I: pbuilder: network access will be disabled during build I: Current time: Wed Dec 4 02:51:56 +14 2024 I: pbuilder-time-stamp: 1733230316 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [tigr-glimmer_3.02b-6.dsc] I: copying [./tigr-glimmer_3.02b.orig.tar.gz] I: copying [./tigr-glimmer_3.02b-6.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 16 18:40:48 2021 gpgv: using RSA key 8F91B227C7D6F2B1948C8236793CF67E8F0D11DA gpgv: issuer "emollier@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./tigr-glimmer_3.02b-6.dsc: no acceptable signature found dpkg-source: info: extracting tigr-glimmer in tigr-glimmer-3.02b dpkg-source: info: unpacking tigr-glimmer_3.02b.orig.tar.gz dpkg-source: info: unpacking tigr-glimmer_3.02b-6.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10_gcc4.3.patch dpkg-source: info: applying mayhem.patch dpkg-source: info: applying make-errs.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/380196/tmp/hooks/D01_modify_environment starting debug: Running on codethink04-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Dec 3 12:52 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/380196/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/380196/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="2" [2]="32" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.2.32(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=1d895dfe69094f008d5ae55a0a8f9c4d LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=380196 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.pFDfuRTb/pbuilderrc_8vMS --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.pFDfuRTb/b2 --logfile b2/build.log tigr-glimmer_3.02b-6.dsc' SUDO_GID=109 SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.1.0-28-cloud-arm64 #1 SMP Debian 6.1.119-1 (2024-11-22) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin I: user script /srv/workspace/pbuilder/380196/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13) dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 20086 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libicu72{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtool{a} libuchardet0{a} libxml2{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libltdl-dev libmail-sendmail-perl lynx wget 0 packages upgraded, 29 newly installed, 0 to remove and 0 not upgraded. Need to get 19.4 MB of archives. After unpacking 77.8 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.24 [24.8 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.45-3+b1 [314 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.45-3+b1 [102 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.45-3+b1 [43.4 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.22.5-2 [198 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-1+b2 [69.2 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-5 [1129 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.40.2-11 [91.2 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.0-1 [1404 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.19-4 [277 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3 [493 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.22.5-2 [723 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.20 [89.7 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 libtool all 2.4.7-8 [517 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.192-4 [189 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.15-1+b1 [102 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 libicu72 arm64 72.1-5+b1 [9239 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 libxml2 arm64 2.12.7+dfsg+really2.9.14-0.2+b1 [630 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.22.5-2 [1532 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.20 [915 kB] Fetched 19.4 MB in 0s (150 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package sensible-utils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 20086 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3+b1_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3+b1_arm64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.22.5-2_arm64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../05-libuchardet0_0.0.8-1+b2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-5_arm64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.2-11_arm64.deb ... Unpacking bsdextrautils (2.40.2-11) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../08-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.13.0-1_arm64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_arm64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../12-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../13-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../14-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../17-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../18-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../20-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:arm64. Preparing to unpack .../21-libelf1t64_0.192-4_arm64.deb ... Unpacking libelf1t64:arm64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b1_arm64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package libicu72:arm64. Preparing to unpack .../23-libicu72_72.1-5+b1_arm64.deb ... Unpacking libicu72:arm64 (72.1-5+b1) ... Selecting previously unselected package libxml2:arm64. Preparing to unpack .../24-libxml2_2.12.7+dfsg+really2.9.14-0.2+b1_arm64.deb ... Unpacking libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.22.5-2_arm64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../28-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Setting up libpipeline1:arm64 (1.5.8-1) ... Setting up libicu72:arm64 (72.1-5+b1) ... Setting up bsdextrautils (2.40.2-11) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libdebhelper-perl (13.20) ... Setting up libmagic1t64:arm64 (1:5.45-3+b1) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up file (1:5.45-3+b1) ... Setting up libelf1t64:arm64 (0.192-4) ... Setting up autotools-dev (20220109.1) ... Setting up autopoint (0.22.5-2) ... Setting up autoconf (2.72-3) ... Setting up dwz (0.15-1+b1) ... Setting up sensible-utils (0.0.24) ... Setting up libuchardet0:arm64 (0.0.8-1+b2) ... Setting up libxml2:arm64 (2.12.7+dfsg+really2.9.14-0.2+b1) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up gettext (0.22.5-2) ... Setting up libtool (2.4.7-8) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (20) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up groff-base (1.23.0-5) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Setting up debhelper (13.20) ... Processing triggers for libc-bin (2.40-4) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/380196/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/380196/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/tigr-glimmer-3.02b/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../tigr-glimmer_3.02b-6_source.changes dpkg-buildpackage: info: source package tigr-glimmer dpkg-buildpackage: info: source version 3.02b-6 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Étienne Mollier dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_clean cd src; make clean make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f echo "* Make Target is " clean; * Make Target is clean set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " clean " #####"; make clean; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f delcher.o fasta.o gene.