-usr -static -static-libs -verify-sig
app-arch/cpio-2.12-r1:0 nls
app-arch/gzip-1.12:0 -pic -static -verify-sig
app-arch/libarchive-3.6.1:0/13 -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/lz4-1.9.4:0/r132 -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
app-arch/rpm2targz-2021.03.16:0
app-arch/tar-1.34:0 acl -minimal nls -selinux -verify-sig xattr
app-arch/unzip-6.0_p27:0 bzip2 -natspec unicode
app-arch/xz-utils-5.2.6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 extra-filters nls split-usr -static-libs -verify-sig
app-arch/zstd-1.5.2-r1:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -lz4 split-usr -static-libs threads
app-crypt/gnupg-2.3.7-r1:0 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-r1:1/11.6.15.1 -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/libmd-1.0.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
app-crypt/pinentry-1.2.1:0 -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-doc/doxygen-1.9.5:0 -clang -debug -doc -dot -doxysearch -qt5 -sqlite -test
app-editors/nano-6.4:0 -debug -justify -magic -minimal ncurses nls spell split-usr -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-20211016.3.80:0 -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:0 -debug -selinux -systemd -utempter -vim-syntax
app-portage/eix-0.36.5:0 -debug -doc nls -sqlite
app-portage/elt-patches-20220831:0
app-portage/gemato-16.2:0 gpg 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-0.94.3:0 openmp qmanifest qtegrity -static
app-shells/bash-5.1_p16-r2:0 -afs -bashlogger -examples -mem-scramble net nls -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-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-4.2-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/ghostscript-gpl-9.55.0-r1:0/9.55 -X -cups -dbus -gtk l10n_de -l10n_ja l10n_ko l10n_zh-CN l10n_zh-TW -static-libs unicode
app-text/libpaper-1.1.28:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
app-text/manpager-1:0
app-text/opensp-1.5.2-r7:0 -doc nls -static-libs -test
app-text/po4a-0.67:0 -test -test
app-text/poppler-data-0.4.11:0
app-text/sgml-common-0.6.3-r7:0
app-text/xmlto-0.0.28-r8:0 -latex text
dev-db/mysql++-3.3.0:0/3 -doc
dev-db/mysql-connector-c-8.0.27-r1:0/21 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -ldap -static-libs
dev-db/sqlite-3.39.2:3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -doc -icu readline -secure-delete -static-libs -tcl -test -tools
dev-lang/duktape-2.7.0-r1:0/2.7.0
dev-lang/nasm-2.15.05:0 -doc
dev-lang/perl-5.36.0:0/5.36 -berkdb -debug -doc gdbm ithreads -minimal -quadmath
dev-lang/python-3.11.0_rc1_p1:3.11 -bluetooth -build ensurepip -examples gdbm -hardened -libedit -lto ncurses -pgo readline sqlite ssl -test -tk -verify-sig
dev-lang/python-3.10.6_p3:3.10 -bluetooth -build ensurepip -examples gdbm -hardened -libedit -lto ncurses -pgo readline sqlite ssl -test -tk -verify-sig xml
dev-lang/python-3.9.13_p5:3.9 -bluetooth -build ensurepip -examples gdbm -hardened -lto ncurses -pgo readline sqlite ssl -test -tk -verify-sig xml
dev-lang/python-3.8.13_p7:3.8 -bluetooth -build ensurepip -examples gdbm -hardened -lto ncurses -pgo readline sqlite ssl -test -tk -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-8.6.12:0/8.6 -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-8.2.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cxx large -static-libs threads
dev-libs/boost-1.79.0:0/1.79.0 -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 -context -debug -doc -icu -lzma -mpi nls -numpy -python python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -tools zlib -zstd
dev-libs/elfutils-0.187:0 -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 nls -static-libs -test -threads utils -valgrind -verify-sig -zstd
dev-libs/expat-2.4.8:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -examples -static-libs unicode
dev-libs/glib-2.72.3:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -dbus -debug elf -fam -gtk-doc mime -selinux -static-libs -sysprof -systemtap -test -utils xattr
dev-libs/gmp-6.2.1-r2:0/10.4 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 asm cxx -doc -pic -static-libs
dev-libs/gobject-introspection-1.72.0:0 -doctool -gtk-doc python_single_target_python3_10 -python_single_target_python3_11 -python_single_target_python3_8 -python_single_target_python3_9 -test
dev-libs/gobject-introspection-common-1.72.0:0
dev-libs/isl-0.24-r2:0/23 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs
dev-libs/jsoncpp-1.9.5:0/25 -doc -test
dev-libs/libassuan-2.5.5:0
dev-libs/libatomic_ops-7.6.14:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
dev-libs/libbsd-0.11.6:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs -verify-sig
dev-libs/libevent-2.1.12:0/2.1-7 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 clock-gettime -debug -malloc-replacement ssl -static-libs -test threads -verbose-debug
dev-libs/libffi-3.4.2-r2:0/8 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -exec-static-trampoline -experimental-loong -pax-kernel -static-libs -test
dev-libs/libgcrypt-1.10.1-r1:0/20 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 asm -cpu_flags_arm_aes -cpu_flags_arm_neon -cpu_flags_arm_sha1 -cpu_flags_arm_sha2 -cpu_flags_ppc_altivec -cpu_flags_ppc_vsx2 -cpu_flags_ppc_vsx3 cpu_flags_x86_aes cpu_flags_x86_avx cpu_flags_x86_avx2 -cpu_flags_x86_padlock -cpu_flags_x86_sha cpu_flags_x86_sse4_1 -doc -static-libs -verify-sig
dev-libs/libgpg-error-1.45-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 -common-lisp nls -static-libs -test
dev-libs/libksba-1.6.0:0 -static-libs
dev-libs/libltdl-2.4.7:0 -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
