Thu Jun 20 19:28:45 UTC 2024 I: starting to build eigensoft/trixie/armhf on jenkins on '2024-06-20 19:28' Thu Jun 20 19:28:45 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/armhf_27/6798/console.log Thu Jun 20 19:28:45 UTC 2024 I: Downloading source for trixie/eigensoft=8.0.0+dfsg-2 --2024-06-20 19:28:45-- http://deb.debian.org/debian/pool/main/e/eigensoft/eigensoft_8.0.0%2bdfsg-2.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2132 (2.1K) [text/prs.lines.tag] Saving to: ‘eigensoft_8.0.0+dfsg-2.dsc’ 0K .. 100% 325M=0s 2024-06-20 19:28:45 (325 MB/s) - ‘eigensoft_8.0.0+dfsg-2.dsc’ saved [2132/2132] Thu Jun 20 19:28:45 UTC 2024 I: eigensoft_8.0.0+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: eigensoft Binary: eigensoft Architecture: any Version: 8.0.0+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller , Andreas Tille Homepage: http://www.hsph.harvard.edu/faculty/alkes-price/software/ Standards-Version: 4.6.2 Vcs-Browser: https://salsa.debian.org/med-team/eigensoft Vcs-Git: https://salsa.debian.org/med-team/eigensoft.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev Package-List: eigensoft deb science optional arch=any Checksums-Sha1: 4dbd0c7d2ec075bc5629202db818578c1a96315b 231064 eigensoft_8.0.0+dfsg.orig.tar.xz 1956f229583dfd3cab5744b06ebfd3fe511350eb 6240 eigensoft_8.0.0+dfsg-2.debian.tar.xz Checksums-Sha256: 5a9576af6d30564391f5892713e9d434c4d0b5baeb75aa720ff1dad7cf556baf 231064 eigensoft_8.0.0+dfsg.orig.tar.xz a7cb4d5a066dbee75101e94b072c46fa40c187d4265a242f678e27215942edd7 6240 eigensoft_8.0.0+dfsg-2.debian.tar.xz Files: 6cc8676fe6f4fe95517ef7d2d2df6606 231064 eigensoft_8.0.0+dfsg.orig.tar.xz b66fd65eb720935b1b676360f8bcd74b 6240 eigensoft_8.0.0+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmW6jykRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH0bw//Ueg3uVzVJCCFsvsgUVjzWvuEnuBEjDO4 PkKwk6irxdPInqfuxYoeguzyP3X8suN5ZTzZvbpDazzG26Bo1EXrtxCVRliP19o+ yaB1sPbMe00xIu6ouTkRcDDfrx05ixkK6BmU0WPbQXo22m8FkEHTkP21usBPAsmQ nttlSUvShpNPPjsiSrWGG90dJ0HAK1pOafbUUVU+XAv4Ocl37DMUwUiw3hTmkHnU KkHB7UT6uOWY7ICVBT+p1bveyczJmi+vVLsvfbONQg6zZN7eHonsYo256oM8rte2 HCnc2uBcC7y/UtY4nKwrDvXKltid3QkzuBQhMCFMcojrY6CsGLKjsPbOk837g1s4 Rm8uNL9dchaCGuHQNtJ3RjrFgb3sIXMqKvNzxtALEKlc9WnyZKPU0gNsWOpuyU2+ wcY9nfNUQLXnbeqmSFftMxTHLy5ged7d/g4KSH4i6gliBZItZxJ7+2rk6096m1Cu PABDNTn8s1m0ilOBNEM6x4xpjfXBPre7rSNtYYergd8QVGUNPpfQEsy8QPY/1TvN g7V47kfO6YvcwjTlXZYvj/y7EqVbykO886m5BIvJiqOmNunnMhBVzRU8hmznG/31 sS5e179GaUSIcgFTp/RfUqYC+2rqWGINV4QHyLd74baFMWJaBqV3vQTIYCr+1c7c nGXl+q05XPc= =FR3v -----END PGP SIGNATURE----- Thu Jun 20 19:28:45 UTC 2024 I: Checking whether the package is not for us Thu Jun 20 19:28:45 UTC 2024 I: Starting 1st build on remote node virt64z-armhf-rb.debian.net. Thu Jun 20 19:28:45 UTC 2024 I: Preparing to do remote build '1' on virt64z-armhf-rb.debian.net. Thu Jun 20 19:30:43 UTC 2024 I: Deleting $TMPDIR on virt64z-armhf-rb.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Thu Jun 20 07:28:52 -12 2024 I: pbuilder-time-stamp: 1718911732 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-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 [eigensoft_8.0.0+dfsg-2.dsc] I: copying [./eigensoft_8.0.0+dfsg.orig.tar.xz] I: copying [./eigensoft_8.0.0+dfsg-2.debian.tar.xz] I: Extracting source gpgv: Signature made Wed Jan 31 18:19:21 2024 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./eigensoft_8.0.0+dfsg-2.dsc: no acceptable signature found dpkg-source: info: extracting eigensoft in eigensoft-8.0.0+dfsg dpkg-source: info: unpacking eigensoft_8.0.0+dfsg.orig.tar.xz dpkg-source: info: unpacking eigensoft_8.0.0+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying blas.patch dpkg-source: info: applying lapacke.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/14352/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='armhf' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=3 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='armhf' IFS=' ' INVOCATION_ID='81cdc26241d54a5c8f51ac24d7dafc77' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='14352' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/pbuilderrc_oAgf --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/b1 --logfile b1/build.log eigensoft_8.0.0+dfsg-2.dsc' SUDO_GID='110' SUDO_UID='103' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://10.0.0.15:3142/' I: uname -a Linux virt64z 6.1.0-21-arm64 #1 SMP Debian 6.1.90-1 (2024-05-03) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Jun 5 22:35 /bin -> usr/bin I: user script /srv/workspace/pbuilder/14352/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: armhf 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), gfortran, libblas-dev, liblapack-dev, liblapacke-dev, libgsl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19460 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. pbuilder-satisfydepends-dummy depends on gfortran; however: Package gfortran is not installed. pbuilder-satisfydepends-dummy depends on libblas-dev; however: Package libblas-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapack-dev; however: Package liblapack-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapacke-dev; however: Package liblapacke-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev 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} gfortran{a} gfortran-13{a} gfortran-13-arm-linux-gnueabihf{a} gfortran-arm-linux-gnueabihf{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libdebhelper-perl{a} libelf1t64{a} libfile-stripnondeterminism-perl{a} libgfortran-13-dev{a} libgfortran5{a} libgsl-dev{a} libgsl27{a} libgslcblas0{a} libicu72{a} liblapack-dev{a} liblapack3{a} liblapacke{a} liblapacke-dev{a} libmagic-mgc{a} libmagic1t64{a} libpipeline1{a} libtmglib-dev{a} libtmglib3{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, 46 newly installed, 0 to remove and 0 not upgraded. Need to get 33.3 MB of archives. After unpacking 126 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main armhf sensible-utils all 0.0.23 [24.7 kB] Get: 2 