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMcommon.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f rm -f delcher.d fasta.d gene.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f icm.o build-icm.o build-fixed.o score-fixed.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f libGLMicm.a cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f build-icm build-fixed score-fixed rm -f icm.d build-icm.d build-fixed.d score-fixed.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f anomaly.o glimmer3.o long-orfs.o test.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f anomaly glimmer3 long-orfs test rm -f anomaly.d glimmer3.d long-orfs.d test.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util clean ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; cd /build/reproducible-path/tigr-glimmer-3.02b/obj; rm -f entropy-profile.o entropy-score.o extract.o multi-extract.o start-codon-distrib.o uncovered.o window-acgt.o cd /build/reproducible-path/tigr-glimmer-3.02b/lib; rm -f cd /build/reproducible-path/tigr-glimmer-3.02b/bin; rm -f entropy-profile entropy-score extract multi-extract start-codon-distrib uncovered window-acgt rm -f entropy-profile.d entropy-score.d extract.d multi-extract.d start-codon-distrib.d uncovered.d window-acgt.d make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' rm -f bin/* lib/* obj/* make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b' dh_auto_build --sourcedirectory=src -- CFLAGS="-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" CPPFLAGS="-Wdate-time -D_FORTIFY_SOURCE=2" CXXFLAGS="-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" LDFLAGS="-Wl,-z,relro -Wl,-z,now" cd src && make -j12 "INSTALL=install --strip-program=true" "CFLAGS=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" "CPPFLAGS=-Wdate-time -D_FORTIFY_SOURCE=2" "CXXFLAGS=-g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard" "LDFLAGS=-Wl,-z,relro -Wl,-z,now" make[2]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src' TGT=objs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e gene.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc gene.cc \ | sed '\''s/gene\\.o[ :]*/& gene.d/g'\'' > gene.d' ; \ fi ; if [ -e fasta.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc fasta.cc \ | sed '\''s/fasta\\.o[ :]*/& fasta.d/g'\'' > fasta.d' ; \ fi ; if [ -e delcher.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc delcher.cc \ | sed '\''s/delcher\\.o[ :]*/& delcher.d/g'\'' > delcher.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ delcher.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e delcher.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/delcher.o delcher.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" delcher.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ fasta.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e fasta.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/fasta.o fasta.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" fasta.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ gene.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e gene.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/gene.o gene.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" gene.o ; \ fi ; gene.cc: In member function 'bool PWM_t::Read(FILE*)': gene.cc:319:11: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 319 | fscanf (fp, "%d", & width); | ~~~~~~~^~~~~~~~~~~~~~~~~~~ gene.cc:332:14: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 332 | fscanf (fp, "%s", tag); // skip tag in first column | ~~~~~~~^~~~~~~~~~~~~~~ gene.cc:335:17: warning: ignoring return value of 'int fscanf(FILE*, const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 335 | fscanf (fp, "%lf", & x); | ~~~~~~~^~~~~~~~~~~~~~~~ gene.cc: In function 'int Read_String(FILE*, char*&, long int&, char*, int)': gene.cc:848:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 848 | fgets (Line, MAX_LINE, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~ ################### libGLMcommon.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a delcher.o fasta.o gene.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a a - delcher.o a - fasta.o a - gene.o make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e score-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc score-fixed.cc \ | sed '\''s/score-fixed\\.o[ :]*/& score-fixed.d/g'\'' > score-fixed.d' ; \ fi ; if [ -e build-fixed.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-fixed.cc \ | sed '\''s/build-fixed\\.o[ :]*/& build-fixed.d/g'\'' > build-fixed.d' ; \ fi ; if [ -e build-icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc build-icm.cc \ | sed '\''s/build-icm\\.o[ :]*/& build-icm.d/g'\'' > build-icm.d' ; \ fi ; if [ -e icm.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc icm.cc \ | sed '\''s/icm\\.o[ :]*/& icm.d/g'\'' > icm.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/icm.o icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" icm.o ; \ fi ; icm.cc: In member function 'void Fixed_Length_ICM_t::read(const char*)': icm.cc:1491:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1491 | fread (line, sizeof (char), ID_STRING_LEN, fp); // skip the text header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ icm.cc:1519:10: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1519 | fread (permutation, sizeof (int), length, fp); | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ build-icm.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-icm.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-icm.o build-icm.