dev-libs/libpcre-8.45-r1:3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 bzip2 cxx jit -libedit pcre16 pcre32 readline split-usr -static-libs unicode zlib
dev-libs/libpcre2-10.40:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 bzip2 jit -libedit pcre16 pcre32 readline split-usr -static-libs unicode -verify-sig zlib
dev-libs/libpipeline-1.5.6:0 -test
dev-libs/libtasn1-4.19.0:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs -test -valgrind -verify-sig
dev-libs/libunistring-1.0:0/2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -static-libs
dev-libs/libuv-1.44.2:0/1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
dev-libs/libxml2-2.10.2:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -debug -examples ftp -icu -lzma python python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 readline -static-libs -test
dev-libs/libxslt-1.1.37:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 crypt -debug -examples -python python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -static-libs
dev-libs/lzo-2.10:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -examples split-usr -static-libs
dev-libs/mpc-1.2.1:0/3 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs
dev-libs/mpfr-4.1.0_p13-r1:0/6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -static-libs
dev-libs/nettle-3.8.1:0/8-6 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 asm -cpu_flags_arm_aes -cpu_flags_arm_neon -cpu_flags_arm_sha1 -cpu_flags_arm_sha2 -cpu_flags_ppc_altivec cpu_flags_x86_aes cpu_flags_x86_pclmul -cpu_flags_x86_sha -doc gmp -static-libs -verify-sig
dev-libs/npth-1.6-r1:0 -test
dev-libs/openssl-1.1.1q:0/1.1 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 asm cpu_flags_x86_sse2 -rfc3779 -sctp -sslv3 -static-libs -test -tls-compression -tls-heartbeat -vanilla -verify-sig -verify-sig -weak-ssl-ciphers
dev-libs/popt-1.18:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 nls -static-libs
dev-perl/Devel-CheckLib-1.140.0:0 -test
dev-perl/Encode-EUCJPASCII-0.30.0-r1:0 -test
dev-perl/Encode-HanExtra-0.230.0-r3:0
dev-perl/Encode-Locale-1.50.0-r1:0 -test
dev-perl/ExtUtils-CChecker-0.110.0:0 -test
dev-perl/File-BaseDir-0.90.0:0 -test
dev-perl/File-DesktopEntry-0.220.0-r1:0 -test
dev-perl/File-Listing-6.150.0:0 -test -test
dev-perl/File-MimeInfo-0.300.0:0 -test
dev-perl/HTML-Parser-3.760.0:0 -test
dev-perl/HTML-Tagset-3.200.0-r2:0
dev-perl/HTTP-Cookies-6.100.0:0 -test
dev-perl/HTTP-Date-6.50.0:0
dev-perl/HTTP-Message-6.330.0:0 -test -test
dev-perl/HTTP-Negotiate-6.10.0-r2:0 -test
dev-perl/IO-HTML-1.4.0:0 -test
dev-perl/IO-Socket-INET6-2.720.0-r2:0 -test
dev-perl/IO-Socket-SSL-2.74.0:0 -examples -idn -test
dev-perl/IPC-System-Simple-1.300.0:0 -test
dev-perl/libwww-perl-6.600.0-r1:0 ssl -test
dev-perl/Locale-gettext-1.70.0-r1:0 -test
dev-perl/LWP-MediaTypes-6.40.0:0 -test
dev-perl/LWP-Protocol-https-6.100.0:0 -test
dev-perl/MIME-Charset-1.12.2-r1:0 l10n_ja l10n_zh -test
dev-perl/Module-Build-0.423.100:0 -test
dev-perl/Mozilla-CA-20999999-r1:0 -test
dev-perl/Net-HTTP-6.210.0:0 -minimal -test
dev-perl/Net-SSLeay-1.920.0:0 -examples -examples -minimal -test
dev-perl/Pod-Parser-1.630.0-r1:0 -test
dev-perl/SGMLSpm-1.1-r2:0 -test
dev-perl/Socket6-0.290.0:0 -test
dev-perl/Sub-Name-0.260.0:0 -suggested -test
dev-perl/Syntax-Keyword-Try-0.270.0:0 -test
dev-perl/TermReadKey-2.380.0:0 -examples -test
dev-perl/Text-CharWidth-0.40.0-r2:0 -test
dev-perl/Text-WrapI18N-0.60.0-r2:0 -test
dev-perl/TimeDate-2.330.0-r1:0 -test
dev-perl/Try-Tiny-0.310.0:0 -minimal -test
dev-perl/Unicode-LineBreak-2019.1.0:0
dev-perl/URI-5.110.0:0 -test
dev-perl/WWW-RobotRules-6.20.0-r2:0 -test
dev-perl/XML-Parser-2.460.0-r2:0
dev-perl/XS-Parse-Keyword-0.240.0:0 -test
dev-perl/YAML-Tiny-1.730.0-r1:0 -minimal -test
dev-python/appdirs-1.4.4-r2:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
dev-python/autocommand-2.2.1_p20211118:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/certifi-3021.3.16-r2:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/charset_normalizer-2.1.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/cython-0.29.32:0 -doc -emacs python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/ensurepip-pip-22.2.2:0
dev-python/ensurepip-setuptools-65.2.0:0
dev-python/ensurepip-wheels-100:0
dev-python/flit_core-3.7.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/gpep517-9:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/idna-3.3-r1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/importlib_metadata-4.12.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/importlib_resources-5.9.0:0 python_targets_pypy3 python_targets_python3_8 -test
dev-python/inflect-6.0.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/installer-0.5.1-r1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/jaraco-context-4.1.2:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/jaraco-functools-3.5.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/jaraco-text-3.9.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/jinja-3.1.2:0 -doc -examples python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/markupsafe-2.1.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/more-itertools-8.14.0:0 -doc python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/nspektr-0.4.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/ordered-set-4.1.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/packaging-21.3-r2:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/pydantic-1.10.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/pyparsing-3.0.9:0 -examples python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/pypy3-7.3.9_p5-r1:0/pypy39-pp73-336 bzip2 ensurepip gdbm jit ncurses -sqlite -test -tk
