Mon Aug 16 05:48:36 UTC 2021 I: starting to build plink2/bullseye/i386 on jenkins on '2021-08-16 05:48' Mon Aug 16 05:48:36 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_11/14373/console.log Mon Aug 16 05:48:36 UTC 2021 I: Downloading source for bullseye/plink2=2.00~a3-210203+dfsg-1 --2021-08-16 05:48:36-- http://cdn-fastly.deb.debian.org/debian/pool/main/p/plink2/plink2_2.00~a3-210203+dfsg-1.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2153 (2.1K) Saving to: ‘plink2_2.00~a3-210203+dfsg-1.dsc’ 0K .. 100% 153M=0s 2021-08-16 05:48:36 (153 MB/s) - ‘plink2_2.00~a3-210203+dfsg-1.dsc’ saved [2153/2153] Mon Aug 16 05:48:36 UTC 2021 I: plink2_2.00~a3-210203+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: plink2 Binary: plink2 Architecture: any Version: 2.00~a3-210203+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Dylan Aïssi Homepage: https://www.cog-genomics.org/plink/2.0/ Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/plink2 Vcs-Git: https://salsa.debian.org/med-team/plink2.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), help2man, libatlas-base-dev, liblapack-dev, libzstd-dev (>= 1.4.4), zlib1g-dev, libsimde-dev, libdeflate-dev Package-List: plink2 deb science optional arch=any Checksums-Sha1: 286087551ce7352f271333eef3e9cf473dcbbad8 881948 plink2_2.00~a3-210203+dfsg.orig.tar.xz e755799424c0995f515391f00bd1626b5151e3fe 48044 plink2_2.00~a3-210203+dfsg-1.debian.tar.xz Checksums-Sha256: e1a00b20cbfdbbbb0ef21a411c72d73a4e7ef695a55da2e1f6295c01db98b322 881948 plink2_2.00~a3-210203+dfsg.orig.tar.xz f0f45154597b3da07bd14ffdad0fa41d2f430728759c991c406a5ff6284c4589 48044 plink2_2.00~a3-210203+dfsg-1.debian.tar.xz Files: 66fbcb9a62113383e2080843e794fbd8 881948 plink2_2.00~a3-210203+dfsg.orig.tar.xz 495dd1e357fbefc594bd2c115a52536d 48044 plink2_2.00~a3-210203+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJGBAEBCgAwFiEEmjwHvQbeL0FugTpdYS7xYT4FD1QFAmAb14oSHGRhaXNzaUBk ZWJpYW4ub3JnAAoJEGEu8WE+BQ9UPzEP/jDQSdlQIx5TKtIaLENUlAv7mIZujYq2 l/f5q5+FgRy7eoXf6xR7OTuLASKCXRTNRyskW0Gz+7h+dH/DQDOHO3wU+PfxGPbu WR2MKX3XJ7gzqNWIXUOQP1uc0kgTBtx9jkkcd5EciIg18pnRT72Bwg6vjkeW06HT cx1E5x4fAVYEoc+UPgZtV86K0qyZy60rnNHlHXrSBzVhFFznPwNdfCItq8B5xZkb DEN3Vv7Hd4vwK8ZKsVXCpj+kvVNsXQj3CMTCdHXiaNpL+8Moi+ScQrjrI6BQOa1L EzuWIIYiZUh94Edwsub548kaH9BwHTpxRdpgBdK+AJtYxEuOgaaMo1UHNlFb7Xye 7IyO9A/lgEslWbhuvCo6S8mbAVTWl9vZmQ/rFd5V9khEiVlnEp8x2D35t9Dc553v GOdSB9HYCvmsYtXGTcge8NnY0d/sbBtn8cYaJ868vJUW2ixEOV9Tb560DyBBPKLP 9xGLbB9RAmoOvSLPz93kyb/RntYAXaL0XyYxOWFyoIgYzl16CvNK6o83fp5kpTq+ bVhYHmk7FXg2eVC0+cCtL4jzBdeuwDfkWt9ObcSjLWKHQQI+qSbUVy4j2vVXHhGC cl764GyD2IxnuItqc+iamP7Id+kxDTN2xkA6/34hhWChvKFINzGamRVhWe0jyh29 Ssceni1agERR =xgYs -----END PGP SIGNATURE----- Mon Aug 16 05:48:36 UTC 2021 I: Checking whether the package is not for us Mon Aug 16 05:48:36 UTC 2021 I: Starting 1st build on remote node ionos2-i386.debian.net. Mon Aug 16 05:48:36 UTC 2021 I: Preparing to do remote build '1' on ionos2-i386.debian.net. Mon Aug 16 06:17:02 UTC 2021 I: Deleting $TMPDIR on ionos2-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Aug 15 17:48:40 -12 2021 I: pbuilder-time-stamp: 1629092920 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration 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: using eatmydata during job I: Copying source file I: copying [plink2_2.00~a3-210203+dfsg-1.dsc] I: copying [./plink2_2.00~a3-210203+dfsg.orig.tar.xz] I: copying [./plink2_2.00~a3-210203+dfsg-1.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.oeync66Q/trustedkeys.kbx': General error gpgv: Signature made Wed Feb 3 23:16:26 2021 -12 gpgv: using RSA key 9A3C07BD06DE2F416E813A5D612EF1613E050F54 gpgv: issuer "daissi@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./plink2_2.00~a3-210203+dfsg-1.dsc dpkg-source: info: extracting plink2 in plink2-2.00~a3-210203+dfsg dpkg-source: info: unpacking plink2_2.00~a3-210203+dfsg.orig.tar.xz dpkg-source: info: unpacking plink2_2.00~a3-210203+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying Fix_Makefile.patch dpkg-source: info: applying use_packaged_libdeflate.patch dpkg-source: info: applying baseline