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-icm.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ build-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e build-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/build-fixed.o build-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" build-fixed.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ score-fixed.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e score-fixed.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/score-fixed.o score-fixed.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" score-fixed.o ; \ fi ; ################### libGLMicm.a ##################### cd /build/reproducible-path/tigr-glimmer-3.02b/obj && \ ar rvs /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a icm.o build-icm.o build-fixed.o score-fixed.o ar: creating /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a a - icm.o a - build-icm.o a - build-fixed.o a - score-fixed.o ++++++++++++++++++++ build-icm ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-icm.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-icm.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-icm; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ build-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "build-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib build-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/build-fixed; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ score-fixed ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "score-fixed.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib score-fixed.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ -lGLMicm \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/score-fixed; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e test.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc test.cc \ | sed '\''s/test\\.o[ :]*/& test.d/g'\'' > test.d' ; \ fi ; if [ -e long-orfs.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc long-orfs.cc \ | sed '\''s/long-orfs\\.o[ :]*/& long-orfs.d/g'\'' > long-orfs.d' ; \ fi ; if [ -e glimmer3.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc glimmer3.cc \ | sed '\''s/glimmer3\\.o[ :]*/& glimmer3.d/g'\'' > glimmer3.d' ; \ fi ; if [ -e anomaly.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc anomaly.cc \ | sed '\''s/anomaly\\.o[ :]*/& anomaly.d/g'\'' > anomaly.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ anomaly.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e anomaly.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/anomaly.o anomaly.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" anomaly.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ glimmer3.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e glimmer3.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/glimmer3.o glimmer3.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" glimmer3.o ; \ fi ; glimmer3.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': glimmer3.cc:2607:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 2607 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ long-orfs.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e long-orfs.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/long-orfs.o long-orfs.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" long-orfs.o ; \ fi ; long-orfs.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': long-orfs.cc:1317:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 1317 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ test.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e test.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/test.o test.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" test.o ; \ fi ; ++++++++++++++++++++ anomaly ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "anomaly.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib anomaly.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/anomaly; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ glimmer3 ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "glimmer3.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3 -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib glimmer3.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMicm.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/glimmer3; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ long-orfs ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "long-orfs.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib long-orfs.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/long-orfs; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ test ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "test.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/test -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib test.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/test; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. if [ -e window-acgt.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc window-acgt.cc \ | sed '\''s/window-acgt\\.o[ :]*/& window-acgt.d/g'\'' > window-acgt.d' ; \ fi ; if [ -e uncovered.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc uncovered.cc \ | sed '\''s/uncovered\\.o[ :]*/& uncovered.d/g'\'' > uncovered.d' ; \ fi ; if [ -e start-codon-distrib.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc start-codon-distrib.cc \ | sed '\''s/start-codon-distrib\\.o[ :]*/& start-codon-distrib.d/g'\'' > start-codon-distrib.d' ; \ fi ; if [ -e multi-extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc multi-extract.cc \ | sed '\''s/multi-extract\\.o[ :]*/& multi-extract.d/g'\'' > multi-extract.d' ; \ fi ; if [ -e extract.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc extract.cc \ | sed '\''s/extract\\.o[ :]*/& extract.d/g'\'' > extract.d' ; \ fi ; if [ -e entropy-score.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-score.cc \ | sed '\''s/entropy-score\\.o[ :]*/& entropy-score.d/g'\'' > entropy-score.d' ; \ fi ; if [ -e entropy-profile.cc ] ; then \ /bin/sh -ec 'g++ -M -Wdate-time -D_FORTIFY_SOURCE=2 -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc entropy-profile.cc \ | sed '\''s/entropy-profile\\.o[ :]*/& entropy-profile.d/g'\'' > entropy-profile.d' ; \ fi ; make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. @@@@@@@@@@@@@@@@@@@ entropy-profile.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-profile.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-profile.o entropy-profile.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-profile.