dev-python/pypy3-exe-bin-7.3.9_p3-r2:3.9-7.3.9
dev-python/PySocks-1.7.1-r2:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
dev-python/requests-2.28.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -socks5 -test
dev-python/setuptools-65.3.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/setuptools_scm-7.0.5:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/six-1.16.0-r1:0 -doc python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/tomli-2.0.1-r1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/typing-extensions-4.3.0:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
dev-python/urllib3-1.26.12:0 -brotli python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/wheel-0.37.1-r1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-python/zipp-3.8.1:0 python_targets_pypy3 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-util/boost-build-1.79.0-r1:0 -examples
dev-util/checkbashisms-2.22.2:0
dev-util/cmake-3.24.1:0 -doc -emacs ncurses -qt5 -test -test -verify-sig
dev-util/desktop-file-utils-0.26-r2:0 -emacs
dev-util/glib-utils-2.72.3:0 python_single_target_python3_10 -python_single_target_python3_11 -python_single_target_python3_8 -python_single_target_python3_9
dev-util/gperf-3.1:0
dev-util/gtk-doc-am-1.33.2:0
dev-util/intltool-0.51.0-r3:0
dev-util/meson-0.63.1:0 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9 -test
dev-util/meson-format-array-0:0 python_targets_python3_10 -python_targets_python3_11 python_targets_python3_8 python_targets_python3_9
dev-util/ninja-1.11.1:0 -doc -emacs -test
dev-util/pkgconf-1.8.0-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 -test
dev-util/re2c-2.2:0 -debug -test
dev-vcs/git-2.37.3:0 blksha1 -cgi curl -cvs -doc -gnome-keyring gpg -highlight iconv -mediawiki -mediawiki-experimental nls pcre -perforce -perl -ppcsha1 python_single_target_python3_10 -python_single_target_python3_8 -python_single_target_python3_9 safe-directory -selinux -subversion -test threads -tk webdav -xinetd
media-fonts/arphicfonts-0.2.20080216.1-r2:0 -X
media-fonts/baekmuk-fonts-2.2-r2:0 -X -X unicode
media-fonts/liberation-fonts-2.1.5:0 -X -X -fontforge
media-fonts/urw-fonts-2.4.9:0 -X
media-gfx/fontforge-20220308:0 -X -doc -gif -gtk -jpeg -png python python_single_target_python3_10 -python_single_target_python3_8 -python_single_target_python3_9 readline -svg -test -tiff -truetype-debugger -woff2
media-gfx/graphite2-1.3.14_p20210810-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 -perl -test
media-libs/fontconfig-2.14.0-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 -static-libs -test
media-libs/freetype-2.12.1:2 -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/harfbuzz-5.1.0:0/4.0.0 -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/jbig2dec-0.19:0/0.19 -png -static-libs -test
media-libs/lcms-2.13.1:2 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -jpeg -static-libs -test threads -tiff zlib
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-1.6.37-r2:0/16 -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/openjpeg-2.5.0-r2:2/7 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -static-libs -test
media-libs/tiff-4.4.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 cxx -jbig -jpeg -lzma -static-libs -test -verify-sig -webp zlib -zstd
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/libidn-1.41:0/12 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -emacs nls -verify-sig
net-dns/libidn2-2.3.3:0/2 -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-r4:0/1.8.3 -conntrack -netlink -nftables -pcap split-usr -static-libs
net-libs/gnutls-3.7.7:0/30.30 -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 ipv6 -kerberos split-usr -static-libs
net-libs/nghttp2-1.48.0:0/1.14 -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 threads -utils -xml
net-misc/curl-7.85.0-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 adns -alt-svc -brotli -curl_ssl_gnutls -curl_ssl_mbedtls -curl_ssl_nss curl_ssl_openssl ftp -gnutls -gopher -hsts http2 -idn imap ipv6 -kerberos -ldap -mbedtls -nghttp3 -nss openssl pop3 progress-meter -quiche -rtmp -samba smtp -ssh ssl -sslv3 -static-libs -telnet -test tftp -verify-sig -zstd
net-misc/dhcpcd-9.4.1:0 -debug embedded ipv6 -privsep udev
net-misc/iputils-20211215:0 arping -caps -clockdiff -doc filecaps -idn nls -rarpd -rdisc -static -test -tracepath
net-misc/netifrc-0.7.3-r1:0 dhcp
net-misc/openssh-9.0_p1-r2:0 -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-3.2.5-r1:0 acl -examples iconv -lz4 python_single_target_python3_10 -python_single_target_python3_8 -python_single_target_python3_9 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/bamtools-2.5.2:0/2.5.2
sci-biology/samtools-1.15.1:0
sci-libs/amd-2.4.6-r1:0 -doc fortran
sci-libs/btf-1.2.6:0
sci-libs/camd-2.4.6-r1:0 -doc
sci-libs/ccolamd-2.9.6:0
sci-libs/cholmod-3.0.13:0 -cuda -doc lapack matrixops modify partition
sci-libs/colamd-2.9.6:0
sci-libs/cxsparse-3.2.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32
sci-libs/gsl-2.7.1-r1:0/27 -cblas-external deprecated -static-libs
sci-libs/htslib-1.15.1:0/3 bzip2 -curl lzma
sci-libs/klu-1.3.9-r2:0 -doc
sci-libs/lapack-3.10.1:0 -deprecated -doc -eselect-ldso -lapacke -test
sci-libs/ldl-2.2.6:0 -doc -static-libs
sci-libs/metis-5.1.0-r5:0 -doc -double-precision -examples -int64 openmp
sci-libs/spqr-2.0.9-r2:0 -doc -partition -tbb
sci-libs/suitesparse-5.4.0:0 -cuda -doc -lapack -partition -tbb
sci-libs/suitesparseconfig-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 -static-libs
sci-libs/umfpack-5.7.9:0 cholmod -doc
sci-mathematics/lpsolve-5.5.2.0-r1:0
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-2.8-r2:0 -build split-usr