http://deb.debian.org/debian trixie/main armhf libmagic-mgc armhf 1:5.45-3 [314 kB] Get: 3 http://deb.debian.org/debian trixie/main armhf libmagic1t64 armhf 1:5.45-3 [98.1 kB] Get: 4 http://deb.debian.org/debian trixie/main armhf file armhf 1:5.45-3 [42.0 kB] Get: 5 http://deb.debian.org/debian trixie/main armhf gettext-base armhf 0.21-14+b1 [157 kB] Get: 6 http://deb.debian.org/debian trixie/main armhf libuchardet0 armhf 0.0.8-1+b1 [65.7 kB] Get: 7 http://deb.debian.org/debian trixie/main armhf groff-base armhf 1.23.0-4 [1090 kB] Get: 8 http://deb.debian.org/debian trixie/main armhf bsdextrautils armhf 2.40.1-8.1 [87.7 kB] Get: 9 http://deb.debian.org/debian trixie/main armhf libpipeline1 armhf 1.5.7-2 [33.3 kB] Get: 10 http://deb.debian.org/debian trixie/main armhf man-db armhf 2.12.1-2 [1376 kB] Get: 11 http://deb.debian.org/debian trixie/main armhf m4 armhf 1.4.19-4 [264 kB] Get: 12 http://deb.debian.org/debian trixie/main armhf autoconf all 2.71-3 [332 kB] Get: 13 http://deb.debian.org/debian trixie/main armhf autotools-dev all 20220109.1 [51.6 kB] Get: 14 http://deb.debian.org/debian trixie/main armhf automake all 1:1.16.5-1.3 [823 kB] Get: 15 http://deb.debian.org/debian trixie/main armhf autopoint all 0.21-14 [496 kB] Get: 16 http://deb.debian.org/debian trixie/main armhf libdebhelper-perl all 13.15.3 [88.0 kB] Get: 17 http://deb.debian.org/debian trixie/main armhf libtool all 2.4.7-7 [517 kB] Get: 18 http://deb.debian.org/debian trixie/main armhf dh-autoreconf all 20 [17.1 kB] Get: 19 http://deb.debian.org/debian trixie/main armhf libarchive-zip-perl all 1.68-1 [104 kB] Get: 20 http://deb.debian.org/debian trixie/main armhf libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 21 http://deb.debian.org/debian trixie/main armhf dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 22 http://deb.debian.org/debian trixie/main armhf libelf1t64 armhf 0.191-1+b1 [183 kB] Get: 23 http://deb.debian.org/debian trixie/main armhf dwz armhf 0.15-1+b2 [106 kB] Get: 24 http://deb.debian.org/debian trixie/main armhf libicu72 armhf 72.1-4+b1 [9070 kB] Get: 25 http://deb.debian.org/debian trixie/main armhf libxml2 armhf 2.9.14+dfsg-1.3+b3 [598 kB] Get: 26 http://deb.debian.org/debian trixie/main armhf gettext armhf 0.21-14+b1 [1230 kB] Get: 27 http://deb.debian.org/debian trixie/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 28 http://deb.debian.org/debian trixie/main armhf po-debconf all 1.0.21+nmu1 [248 kB] Get: 29 http://deb.debian.org/debian trixie/main armhf debhelper all 13.15.3 [901 kB] Get: 30 http://deb.debian.org/debian trixie/main armhf libgfortran5 armhf 14-20240330-1 [264 kB] Get: 31 http://deb.debian.org/debian trixie/main armhf libgfortran-13-dev armhf 13.2.0-25 [306 kB] Get: 32 http://deb.debian.org/debian trixie/main armhf gfortran-13-arm-linux-gnueabihf armhf 13.2.0-25 [7849 kB] Get: 33 http://deb.debian.org/debian trixie/main armhf gfortran-13 armhf 13.2.0-25 [12.8 kB] Get: 34 http://deb.debian.org/debian trixie/main armhf gfortran-arm-linux-gnueabihf armhf 4:13.2.0-7 [1288 B] Get: 35 http://deb.debian.org/debian trixie/main armhf gfortran armhf 4:13.2.0-7 [1432 B] Get: 36 http://deb.debian.org/debian trixie/main armhf libblas3 armhf 3.12.0-3 [108 kB] Get: 37 http://deb.debian.org/debian trixie/main armhf libblas-dev armhf 3.12.0-3 [119 kB] Get: 38 http://deb.debian.org/debian trixie/main armhf libgslcblas0 armhf 2.7.1+dfsg-6+b1 [79.6 kB] Get: 39 http://deb.debian.org/debian trixie/main armhf libgsl27 armhf 2.7.1+dfsg-6+b1 [767 kB] Get: 40 http://deb.debian.org/debian trixie/main armhf libgsl-dev armhf 2.7.1+dfsg-6+b1 [975 kB] Get: 41 http://deb.debian.org/debian trixie/main armhf liblapack3 armhf 3.12.0-3 [1803 kB] Get: 42 http://deb.debian.org/debian trixie/main armhf liblapack-dev armhf 3.12.0-3 [1903 kB] Get: 43 http://deb.debian.org/debian trixie/main armhf libtmglib3 armhf 3.12.0-3 [90.6 kB] Get: 44 http://deb.debian.org/debian trixie/main armhf liblapacke armhf 3.12.0-3 [306 kB] Get: 45 http://deb.debian.org/debian trixie/main armhf libtmglib-dev armhf 3.12.0-3 [93.9 kB] Get: 46 http://deb.debian.org/debian trixie/main armhf liblapacke-dev armhf 3.12.0-3 [293 kB] Fetched 33.3 MB in 0s (91.6 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 ... 19460 files and directories currently installed.) Preparing to unpack .../00-sensible-utils_0.0.23_all.deb ... Unpacking sensible-utils (0.0.23) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../01-libmagic-mgc_1%3a5.45-3_armhf.deb ... Unpacking libmagic-mgc (1:5.45-3) ... Selecting previously unselected package libmagic1t64:armhf. Preparing to unpack .../02-libmagic1t64_1%3a5.45-3_armhf.deb ... Unpacking libmagic1t64:armhf (1:5.45-3) ... Selecting previously unselected package file. Preparing to unpack .../03-file_1%3a5.45-3_armhf.deb ... Unpacking file (1:5.45-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../04-gettext-base_0.21-14+b1_armhf.deb ... Unpacking gettext-base (0.21-14+b1) ... Selecting previously unselected package libuchardet0:armhf. Preparing to unpack .../05-libuchardet0_0.0.8-1+b1_armhf.deb ... Unpacking libuchardet0:armhf (0.0.8-1+b1) ... Selecting previously unselected package groff-base. Preparing to unpack .../06-groff-base_1.23.0-4_armhf.deb ... Unpacking groff-base (1.23.0-4) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../07-bsdextrautils_2.40.1-8.1_armhf.deb ... Unpacking bsdextrautils (2.40.1-8.1) ... Selecting previously unselected package libpipeline1:armhf. Preparing to unpack .../08-libpipeline1_1.5.7-2_armhf.deb ... Unpacking libpipeline1:armhf (1.5.7-2) ... Selecting previously unselected package man-db. Preparing to unpack .../09-man-db_2.12.1-2_armhf.deb ... Unpacking man-db (2.12.1-2) ... Selecting previously unselected package m4. Preparing to unpack .../10-m4_1.4.19-4_armhf.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../11-autoconf_2.71-3_all.deb ... Unpacking autoconf (2.71-3) ... 