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ entropy-score.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e entropy-score.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/entropy-score.o entropy-score.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" entropy-score.o ; \ fi ; entropy-score.cc: In function 'void Read_Entropy_Profiles(const char*, bool&)': entropy-score.cc:327:10: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 327 | fgets (line, MAX_LINE, fp); // skip header line | ~~~~~~^~~~~~~~~~~~~~~~~~~~ @@@@@@@@@@@@@@@@@@@ extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/extract.o extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ multi-extract.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e multi-extract.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/multi-extract.o multi-extract.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" multi-extract.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ start-codon-distrib.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e start-codon-distrib.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/start-codon-distrib.o start-codon-distrib.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" start-codon-distrib.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ uncovered.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e uncovered.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/uncovered.o uncovered.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" uncovered.o ; \ fi ; @@@@@@@@@@@@@@@@@@@ window-acgt.cc @@@@@@@@@@@@@@@@@@@@@ set -e ; \ if [ -e window-acgt.cc ] ; then \ g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/reproducible-path/tigr-glimmer-3.02b=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -c \ -I/build/reproducible-path/tigr-glimmer-3.02b/inc -I/../SYS/inc -I/build/reproducible-path/tigr-glimmer-3.02b/src/Common -I/build/reproducible-path/tigr-glimmer-3.02b/src/ICM -I/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer -I/build/reproducible-path/tigr-glimmer-3.02b/src/Util -I/build/reproducible-path/tigr-glimmer-3.02b/inc -o /build/reproducible-path/tigr-glimmer-3.02b/obj/window-acgt.o window-acgt.cc ; \ else \ /cm/cmtools/bin/links.pl /build/reproducible-path/tigr-glimmer-3.02b/obj \ " :/build/reproducible-path/tigr-glimmer-3.02b/obj" window-acgt.o ; \ fi ; ++++++++++++++++++++ entropy-profile ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-profile.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-profile.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-profile; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ entropy-score ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "entropy-score.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib entropy-score.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/entropy-score; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ multi-extract ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "multi-extract.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib multi-extract.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/multi-extract; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ start-codon-distrib ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "start-codon-distrib.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib start-codon-distrib.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/start-codon-distrib; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ uncovered ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "uncovered.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib uncovered.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/uncovered; \ exit ${STATUS}; \ fi; \ fi ; ++++++++++++++++++++ window-acgt ++++++++++++++++++++++ set -e ; \ STATUS=0 ; \ if [ -z "window-acgt.o" ] ; then \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ cc -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ else \ cd /build/reproducible-path/tigr-glimmer-3.02b/obj; \ g++ -o /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt -Wl,-z,relro -Wl,-z,now \ -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/build/reproducible-path/tigr-glimmer-3.02b/lib -L/usr/lib -L/usr/shlib -L/usr/X11R6/lib -L/lib window-acgt.o /build/reproducible-path/tigr-glimmer-3.02b/lib/libGLMcommon.a \ \ || STATUS=${?} ; \ if [ ${STATUS} != 0 ] ; then \ rm -f /build/reproducible-path/tigr-glimmer-3.02b/bin/window-acgt; \ exit ${STATUS}; \ fi; \ fi ; make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=libs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' TGT=progs echo "* Make Target is " all; * Make Target is all set -e ; for i in Common ICM Glimmer Util; do if [ -d $i ]; then cd $i; echo "##### Making Directory " `pwd` " " all " #####"; make all; cd ..; fi; done; ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Common all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Common' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/ICM all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/ICM' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Glimmer' ##### Making Directory /build/reproducible-path/tigr-glimmer-3.02b/src/Util all ##### make[3]: Entering directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[3]: warning: jobserver unavailable: using -j1. Add '+' to parent make rule. make[3]: Nothing to be done for 'all'. make[3]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src/Util' make[2]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b/src' make[1]: Leaving directory '/build/reproducible-path/tigr-glimmer-3.02b' create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install --destdir=debian/tigr-glimmer/ dh_install dh_installdocs dh_installchangelogs dh_installexamples dh_installman dh_perl dh_link dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_dwz -a dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb dh_gencontrol dh_md5sums dh_builddeb dpkg-deb: building package 'tigr-glimmer' in '../tigr-glimmer_3.02b-6_arm64.deb'. dpkg-deb: building package 'tigr-glimmer-dbgsym' in '../tigr-glimmer-dbgsym_3.02b-6_arm64.deb'. dpkg-genbuildinfo --build=binary -O../tigr-glimmer_3.02b-6_arm64.buildinfo dpkg-genchanges --build=binary -O../tigr-glimmer_3.02b-6_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/380196/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/380196/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/380196 and its subdirectories I: Current time: Wed Dec 4 02:53:13 +14 2024 I: pbuilder-time-stamp: 1733230393