sys-apps/coreutils-9.1-r1:0 acl -caps -gmp -hostname -kill -multicall nls -selinux split-usr -static -test -vanilla -verify-sig xattr
sys-apps/dbus-1.14.0-r4:0 -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/file-5.42-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-4.9.0:0 nls -selinux -static -test -verify-sig
sys-apps/gawk-5.1.1-r2:0 -mpfr nls readline -verify-sig
sys-apps/gentoo-functions-0.17:0
sys-apps/grep-3.8:0 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/iproute2-5.19.0-r2:0 -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-608:0 pcre unicode
sys-apps/man-db-2.10.2-r1:0 manpager nls seccomp -selinux -static-libs zlib
sys-apps/man-pages-5.13:0 l10n_de l10n_es l10n_fr l10n_it l10n_ja l10n_nl l10n_pl l10n_pt-BR l10n_ro l10n_ru l10n_zh-CN
sys-apps/man-pages-posix-2017a:0
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-0.45.2:0 -audit -bash -debug ncurses netifrc -newnet pam -selinux -sysv-utils unicode
sys-apps/portage-3.0.35:0 -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-4.8:0 acl nls -selinux -static -verify-sig
sys-apps/shadow-4.12.3:0/4 acl -audit -bcrypt -cracklib nls pam -selinux -skey split-usr -su -verify-sig xattr
sys-apps/systemd-utils-251.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 acl -boot kmod -selinux split-usr -sysusers -test tmpfiles udev
sys-apps/sysvinit-3.05:0 -ibm nls -selinux -static -verify-sig
sys-apps/texinfo-6.8:0 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-121:0 duktape -examples -gtk introspection -kde pam -selinux -systemd -test
sys-devel/autoconf-2.71-r1:2.71 -emacs
sys-devel/autoconf-archive-2022.09.03:0
sys-devel/autoconf-wrapper-20220130:0
sys-devel/automake-1.16.5:1.16 -test
sys-devel/automake-wrapper-11-r1:0
sys-devel/binutils-2.38-r2:2.38 -cet -default-gold -doc -emacs gold -multitarget nls -pgo plugins -static-libs -test -vanilla
sys-devel/binutils-config-5.4.1:0 -native-symlinks
sys-devel/bison-3.8.2:0 -examples nls -static -test -verify-sig
sys-devel/flex-2.6.4-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 nls -static -test
sys-devel/gcc-12.2.0:12 -ada -cet -custom-cflags cxx -d -debug -doc -fixed-point fortran -go graphite -hardened -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-2.5-r1:0 cc-wrappers -native-symlinks
sys-devel/gettext-0.21-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 acl -cvs cxx -doc -emacs -git -java -java ncurses nls openmp -static-libs -verify-sig
sys-devel/gnuconfig-20220508:0
sys-devel/libtool-2.4.7:2 -vanilla
sys-devel/m4-1.4.19:0 -examples nls -verify-sig
sys-devel/make-4.3:0 -guile nls -static -verify-sig
sys-devel/patch-2.7.6-r4:0 -static -test -verify-sig xattr
sys-fs/e2fsprogs-1.46.5-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cron -fuse -lto nls split-usr -static-libs -test threads tools
sys-fs/udev-init-scripts-35:0
sys-kernel/installkernel-gentoo-5:0 -grub
sys-kernel/linux-headers-5.19:0 -headers-only
sys-libs/binutils-libs-2.38-r2:0/2.38 -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/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 -verify-sig
sys-libs/glibc-2.35-r8:2.2 -audit -caps -cet clone3 -compile-locales -crypt -custom-cflags -doc -experimental-loong -gd -headers-only multiarch multilib -multilib-bootstrap -nscd -profile -selinux ssp stack-realign static-libs -suid -systemd -systemtap -test -vanilla
sys-libs/libcap-2.65:0 -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/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-4.4.28-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 compat split-usr -static-libs system -test
sys-libs/ncurses-6.3_p20220827:0/6 -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 stack-realign -static-libs -test tinfo -trace -verify-sig
sys-libs/pam-1.5.2-r1:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -audit -berkdb -debug filecaps -nis -selinux
sys-libs/readline-8.1_p2-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 split-usr -static-libs unicode -utils -verify-sig
sys-libs/timezone-data-2022c:0 -leaps-timezone nls -zic-slim
sys-libs/zlib-1.2.12-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 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-23.4-r1:0 -X ipv6 nls -selinux
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/awk-1:0
virtual/blas-3.8:0 -eselect-ldso
virtual/dev-manager-0-r2:0
virtual/editor-0-r3:0
virtual/fortran-0-r1:0 openmp
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/lapack-3.10:0 -eselect-ldso
virtual/libc-1-r1:0
virtual/libcrypt-2:0/2 -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-r2:0
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-Test-Harness-3.440.0:0
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-1:0
virtual/ssh-0-r1:0 -minimal
virtual/tmpfiles-0-r3:0
virtual/ttf-fonts-1-r1:0
virtual/udev-217-r5:0
virtual/w3m-1:0
virtual/yacc-0:0
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_p20220429:0 -X -fbcon -gdk-pixbuf -gpm -imlib l10n_ja -lynxkeymap nls -nntp ssl unicode -xface
x11-apps/xprop-1.2.5:0
x11-apps/xset-1.2.4-r1:0
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-1.16.0-r5:0 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 glib -opengl -static-libs svg -utils -valgrind
x11-libs/libICE-1.0.10-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 ipv6
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/libX11-1.8.1:0 -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/libXau-1.0.10:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -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-1.1.3-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