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_0.21-14_all.deb ... Unpacking autopoint (0.21-14) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../15-libdebhelper-perl_13.15.3_all.deb ... Unpacking libdebhelper-perl (13.15.3) ... Selecting previously unselected package libtool. Preparing to unpack .../16-libtool_2.4.7-7_all.deb ... Unpacking libtool (2.4.7-7) ... 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:armhf. Preparing to unpack .../21-libelf1t64_0.191-1+b1_armhf.deb ... Unpacking libelf1t64:armhf (0.191-1+b1) ... Selecting previously unselected package dwz. Preparing to unpack .../22-dwz_0.15-1+b2_armhf.deb ... Unpacking dwz (0.15-1+b2) ... Selecting previously unselected package libicu72:armhf. Preparing to unpack .../23-libicu72_72.1-4+b1_armhf.deb ... Unpacking libicu72:armhf (72.1-4+b1) ... Selecting previously unselected package libxml2:armhf. Preparing to unpack .../24-libxml2_2.9.14+dfsg-1.3+b3_armhf.deb ... Unpacking libxml2:armhf (2.9.14+dfsg-1.3+b3) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.21-14+b1_armhf.deb ... Unpacking gettext (0.21-14+b1) ... 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. 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Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/eigensoft-8.0.0+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../eigensoft_8.0.0+dfsg-2_source.changes dpkg-buildpackage: info: source package eigensoft dpkg-buildpackage: info: source version 8.0.0+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture armhf debian/rules clean dh clean debian/rules override_dh_clean make[1]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/eigensoft.substvars debian/files rm -fr -- debian/eigensoft/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a \( -name autom4te.cache -o -name __pycache__ \) -prune -exec rm -rf {} + \) \) /usr/bin/make -C src clobber make[2]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' rm -f *.o */*.o */*.a nicksrc/*.o eigensrc/*.o ksrc/*.o rm -f baseprog convertf mergeit pca eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca cd ../bin/ ; rm -f baseprog convertf mergeit pca pcatoy smartrel smarteigenstrat twstats eigenstrat eigenstratQTL smartpca ; cd ../src make[2]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' debian/rules binary dh binary dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_build make[1]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' /usr/bin/make DEBUG_OPTIONS=-g -C src all make[2]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o baseprog.o baseprog.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mcio.o mcio.c mcio.c: In function 'snpsortit': mcio.c:119:16: warning: result of '10^8' is 2; did you mean '1e8'? [-Wxor-used-as-pow] 119 | base[1] = 10 ^ 8; | ^ | -- | 1 e mcio.c:119:13: note: you can silence this warning by using a hexadecimal constant (0xa rather than 10) 119 | base[1] = 10 ^ 8; | ^~ | 0xa mcio.c:120:16: warning: result of '10^9' is 3; did you mean '1e9'? [-Wxor-used-as-pow] 120 | base[2] = 10 ^ 9; | ^ | -- | 1 e mcio.c:120:13: note: you can silence this warning by using a hexadecimal constant (0xa rather than 10) 120 | base[2] = 10 ^ 9; | ^~ | 0xa mcio.c: In function 'getgenos': mcio.c:1383:5: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 1383 | system (cmd); | ^~~~~~~~~~~~ In file included from ../include/statsubs.h:6, from ../include/nicklib.h:4, from ../include/admutils.h:2, from ../include/mcio.h:11, from mcio.c:3: mcio.c: In function 'getindivs': ../include/strsubs.h:100:54: warning: argument 1 range [2147483648, 4294967295] exceeds maximum object size 2147483647 [-Walloc-size-larger-than=] 100 | #define ZALLOC(item,n,type) if ((item = (type *)calloc((n),sizeof(type))) == NULL) \ | ^~~~~~~~~~~~~~~~~~~~~~~~ mcio.c:968:3: note: in expansion of macro 'ZALLOC' 968 | ZALLOC (indivmarkers, nindiv, Indiv *); | ^~~~~~ In file included from ../include/strsubs.h:1, from ../include/vsubs.h:5, from ../include/mcio.h:10: /usr/include/stdlib.h:675:14: note: in a call to allocation function 'calloc' declared here 675 | extern void *calloc (size_t __nmemb, size_t __size) | ^~~~~~ mcio.c: In function 'outfiles': mcio.c:3218:23: warning: '%s' directive argument is null [-Wformat-overflow=] 3218 | printf ("snpname: %s %d\n", snpname, numsnps); | ^~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o egsubs.o egsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o admutils.o admutils.c admutils.c: In function 'setid2pops': admutils.c:1256:31: warning: format '%s' expects a matching 'char *' argument [-Wformat=] 1256 | printf ("(setid2pops): %s not found\n"); | ~^ | | | char * cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o h2d.o h2d.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/exclude.o eigensrc/exclude.c /usr/bin/make -C nicksrc make[3]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src/nicksrc' cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o strsubs.o strsubs.c strsubs.c: In function 'printslurmenv': strsubs.c:2007:2: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 2007 | system(sss) ; | ^~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o sortit.o sortit.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o vsubs.o vsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o statsubs.o statsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o linsubs.o linsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o getpars.o getpars.