x11-libs/libXext-1.3.4:0 -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/libXmu-1.1.3:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc ipv6
x11-libs/libXrender-0.9.10-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
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-0.40.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -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-1.8.1:0
x11-misc/shared-mime-info-2.2:0 -test
x11-misc/xdg-utils-1.1.3_p20210805:0 -dbus -doc -gnome


#######################
# build.log           #
#######################
>>> Unpacking source...
>>> Unpacking augustus-3.4.0.tar.gz to /var/tmp/portage/sci-biology/augustus-3.4.0-r2/work
>>> Source unpacked in /var/tmp/portage/sci-biology/augustus-3.4.0-r2/work
>>> Preparing source in /var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0 ...
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0 ...
>>> Source configured.
>>> Compiling source in /var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0 ...
make -j45 LINK.cc=x86_64-pc-linux-gnu-g++ 
mkdir -p bin
cd src && make
make[1]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/src'
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o genbank.o genbank.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o properties.o properties.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o pp_profile.o pp_profile.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o pp_hitseq.o pp_hitseq.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o pp_scoring.o pp_scoring.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o statemodel.o statemodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o namgene.o namgene.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o types.o types.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o gene.o gene.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o evaluation.o evaluation.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o motif.o motif.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o geneticcode.o geneticcode.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o hints.o hints.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o extrinsicinfo.o extrinsicinfo.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o projectio.o projectio.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o intronmodel.o intronmodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o exonmodel.o exonmodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o igenicmodel.o igenicmodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o utrmodel.o utrmodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o merkmal.o merkmal.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o vitmatrix.o vitmatrix.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o lldouble.o lldouble.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o mea.o mea.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o graph.o graph.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o meaPath.o meaPath.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o exoncand.o exoncand.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o randseqaccess.o randseqaccess.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o fasta.o fasta.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o ncmodel.o ncmodel.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o parser/parse.o parser/parse.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o scanner/lex.o scanner/lex.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o genomicMSA.o genomicMSA.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o geneMSA.o geneMSA.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o contTimeMC.o contTimeMC.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o codonevo.o codonevo.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o compgenepred.o compgenepred.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o phylotree.o phylotree.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o orthograph.o orthograph.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o orthoexon.o orthoexon.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o alignment.o alignment.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o speciesgraph.o speciesgraph.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o codonMSA.o codonMSA.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o train_logReg_param.o train_logReg_param.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o tokenizer.o tokenizer.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o sqliteDB.o sqliteDB.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o commontrain.o commontrain.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o igenictrain.o igenictrain.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o introntrain.o introntrain.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o exontrain.o exontrain.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o utrtrain.o utrtrain.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o dummy.o dummy.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
hints.cc: In function ‘std::istream& operator>>(std::istream&, Feature&)’:
hints.cc:82:16: warning: â€-Wstringop-truncation][]]
   82 |         strncpy(copybuff, buff, 1014);
      |                ^
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o prepareAlign pp_prepare_align.cc
x86_64-pc-linux-gnu-g++ -c -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -o pp_fastBlockSearcher.o pp_fastBlockSearcher.cc -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++ 
echo "-Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE" > cxxflags