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o xsearch.o xsearch.c xsearch.c: In function 'xshash': xsearch.c:321:8: warning: right shift count >= width of type [-Wshift-count-overflow] 321 | a = w >> 32 ; | ^~ xsearch.c: In function 'xlhash': xsearch.c:348:10: warning: right shift count >= width of type [-Wshift-count-overflow] 348 | b1 = w >> 61 ; | ^~ xsearch.c: In function 'xloadsearchx': xsearch.c:256:19: warning: '%d' directive writing between 1 and 10 bytes into a region of size 8 [-Wformat-overflow=] 256 | sprintf (xx, "%d", i); | ^~ xsearch.c:256:18: note: directive argument in the range [0, 1073741822] 256 | sprintf (xx, "%d", i); | ^~~~ In file included from /usr/include/stdio.h:964, from xsearch.c:1: In function 'sprintf', inlined from 'xloadsearchx' at xsearch.c:256:5: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 2 and 11 bytes into a destination of size 8 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ xsearch.c: In function 'xloadsearchx': xsearch.c:256:19: warning: '%d' directive writing between 1 and 10 bytes into a region of size 8 [-Wformat-overflow=] 256 | sprintf (xx, "%d", i); | ^~ xsearch.c:256:18: note: directive argument in the range [0, 1073741822] 256 | sprintf (xx, "%d", i); | ^~~~ In function 'sprintf', inlined from 'xloadsearchx' at xsearch.c:256:5: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 2 and 11 bytes into a destination of size 8 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ xsearch.c: In function 'xloadsearch': xsearch.c:278:19: warning: '%d' directive writing between 1 and 10 bytes into a region of size 8 [-Wformat-overflow=] 278 | sprintf (xx, "%d", i); | ^~ xsearch.c:278:18: note: directive argument in the range [0, 1073741823] 278 | sprintf (xx, "%d", i); | ^~~~ In function 'sprintf', inlined from 'xloadsearch' at xsearch.c:278:5: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 2 and 11 bytes into a destination of size 8 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ xsearch.c: In function 'xloadsearch': xsearch.c:278:19: warning: '%d' directive writing between 1 and 10 bytes into a region of size 8 [-Wformat-overflow=] 278 | sprintf (xx, "%d", i); | ^~ xsearch.c:278:18: note: directive argument in the range [0, 1073741823] 278 | sprintf (xx, "%d", i); | ^~~~ In function 'sprintf', inlined from 'xloadsearch' at xsearch.c:278:5: /usr/include/arm-linux-gnueabihf/bits/stdio2.h:30:10: note: '__builtin___sprintf_chk' output between 2 and 11 bytes into a destination of size 8 30 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 31 | __glibc_objsize (__s), __fmt, | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 32 | __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gauss.o gauss.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -c -O3 -g -p -Wimplicit -I../../include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gds.o gds.c ar -r libnick.a strsubs.o sortit.o vsubs.o statsubs.o linsubs.o getpars.o xsearch.o gauss.o gds.o ar: creating libnick.a ranlib libnick.a make[3]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src/nicksrc' cc -Wl,-z,relro -Wl,-z,now baseprog.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o baseprog cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o convertf.o convertf.c cc -Wl,-z,relro -Wl,-z,now convertf.o mcio.o egsubs.o admutils.o h2d.o eigensrc/exclude.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o convertf cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o mergeit.o mergeit.c cc -Wl,-z,relro -Wl,-z,now mergeit.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o mergeit cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o pca.o pca.c pca.c: In function 'main': pca.c:102:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 102 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:167:9: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 167 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ pca.c:190:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 190 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigsubs.o eigensrc/eigsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/eigx.o eigensrc/eigx.c cc -Wl,-z,relro -Wl,-z,now pca.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o pca cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/pcatoy.o eigensrc/pcatoy.c cc -Wl,-z,relro -Wl,-z,now eigensrc/pcatoy.o eigensrc/eigsubs.o eigensrc/eigx.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/pcatoy cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartrel.o eigensrc/smartrel.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o twsubs.o twsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o qpsubs.o qpsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o regsubs.o regsubs.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartsubs.o eigensrc/smartsubs.c cc -Wl,-z,relro -Wl,-z,now eigensrc/smartrel.o twsubs.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o eigensrc/eigsubs.o eigensrc/eigx.o eigensrc/smartsubs.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartrel cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smarteigenstrat.o eigensrc/smarteigenstrat.c eigensrc/smarteigenstrat.c: In function 'readpcafile': eigensrc/smarteigenstrat.c:332:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 332 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:339:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 339 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:342:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 342 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/smarteigenstrat.c:360:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 360 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-z,relro -Wl,-z,now eigensrc/smarteigenstrat.o mcio.o admutils.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smarteigenstrat cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/twstats.o eigensrc/twstats.c cc -Wl,-z,relro -Wl,-z,now eigensrc/twstats.o nicksrc/libnick.a -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/twstats cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now eigensrc/eigenstrat.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstrat eigensrc/eigenstrat.c: In function 'main': eigensrc/eigenstrat.c:86:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 86 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:123:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 123 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:130:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 130 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:133:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 133 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:151:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 151 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:165:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 165 | fscanf (fppheno, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:188:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 188 | fscanf (fppheno, "%c", &Xchar); /* should be end of file */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:244:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 244 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstrat.c:267:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 267 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -Wl,-z,now eigensrc/eigenstratQTL.c -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/eigenstratQTL eigensrc/eigenstratQTL.c: In function 'main': eigensrc/eigenstratQTL.c:86:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 86 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:123:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 123 | fscanf (fppca, "%d", &K); | ^~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:130:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 130 | fscanf (fppca, "%lf", &tempdouble); /* eigenvalues */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:133:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 133 | fscanf (fppca, "%lf", &V[NSAMPLES * n + k]); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:151:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 151 | fscanf (fppca, "%lf", &tempdouble); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:172:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 172 | fscanf (fppheno, "%lf", &iscase[n]); /* QTL phenotype */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:174:3: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 174 | fscanf (fppheno, "%lf", &tempdouble); /* to check # entries */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:227:7: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 227 | fscanf (fp, "%c", &Xchar); | ^~~~~~~~~~~~~~~~~~~~~~~~~ eigensrc/eigenstratQTL.c:250:5: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 250 | fscanf (fp, "%c", &Xchar); /* should be \n character */ | ^~~~~~~~~~~~~~~~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o eigensrc/smartpca.o eigensrc/smartpca.c eigensrc/smartpca.c: In function 'main': eigensrc/smartpca.c:1292:23: warning: format '%d' expects argument of type 'int', but argument 2 has type 'char *' [-Wformat=] 1292 | printf("elllist: %3d %20s\n", indx -> ID) ; fflush(stdout) ; | ~~^ ~~~~~~~~~~ | | | | int char * | %3s eigensrc/smartpca.c:1292:28: warning: format '%s' expects a matching 'char *' argument [-Wformat=] 1292 | printf("elllist: %3d %20s\n", indx -> ID) ; fflush(stdout) ; | ~~~^ | | | char * eigensrc/smartpca.c:1675:43: warning: format '%d' expects argument of type 'int', but argument 2 has type 'double' [-Wformat=] 1675 | printf("coeff multiplier (eigenvector %d): %9.3f\n", y, j) ; | ~^ ~ | | | | int double | %f eigensrc/smartpca.c:1675:51: warning: format '%f' expects argument of type 'double', but argument 3 has type 'int' [-Wformat=] 1675 | printf("coeff multiplier (eigenvector %d): %9.3f\n", y, j) ; | ~~~~^ ~ | | | | double int | %9.3d eigensrc/smartpca.c:700:5: warning: ignoring return value of 'system' declared with attribute 'warn_unused_result' [-Wunused-result] 700 | system (buff); | ^~~~~~~~~~~~~ cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o gval.o gval.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_fpca.o ksrc/kjg_fpca.c cc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/eigensoft-8.0.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -I../include -I/usr/include/openblas -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64 -D_TIME_BITS=64 -Wdate-time -D_FORTIFY_SOURCE=2 -c -o ksrc/kjg_gsl.o ksrc/kjg_gsl.c ksrc/kjg_gsl.c: In function 'kjg_gsl_matrix_fscanf': ksrc/kjg_gsl.c:38:11: warning: ignoring return value of 'fscanf' declared with attribute 'warn_unused_result' [-Wunused-result] 38 | fscanf (stream, "%lg", &x); | ^~~~~~~~~~~~~~~~~~~~~~~~~~ cc -Wl,-z,relro -Wl,-z,now eigensrc/smartpca.o eigensrc/eigsubs.o eigensrc/exclude.o eigensrc/smartsubs.o eigensrc/eigx.o mcio.o qpsubs.o admutils.o egsubs.o regsubs.o gval.o nicksrc/libnick.a ksrc/kjg_fpca.o ksrc/kjg_gsl.o -lgsl -lblas -lm -llapacke -llapack -lpthread -o eigensrc/smartpca make[2]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' cd src && make install make[2]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' mv baseprog convertf mergeit pca eigensrc/pcatoy eigensrc/smartrel eigensrc/smarteigenstrat eigensrc/twstats eigensrc/eigenstrat eigensrc/eigenstratQTL eigensrc/smartpca ../bin make[2]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg/src' make[1]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' create-stamp debian/debhelper-build-stamp dh_prep rm -f -- debian/eigensoft.substvars rm -fr -- debian/.debhelper/generated/eigensoft/ debian/eigensoft/ debian/tmp/ dh_auto_install --destdir=debian/eigensoft/ install -m0755 -d /build/reproducible-path/eigensoft-8.0.0\+dfsg/debian/eigensoft debian/rules override_dh_install make[1]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' dh_install install -m0755 -d debian/eigensoft/usr/bin cp --reflink=auto -a ./bin/baseprog ./bin/convertf ./bin/eigenstrat ./bin/eigenstratQTL ./bin/evec2pca-ped.perl ./bin/evec2pca.perl ./bin/gc.perl ./bin/mergeit ./bin/pca ./bin/pcatoy ./bin/ploteig ./bin/rescale_ell ./bin/smarteigenstrat ./bin/smarteigenstrat.perl ./bin/smartpca ./bin/smartpca.perl ./bin/smartrel ./bin/twstats debian/eigensoft/usr/bin/ install -m0755 -d debian/eigensoft/usr/lib/debian-med/bin cp --reflink=auto -a ./bin/gc.perl debian/eigensoft/usr/lib/debian-med/bin/ install -m0755 -d debian/eigensoft/usr/lib/eigensoft cp --reflink=auto -a ./bin/smarteigenstrat ./bin/smartpca debian/eigensoft/usr/lib/eigensoft/ install -m0755 -d debian/eigensoft/usr/share/eigensoft cp --reflink=auto -a ./CONVERTF ./EIGENSTRAT ./POPGEN debian/eigensoft/usr/share/eigensoft/ find debian/eigensoft/usr/share/ -type f -empty -delete # file consists only from single line with wrong interpreter find debian/eigensoft/usr/share/ -type f -name HGDP.X.perl -delete # Fix wrappers and drop *.perl extension in /usr/bin while keeping # the original name in /usr/lib/debian-med/bin mkdir -p debian/eigensoft/usr/lib/debian-med/bin for pl in evec2pca-ped evec2pca smarteigenstrat smartpca ; do \ rm -f debian/eigensoft/usr/bin/${pl} ; \ sed -i \ -e "s?