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o load2db load2db.cc fasta.o hints.o types.o properties.o lldouble.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o load2sqlitedb load2sqlitedb.cc fasta.o hints.o types.o properties.o lldouble.o sqliteDB.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o pp_simScore pp_simscore.cc fasta.o types.o properties.o geneticcode.o pp_profile.o lldouble.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
cp prepareAlign ../bin/
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o fastBlockSearch fastBlockSearch.cc pp_fastBlockSearcher.o types.o properties.o geneticcode.o pp_profile.o lldouble.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
cp load2sqlitedb ../bin/
cp load2db ../bin/
cp fastBlockSearch ../bin/
cp pp_simScore ../bin/
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o augustus augustus.cc genbank.o properties.o pp_profile.o pp_hitseq.o pp_scoring.o statemodel.o namgene.o types.o gene.o evaluation.o motif.o geneticcode.o hints.o extrinsicinfo.o projectio.o intronmodel.o exonmodel.o igenicmodel.o utrmodel.o merkmal.o vitmatrix.o lldouble.o mea.o graph.o meaPath.o exoncand.o randseqaccess.o fasta.o ncmodel.o parser/parse.o scanner/lex.o genomicMSA.o geneMSA.o contTimeMC.o codonevo.o compgenepred.o phylotree.o orthograph.o orthoexon.o alignment.o speciesgraph.o codonMSA.o train_logReg_param.o tokenizer.o sqliteDB.o dummy.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o etraining etraining.cc commontrain.o igenictrain.o introntrain.o exontrain.o utrtrain.o genbank.o properties.o pp_profile.o pp_hitseq.o pp_scoring.o statemodel.o namgene.o types.o gene.o evaluation.o motif.o geneticcode.o hints.o extrinsicinfo.o projectio.o intronmodel.o exonmodel.o igenicmodel.o utrmodel.o merkmal.o vitmatrix.o lldouble.o mea.o graph.o meaPath.o exoncand.o randseqaccess.o fasta.o ncmodel.o parser/parse.o scanner/lex.o genomicMSA.o geneMSA.o contTimeMC.o codonevo.o compgenepred.o phylotree.o orthograph.o orthoexon.o alignment.o speciesgraph.o codonMSA.o train_logReg_param.o tokenizer.o sqliteDB.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
x86_64-pc-linux-gnu-g++ -DZIPINPUT -DCOMPGENEPRED -DTESTING -DM_MYSQL -DM_SQLITE -Wall -Wno-sign-compare -pedantic -O3 -std=c++11 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o getSeq getSeq.cc genbank.o properties.o pp_profile.o pp_hitseq.o pp_scoring.o statemodel.o namgene.o types.o gene.o evaluation.o motif.o geneticcode.o hints.o extrinsicinfo.o projectio.o intronmodel.o exonmodel.o igenicmodel.o utrmodel.o merkmal.o vitmatrix.o lldouble.o mea.o graph.o meaPath.o exoncand.o randseqaccess.o fasta.o ncmodel.o parser/parse.o scanner/lex.o genomicMSA.o geneMSA.o contTimeMC.o codonevo.o compgenepred.o phylotree.o orthograph.o orthoexon.o alignment.o speciesgraph.o codonMSA.o train_logReg_param.o tokenizer.o sqliteDB.o dummy.o -I../include -I/usr/include/lpsolve -I/usr/include/mysql -I/usr/include/mysql++  -lboost_iostreams -lgsl -lgslcblas  -llpsolve55 -lcolamd -ldl  -lboost_serialization  -lmysqlclient -lmysqlpp   -lsqlite3
cp etraining ../bin/
cp getSeq ../bin/
cp augustus ../bin/
make[1]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/src'
cd auxprogs && make
make[1]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs'
cd aln2wig; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/aln2wig'
x86_64-pc-linux-gnu-gcc  -Wall -Wno-sign-compare -ansi -pedantic -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -c aln2wig.c
aln2wig.c: In function ‘main’:
aln2wig.c:454:41: warning: â€-Wstringop-truncation][]]
  454 |                                         strncpy(completedChromosomes[completedChromosomeCount-1],oldname,TOKEN_SIZE-1);
      |                                         ^
aln2wig.c:460:41: warning: â€-Wstringop-truncation][]]
  460 |                                         strncpy(oldname,name,TOKEN_SIZE-1);
      |                                         ^
aln2wig.c:327:41: warning: â€-Wstringop-truncation][]]
  327 |                                         strncpy(completedChromosomes[completedChromosomeCount-1],oldname,TOKEN_SIZE-1);
      |                                         ^
aln2wig.c:334:41: warning: â€-Wstringop-truncation][]]
  334 |                                         strncpy(oldname,name,TOKEN_SIZE-1);
      |                                         ^
x86_64-pc-linux-gnu-gcc -Wall -Wno-sign-compare -ansi -pedantic -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o aln2wig aln2wig.o
mkdir -p ../../bin
cp aln2wig ../../bin
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/aln2wig'
cd bam2hints; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/bam2hints'
x86_64-pc-linux-gnu-g++ -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -O2   -c bam2hints.cc -o bam2hints.o -I/usr/include/bamtools 
In file included from /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/list:63,
                 from bam2hints.cc:9:
In member function ‘std::_List_iterator< <template-parameter-1-1> >::_Self std::_List_iterator< <template-parameter-1-1> >::operator++(int) [with _Tp = hint_t]’,
    inlined from ‘void printHints(FILE*, const char*)’ at bam2hints.cc:326:121:
/usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/stl_list.h:297:28: warning: pointer used after â€-Wuse-after-free][]]
  297 |         _M_node = _M_node->_M_next;
      |                   ~~~~~~~~~^~~~~~~
In file included from /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/x86_64-pc-linux-gnu/bits/c++allocator.h:33,
                 from /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/allocator.h:46,
                 from /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/list:61:
In member function ‘void std::__new_allocator<_Tp>::deallocate(_Tp*, size_type) [with _Tp = std::_List_node<hint_t>]’,
    inlined from ‘static void std::allocator_traits<std::allocator<_Tp1> >::deallocate(allocator_type&, pointer, size_type) [with _Tp = std::_List_node<hint_t>]’ at /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/alloc_traits.h:496:23,
    inlined from ‘void std::__cxx11::_List_base<_Tp, _Alloc>::_M_put_node(typename _Node_alloc_traits::pointer) [with _Tp = hint_t; _Alloc = std::allocator<hint_t>]’ at /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/stl_list.h:522:39,
    inlined from ‘void std::__cxx11::list<_Tp, _Alloc>::_M_erase(iterator) [with _Tp = hint_t; _Alloc = std::allocator<hint_t>]’ at /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/stl_list.h:2024:13,
    inlined from ‘std::__cxx11::list<_Tp, _Alloc>::iterator std::__cxx11::list<_Tp, _Alloc>::erase(const_iterator) [with _Tp = hint_t; _Alloc = std::allocator<hint_t>]’ at /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/list.tcc:158:15,
    inlined from ‘void printHints(FILE*, const char*)’ at bam2hints.cc:334:26:
/usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/new_allocator.h:158:33: note: call to ‘void operator delete(void*, std::size_t)’ here
  158 |         _GLIBCXX_OPERATOR_DELETE(_GLIBCXX_SIZED_DEALLOC(__p, __n));
      |                                 ^
x86_64-pc-linux-gnu-g++ -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -O2   -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o bam2hints bam2hints.o -lbamtools -lz
mkdir -p ../../bin
cp bam2hints ../../bin
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/bam2hints'
cd compileSpliceCands; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/compileSpliceCands'
x86_64-pc-linux-gnu-gcc -Wall -pedantic -ansi -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c compileSpliceCands.c
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0   -c -o list.o list.c
compileSpliceCands.c: In function ‘getChromosome’:
compileSpliceCands.c:216:9: warning: â€-Wstringop-overflow=][]]
  216 |         strncat(checkstring,chromosomename,strlen(chromosomename));
      |         ^
compileSpliceCands.c:216:9: note: length computed here
  216 |         strncat(checkstring,chromosomename,strlen(chromosomename));
      |         ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
compileSpliceCands.c: In function ‘parseLine’:
compileSpliceCands.c:292:9: warning: â€-Wstringop-truncation][]]
  292 |         strncpy(d->name,tokens[0],LINEBUFFER);
      |         ^
compileSpliceCands.c: In function ‘parseList’:
compileSpliceCands.c:337:59: warning: â€-Wmaybe-uninitialized][]]
  337 |                                 if(isCompatibleStrand(left->strand,right->strand))
      |                                                       ~~~~^~~~~~~~
compileSpliceCands.c:314:14: note: ‘left’ was declared here
  314 |         Data left;
      |              ^~~~
compileSpliceCands.c: In function ‘main’:
compileSpliceCands.c:563:17: warning: â€-Wmaybe-uninitialized][]]
  563 |                 parseList(&L,actualChromosome,chromosomeLength,oldname,maxSpliceSiteDiff,threshold,maxIntronLength);
      |                 ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
compileSpliceCands.c:416:18: note: ‘chromosomeLength’ was declared here
  416 |         long int chromosomeLength;
      |                  ^~~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-gcc -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0	 -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o compileSpliceCands compileSpliceCands.o list.o
cp compileSpliceCands ../../bin/compileSpliceCands
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/compileSpliceCands'
cd filterBam; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/filterBam'
(cd src;make)
make[3]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/filterBam/src'
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c filterBam.cc -o filterBam.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/MatePairs.cc -o MatePairs.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/getReferenceName.cc -o getReferenceName.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/initOptions.cc -o initOptions.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/SingleAlignment.cc -o SingleAlignment.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/printElapsedTime.cc -o printElapsedTime.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/sumMandIOperations.cc -o sumMandIOperations.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/sumDandIOperations.cc -o sumDandIOperations.o -I/usr/include/bamtools -Iheaders -I./bamtools
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -c functions/PairednessCoverage.cc -o PairednessCoverage.o -I/usr/include/bamtools -Iheaders -I./bamtools
filterBam compiled with BAMTOOLS=/usr/include/bamtools
In file included from filterBam.cc:17:
/usr/include/bamtools/api/algorithms/Sort.h:64:18: warning: â€-Wdeprecated-declarations][]]
   64 |     typedef std::binary_function<BamAlignment, BamAlignment, bool> AlignmentSortBase;
      |                  ^~~~~~~~~~~~~~~
In file included from /usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/string:48,
                 from /usr/include/bamtools/api/BamReader.h:13,
                 from filterBam.cc:14:
/usr/lib/gcc/x86_64-pc-linux-gnu/12.2.0/include/g++-v12/bits/stl_function.h:131:12: note: declared here
  131 |     struct binary_function
      |            ^~~~~~~~~~~~~~~