\(command[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(${pl}\)?\1/usr/lib/eigensoft/\2?" \ -e "s?\(cmd[[:space:]]*=[[:space:]]*\"\)\(evec2pca.*\)\.perl?\1?" \ -e "s?\(${pl}\)\.perl?\1?" \ debian/eigensoft/usr/bin/${pl}.perl ; \ cp -a debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/bin/${pl} ; \ mv debian/eigensoft/usr/bin/${pl}.perl debian/eigensoft/usr/lib/debian-med/bin ; \ done cd debian && for pl in `grep -lR '/usr/.*/bin/perl' | grep -v debian/rules` ; do \ sed -i -e "s?/usr/.*/bin/perl?/usr/bin/perl?" ${pl} ; \ done rm debian/eigensoft/usr/bin/gc.perl make[1]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' dh_installdocs install -m0755 -d debian/eigensoft/usr/share/doc/eigensoft install -m0755 -d debian/eigensoft/usr/share/doc/eigensoft cp --reflink=auto -a ./README debian/eigensoft/usr/share/doc/eigensoft chmod -R u\+rw,go=rX debian/eigensoft/usr/share/doc install -p -m0644 debian/README.Debian debian/eigensoft/usr/share/doc/eigensoft/README.Debian install -p -m0644 debian/copyright debian/eigensoft/usr/share/doc/eigensoft/copyright dh_installchangelogs install -m0755 -d debian/eigensoft/usr/share/doc/eigensoft install -p -m0644 debian/.debhelper/generated/eigensoft/dh_installchangelogs.dch.trimmed debian/eigensoft/usr/share/doc/eigensoft/changelog.Debian dh_installexamples install -m0755 -d debian/eigensoft/usr/share/doc/eigensoft/examples cp --reflink=auto -a ./CONVERTF debian/eigensoft/usr/share/doc/eigensoft/examples cp --reflink=auto -a ./EIGENSTRAT debian/eigensoft/usr/share/doc/eigensoft/examples cp --reflink=auto -a ./POPGEN debian/eigensoft/usr/share/doc/eigensoft/examples dh_installman install -m0755 -d debian/eigensoft/usr/share/man/man1/ install -p -m0644 ./debian/mans/smarteigenstrat.1 debian/eigensoft/usr/share/man/man1/smarteigenstrat.1 man-recode --to-code UTF-8 --suffix .dh-new debian/eigensoft/usr/share/man/man1/smarteigenstrat.1 mv debian/eigensoft/usr/share/man/man1/smarteigenstrat.1.dh-new debian/eigensoft/usr/share/man/man1/smarteigenstrat.1 chmod 0644 -- debian/eigensoft/usr/share/man/man1/smarteigenstrat.1 dh_perl mv debian/eigensoft.substvars.new debian/eigensoft.substvars dh_link install -m0755 -d debian/eigensoft/usr/bin rm -f debian/eigensoft/usr/bin/gc-eigensoft ln -s ../lib/debian-med/bin/gc.perl debian/eigensoft/usr/bin/gc-eigensoft dh_strip_nondeterminism dh_compress cd debian/eigensoft chmod a-x usr/share/doc/eigensoft/README usr/share/doc/eigensoft/changelog.Debian usr/share/man/man1/smarteigenstrat.1 gzip -9nf usr/share/doc/eigensoft/README usr/share/doc/eigensoft/changelog.Debian usr/share/man/man1/smarteigenstrat.1 cd '/build/reproducible-path/eigensoft-8.0.0+dfsg' rm -f debian/eigensoft.debhelper.log debian/rules override_dh_fixperms make[1]: Entering directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' dh_fixperms find debian/eigensoft ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/eigensoft/usr/share/doc -type f -a -true -a ! -regex 'debian/eigensoft/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/eigensoft/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/eigensoft/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/eigensoft -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/eigensoft/usr/bin -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/eigensoft/usr/lib -type f -name '*.ali' -a -true -a -true -print0 2>/dev/null | xargs -0r chmod uga-w find debian/*/usr/share/eigensoft -type f -name "*.perl" -exec chmod +x \{\} \; make[1]: Leaving directory '/build/reproducible-path/eigensoft-8.0.0+dfsg' dh_missing dh_dwz -a install -m0755 -d debian/eigensoft/usr/lib/debug/.dwz/arm-linux-gnueabihf dwz -mdebian/eigensoft/usr/lib/debug/.dwz/arm-linux-gnueabihf/eigensoft.debug -M/usr/lib/debug/.dwz/arm-linux-gnueabihf/eigensoft.debug -- debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/bin/mergeit debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/eigensoft/usr/lib/eigensoft/smartpca objcopy --compress-debug-sections debian/eigensoft/usr/lib/debug/.dwz/arm-linux-gnueabihf/eigensoft.debug chmod 0644 -- debian/eigensoft/usr/lib/debug/.dwz/arm-linux-gnueabihf/eigensoft.debug dh_strip -a install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/3e objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/twstats debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/3e/209338d682944278e39a7bcb77d32ece86fcb3.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/3e/209338d682944278e39a7bcb77d32ece86fcb3.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/twstats objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/3e/209338d682944278e39a7bcb77d32ece86fcb3.debug debian/eigensoft/usr/bin/twstats install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/e3 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/smartrel debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/e3/3ed21ff8457285ad19e3d06b2c434b379b399c.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/e3/3ed21ff8457285ad19e3d06b2c434b379b399c.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/smartrel objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/e3/3ed21ff8457285ad19e3d06b2c434b379b399c.debug debian/eigensoft/usr/bin/smartrel install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/c4 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/mergeit debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/c4/d473a28f241d5285d2bb5fe45a8fd5af137261.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/c4/d473a28f241d5285d2bb5fe45a8fd5af137261.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/mergeit objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/c4/d473a28f241d5285d2bb5fe45a8fd5af137261.debug debian/eigensoft/usr/bin/mergeit install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/49 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/pcatoy debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/49/3577af5efe2be0b29e36235f5dad76aa676531.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/49/3577af5efe2be0b29e36235f5dad76aa676531.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/pcatoy objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/49/3577af5efe2be0b29e36235f5dad76aa676531.debug debian/eigensoft/usr/bin/pcatoy install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/a4 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/eigenstratQTL debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/a4/f023a213fe82fa5a0565db4cdc394cd635fb41.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/a4/f023a213fe82fa5a0565db4cdc394cd635fb41.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/eigenstratQTL objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/a4/f023a213fe82fa5a0565db4cdc394cd635fb41.debug debian/eigensoft/usr/bin/eigenstratQTL install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/42 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/baseprog debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/42/d9df54bb85a5867ac94ad2a8f9991f6bbe1b34.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/42/d9df54bb85a5867ac94ad2a8f9991f6bbe1b34.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/baseprog objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/42/d9df54bb85a5867ac94ad2a8f9991f6bbe1b34.debug debian/eigensoft/usr/bin/baseprog install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/33 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/pca debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/33/f2eca98b6ce9e656bff77c13c7728a531a3877.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/33/f2eca98b6ce9e656bff77c13c7728a531a3877.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/pca objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/33/f2eca98b6ce9e656bff77c13c7728a531a3877.debug debian/eigensoft/usr/bin/pca install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/47 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/convertf debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/47/b4dd9ee15810d796c6ad47e09bc1828f3eafe6.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/47/b4dd9ee15810d796c6ad47e09bc1828f3eafe6.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/convertf objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/47/b4dd9ee15810d796c6ad47e09bc1828f3eafe6.debug debian/eigensoft/usr/bin/convertf install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/fa objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/bin/eigenstrat debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/fa/7d31e8651299844d5002d608cec81c088ea20b.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/fa/7d31e8651299844d5002d608cec81c088ea20b.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/bin/eigenstrat objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/fa/7d31e8651299844d5002d608cec81c088ea20b.debug debian/eigensoft/usr/bin/eigenstrat install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/96 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/lib/eigensoft/smartpca debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/96/c7ce51c2219f1fd815645d3022f0ffb0acce97.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/96/c7ce51c2219f1fd815645d3022f0ffb0acce97.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/lib/eigensoft/smartpca objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/96/c7ce51c2219f1fd815645d3022f0ffb0acce97.debug debian/eigensoft/usr/lib/eigensoft/smartpca install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/98 objcopy --only-keep-debug --compress-debug-sections debian/eigensoft/usr/lib/eigensoft/smarteigenstrat debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/98/932726544221ea30863d7e876c4ac2c704dcc2.debug chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/98/932726544221ea30863d7e876c4ac2c704dcc2.debug strip --remove-section=.comment --remove-section=.note debian/eigensoft/usr/lib/eigensoft/smarteigenstrat objcopy --add-gnu-debuglink debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.build-id/98/932726544221ea30863d7e876c4ac2c704dcc2.debug debian/eigensoft/usr/lib/eigensoft/smarteigenstrat install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.dwz cp --reflink=auto -a debian/eigensoft/usr/lib/debug/.dwz/arm-linux-gnueabihf debian/.debhelper/eigensoft/dbgsym-root/usr/lib/debug/.dwz rm -fr debian/eigensoft/usr/lib/debug/.dwz rmdir -p --ignore-fail-on-non-empty debian/eigensoft/usr/lib/debug install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/usr/share/doc ln -s eigensoft debian/.debhelper/eigensoft/dbgsym-root/usr/share/doc/eigensoft-dbgsym install -m0755 -d debian/.debhelper/eigensoft dh_makeshlibs -a rm -f debian/eigensoft/DEBIAN/shlibs dh_shlibdeps -a install -m0755 -d debian/eigensoft/DEBIAN dpkg-shlibdeps -Tdebian/eigensoft.substvars debian/eigensoft/usr/bin/twstats debian/eigensoft/usr/bin/smartrel debian/eigensoft/usr/bin/mergeit debian/eigensoft/usr/bin/pcatoy debian/eigensoft/usr/bin/eigenstratQTL debian/eigensoft/usr/bin/baseprog debian/eigensoft/usr/bin/pca debian/eigensoft/usr/bin/convertf debian/eigensoft/usr/bin/eigenstrat debian/eigensoft/usr/lib/eigensoft/smartpca debian/eigensoft/usr/lib/eigensoft/smarteigenstrat dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-armhf.so.3 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-armhf.so.3.usr-is-merged dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/eigensoft/usr/lib/eigensoft/smartpca was not linked