x86_64-pc-linux-gnu-g++ -std=c++0x -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 filterBam.o MatePairs.o getReferenceName.o initOptions.o SingleAlignment.o printElapsedTime.o sumMandIOperations.o sumDandIOperations.o PairednessCoverage.o -o filterBam -lbamtools -lz
mkdir -p ../../../bin
mv filterBam ../../../bin/filterBam
make[3]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/filterBam/src'
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/filterBam'
cd homGeneMapping; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/homGeneMapping'
(cd src; make)
make[3]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/homGeneMapping/src'
x86_64-pc-linux-gnu-g++ -c -Wall -Wno-sign-compare -ansi -pedantic -std=c++0x -pthread -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -DBOOST -DM_SQLITE -o gene.o gene.cc -I../include
x86_64-pc-linux-gnu-g++ -c -Wall -Wno-sign-compare -ansi -pedantic -std=c++0x -pthread -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -DBOOST -DM_SQLITE -o genome.o genome.cc -I../include
x86_64-pc-linux-gnu-g++ -c -Wall -Wno-sign-compare -ansi -pedantic -std=c++0x -pthread -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -DBOOST -DM_SQLITE -o sqliteDB.o sqliteDB.cc -I../include
x86_64-pc-linux-gnu-g++ -Wall -Wno-sign-compare -ansi -pedantic -std=c++0x -pthread -O2 -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -DBOOST -DM_SQLITE -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -o homGeneMapping main.cc gene.o genome.o sqliteDB.o -I../include -lsqlite3 
mkdir -p ../../../bin/
cp homGeneMapping ../../../bin/homGeneMapping
make[3]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/homGeneMapping/src'
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/homGeneMapping'
cd joingenes; make;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/joingenes'
x86_64-pc-linux-gnu-g++ -c -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -std=gnu++0x  joingenes.cpp
x86_64-pc-linux-gnu-g++ -c -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -std=gnu++0x  jg_transcript.cpp
x86_64-pc-linux-gnu-g++ -c -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -std=gnu++0x  jg_ios.cpp
jg_ios.cpp: In function ‘void load(std::unordered_map<std::__cxx11::basic_string<char>, Gene*>&, std::string&, int&, std::unordered_map<std::__cxx11::basic_string<char>, bool>&, Properties&)’:
jg_ios.cpp:251:14: warning: â€-Wstringop-truncation][]]
  251 |       strncpy(copybuff, buff, 1014);
      |              ^
jg_ios.cpp:79:14: warning: â€-Wstringop-truncation][]]
   79 |       strncpy(copybuff, buff, 1014);
      |              ^
jg_ios.cpp:148:16: warning: â€-Wstringop-truncation][]]
  148 |         strncpy(attribute, temp, 300);
      |                ^
x86_64-pc-linux-gnu-g++ -O2 -pipe -march=x86-64 -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -std=gnu++0x  -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 joingenes.o jg_transcript.o jg_ios.o -o joingenes
mkdir -p ../../bin/
cp joingenes ../../bin/
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/joingenes'
cd utrrnaseq/Debug; make all;
make[2]: Entering directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/utrrnaseq/Debug'
Building file: ../src/Compute_UTRs.cpp
Building file: ../src/Genomic_Data.cpp
Building file: ../src/Coord_Transform.cpp
Invoking: GCC C++ Compiler
g++ -I/usr/include/boost -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"src/Compute_UTRs.d" -MT"src/Compute_UTRs.o" -o "src/Compute_UTRs.o" "../src/Compute_UTRs.cpp"
Invoking: GCC C++ Compiler
Building file: ../src/Splice_Sites.cpp
g++ -I/usr/include/boost -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"src/Genomic_Data.d" -MT"src/Genomic_Data.o" -o "src/Genomic_Data.o" "../src/Genomic_Data.cpp"
Invoking: GCC C++ Compiler
Building file: ../src/Supporting_Methods.cpp
g++ -I/usr/include/boost -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"src/Coord_Transform.d" -MT"src/Coord_Transform.o" -o "src/Coord_Transform.o" "../src/Coord_Transform.cpp"
/bin/sh: line 1: g++: command not found
make[2]: *** [src/subdir.mk:40: src/Compute_UTRs.o] Error 127
make[2]: *** Waiting for unfinished jobs....
Invoking: GCC C++ Compiler
g++ -I/usr/include/boost -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"src/Splice_Sites.d" -MT"src/Splice_Sites.o" -o "src/Splice_Sites.o" "../src/Splice_Sites.cpp"
/bin/sh: line 1: g++: command not found
Invoking: GCC C++ Compiler
make[2]: *** [src/subdir.mk:41: src/Coord_Transform.o] Error 127
g++ -I/usr/include/boost -O0 -g3 -pedantic -Wall -c -fmessage-length=0 -MMD -MP -MF"src/Supporting_Methods.d" -MT"src/Supporting_Methods.o" -o "src/Supporting_Methods.o" "../src/Supporting_Methods.cpp"
/bin/sh: line 1: g++: command not found
make[2]: *** [src/subdir.mk:41: src/Genomic_Data.o] Error 127
/bin/sh: line 1: g++: command not found
make[2]: *** [src/subdir.mk:41: src/Supporting_Methods.o] Error 127
/bin/sh: line 1: g++: command not found
make[2]: *** [src/subdir.mk:41: src/Splice_Sites.o] Error 127
make[2]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs/utrrnaseq/Debug'
make[1]: *** [Makefile:10: all] Error 2
make[1]: Leaving directory '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0/auxprogs'
make: *** [Makefile:9: all] Error 2
 * ERROR: sci-biology/augustus-3.4.0-r2::gentoo failed (compile phase):
 *   emake failed
 * 
 * If you need support, post the output of `emerge --info '=sci-biology/augustus-3.4.0-r2::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-biology/augustus-3.4.0-r2::gentoo'`.
 * The complete build log is located at '/var/log/emerge-log/build/sci-biology/augustus-3.4.0-r2:20220903-224106.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0'
 * S: '/var/tmp/portage/sci-biology/augustus-3.4.0-r2/work/Augustus-3.4.0'