against libblas.so.3 (it uses none of the library's symbols) dh_installdeb install -m0755 -d debian/eigensoft/DEBIAN dh_gencontrol install -m0755 -d debian/eigensoft/DEBIAN echo misc:Depends= >> debian/eigensoft.substvars echo misc:Pre-Depends= >> debian/eigensoft.substvars install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/DEBIAN dpkg-gencontrol -peigensoft -ldebian/changelog -Tdebian/eigensoft.substvars -cdebian/control -Pdebian/.debhelper/eigensoft/dbgsym-root -UPre-Depends -URecommends -USuggests -UEnhances -UProvides -UEssential -UConflicts -DPriority=optional -UHomepage -UImportant -DAuto-Built-Package=debug-symbols -UProtected -UBuilt-Using -UStatic-Built-Using -DPackage=eigensoft-dbgsym "-DDepends=eigensoft (= \${binary:Version})" "-DDescription=debug symbols for eigensoft" "-DBuild-Ids=33f2eca98b6ce9e656bff77c13c7728a531a3877 3e209338d682944278e39a7bcb77d32ece86fcb3 42d9df54bb85a5867ac94ad2a8f9991f6bbe1b34 47b4dd9ee15810d796c6ad47e09bc1828f3eafe6 493577af5efe2be0b29e36235f5dad76aa676531 96c7ce51c2219f1fd815645d3022f0ffb0acce97 98932726544221ea30863d7e876c4ac2c704dcc2 a4f023a213fe82fa5a0565db4cdc394cd635fb41 c4d473a28f241d5285d2bb5fe45a8fd5af137261 e33ed21ff8457285ad19e3d06b2c434b379b399c fa7d31e8651299844d5002d608cec81c088ea20b" -DSection=debug -UMulti-Arch -UReplaces -UBreaks chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/DEBIAN/control dpkg-gencontrol -peigensoft -ldebian/changelog -Tdebian/eigensoft.substvars -cdebian/control -Pdebian/eigensoft chmod 0644 -- debian/eigensoft/DEBIAN/control dh_md5sums install -m0755 -d debian/eigensoft/DEBIAN cd debian/eigensoft >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/eigensoft/DEBIAN/md5sums install -m0755 -d debian/.debhelper/eigensoft/dbgsym-root/DEBIAN cd debian/.debhelper/eigensoft/dbgsym-root >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/.debhelper/eigensoft/dbgsym-root/DEBIAN/md5sums dh_builddeb dpkg-deb --root-owner-group --build debian/eigensoft .. dpkg-deb --root-owner-group --build debian/.debhelper/eigensoft/dbgsym-root .. dpkg-deb: building package 'eigensoft' in '../eigensoft_8.0.0+dfsg-2_armhf.deb'. dpkg-deb: building package 'eigensoft-dbgsym' in '../eigensoft-dbgsym_8.0.0+dfsg-2_armhf.deb'. dpkg-genbuildinfo --build=binary -O../eigensoft_8.0.0+dfsg-2_armhf.buildinfo dpkg-genchanges --build=binary -O../eigensoft_8.0.0+dfsg-2_armhf.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: 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/14352 and its subdirectories I: Current time: Thu Jun 20 07:30:34 -12 2024 I: pbuilder-time-stamp: 1718911834 Thu Jun 20 19:30:46 UTC 2024 I: 1st build successful. Starting 2nd build on remote node virt32a-armhf-rb.debian.net. Thu Jun 20 19:30:46 UTC 2024 I: Preparing to do remote build '2' on virt32a-armhf-rb.debian.net. Thu Jun 20 19:34:22 UTC 2024 I: Deleting $TMPDIR on virt32a-armhf-rb.debian.net. Thu Jun 20 19:34:24 UTC 2024 I: eigensoft_8.0.0+dfsg-2_armhf.changes: Format: 1.8 Date: Wed, 31 Jan 2024 19:16:19 +0100 Source: eigensoft Binary: eigensoft eigensoft-dbgsym Architecture: armhf Version: 8.0.0+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: eigensoft - reduction of population bias for genetic analyses Closes: 1045139 Changes: eigensoft (8.0.0+dfsg-2) unstable; urgency=medium . * Fix download filename in watch file * Standards-Version: 4.6.2 (routine-update) * Change interpreter PATH only in debian dir not in upstream source Closes: #1045139 Checksums-Sha1: 32baad0d34ffd2c2b01fc13cf305f2b6a4ea9155 3015384 eigensoft-dbgsym_8.0.0+dfsg-2_armhf.deb b02aa12ab07c105a308c07271e363bb10b636754 5423 eigensoft_8.0.0+dfsg-2_armhf.buildinfo 4a85484c45b128bc6853745aa3f6491d2d4b9b13 401400 eigensoft_8.0.0+dfsg-2_armhf.deb Checksums-Sha256: 62e7f05760576ed2587a7a66d6a9a6439e6ff921887b277a4777cbd219ee8789 3015384 eigensoft-dbgsym_8.0.0+dfsg-2_armhf.deb 156fc2bf68926b88670c0a72d9d9487181184eaf9531ba22cc127b15128fd906 5423 eigensoft_8.0.0+dfsg-2_armhf.buildinfo f44e1b0881fd90de71ab3e2a533136c9c1f421811dc0c190bd4ff7841289c173 401400 eigensoft_8.0.0+dfsg-2_armhf.deb Files: 08f5967445cb4be955c13e1b26de086d 3015384 debug optional eigensoft-dbgsym_8.0.0+dfsg-2_armhf.deb d89522fb28fb68c450f6d8cde6223663 5423 science optional eigensoft_8.0.0+dfsg-2_armhf.buildinfo cd37878d5a6355b1d8327f25c5f168c8 401400 science optional eigensoft_8.0.0+dfsg-2_armhf.deb Thu Jun 20 19:34:25 UTC 2024 I: diffoscope 271 will be used to compare the two builds: Running as unit: rb-diffoscope-armhf_27-6798.service Warning: program compiled against libxml 212 using older 209 # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/eigensoft_8.0.0+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/eigensoft_8.0.0+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/eigensoft_8.0.0+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/b1/eigensoft_8.0.0+dfsg-2_armhf.changes /srv/reproducible-results/rbuild-debian/r-b-build.sFLHnJgM/b2/eigensoft_8.0.0+dfsg-2_armhf.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.392s) 0.392s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.053s) 0.053s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 710ms CPU time consumed: 711ms Thu Jun 20 19:34:26 UTC 2024 I: diffoscope 271 found no differences in the changes files, and a .buildinfo file also exists. Thu Jun 20 19:34:26 UTC 2024 I: eigensoft from trixie built successfully and reproducibly on armhf. Thu Jun 20 19:34:27 UTC 2024 I: Submitting .buildinfo files to external archives: Thu Jun 20 19:34:27 UTC 2024 I: Submitting 8.0K b1/eigensoft_8.0.0+dfsg-2_armhf.buildinfo.asc Thu Jun 20 19:34:28 UTC 2024 I: Submitting 8.0K b2/eigensoft_8.0.0+dfsg-2_armhf.buildinfo.asc Thu Jun 20 19:34:30 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Thu Jun 20 19:34:30 UTC 2024 I: Done submitting .buildinfo files. Thu Jun 20 19:34:30 UTC 2024 I: Removing signed eigensoft_8.0.0+dfsg-2_armhf.buildinfo.asc files: removed './b1/eigensoft_8.0.0+dfsg-2_armhf.buildinfo.asc' removed './b2/eigensoft_8.0.0+dfsg-2_armhf.buildinfo.asc'