I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3987/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=8' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='16e93478445b4ec6b980df14889a2c1e' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' 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='3987' 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/tmp.cEoNVIZYK6/pbuilderrc_MVu9 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/b1 --logfile b1/build.log plink2_2.00~a3-210203+dfsg-1.dsc' SUDO_GID='112' SUDO_UID='107' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://78.137.99.97:3128' I: uname -a Linux ionos2-i386 4.19.0-17-686-pae #1 SMP Debian 4.19.194-3 (2021-07-18) i686 GNU/Linux I: ls -l /bin total 5776 -rwxr-xr-x 1 root root 1367848 Aug 4 08:25 bash -rwxr-xr-x 3 root root 38280 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38280 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 17768 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 38824 Sep 22 2020 cat -rwxr-xr-x 1 root root 71624 Sep 22 2020 chgrp -rwxr-xr-x 1 root root 67528 Sep 22 2020 chmod -rwxr-xr-x 1 root root 75752 Sep 22 2020 chown -rwxr-xr-x 1 root root 157960 Sep 22 2020 cp -rwxr-xr-x 1 root root 128724 Dec 10 2020 dash -rwxr-xr-x 1 root root 124904 Sep 22 2020 date -rwxr-xr-x 1 root root 92172 Sep 22 2020 dd -rwxr-xr-x 1 root root 100752 Sep 22 2020 df -rwxr-xr-x 1 root root 153964 Sep 22 2020 dir -rwxr-xr-x 1 root root 83644 Jul 28 07:09 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 34664 Sep 22 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 34664 Sep 22 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 71928 Jul 28 07:09 findmnt -rwsr-xr-x 1 root root 30112 Feb 26 04:12 fusermount -rwxr-xr-x 1 root root 210488 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 11:30 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 11:30 gzexe -rwxr-xr-x 1 root root 100952 Mar 2 11:30 gzip -rwxr-xr-x 1 root root 21916 Nov 6 2019 hostname -rwxr-xr-x 1 root root 83980 Sep 22 2020 ln -rwxr-xr-x 1 root root 55572 Feb 7 2020 login -rwxr-xr-x 1 root root 153964 Sep 22 2020 ls -rwxr-xr-x 1 root root 153124 Jul 28 07:09 lsblk -rwxr-xr-x 1 root root 96328 Sep 22 2020 mkdir -rwxr-xr-x 1 root root 79912 Sep 22 2020 mknod -rwxr-xr-x 1 root root 47048 Sep 22 2020 mktemp -rwxr-xr-x 1 root root 58920 Jul 28 07:09 more -rwsr-xr-x 1 root root 50720 Jul 28 07:09 mount -rwxr-xr-x 1 root root 13856 Jul 28 07:09 mountpoint -rwxr-xr-x 1 root root 157996 Sep 22 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 03:38 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38824 Sep 22 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 08:25 rbash -> bash -rwxr-xr-x 1 root root 46984 Sep 22 2020 readlink -rwxr-xr-x 1 root root 75720 Sep 22 2020 rm -rwxr-xr-x 1 root root 46984 Sep 22 2020 rmdir -rwxr-xr-x 1 root root 22292 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Aug 13 21:40 sh -> dash -rwxr-xr-x 1 root root 34696 Sep 22 2020 sleep -rwxr-xr-x 1 root root 83880 Sep 22 2020 stty -rwsr-xr-x 1 root root 79396 Jul 28 07:09 su -rwxr-xr-x 1 root root 34696 Sep 22 2020 sync -rwxr-xr-x 1 root root 602584 Feb 16 21:55 tar -rwxr-xr-x 1 root root 13860 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 108520 Sep 22 2020 touch -rwxr-xr-x 1 root root 34664 Sep 22 2020 true -rwxr-xr-x 1 root root 17768 Feb 26 04:12 ulockmgr_server -rwsr-xr-x 1 root root 30236 Jul 28 07:09 umount -rwxr-xr-x 1 root root 34664 Sep 22 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 11:30 uncompress -rwxr-xr-x 1 root root 153964 Sep 22 2020 vdir -rwxr-xr-x 1 root root 63024 Jul 28 07:09 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 11:30 zcat -rwxr-xr-x 1 root root 1678 Mar 2 11:30 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 11:30 zdiff -rwxr-xr-x 1 root root 29 Mar 2 11:30 zegrep -rwxr-xr-x 1 root root 29 Mar 2 11:30 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 11:30 zforce -rwxr-xr-x 1 root root 7585 Mar 2 11:30 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 11:30 zless -rwxr-xr-x 1 root root 1842 Mar 2 11:30 zmore -rwxr-xr-x 1 root root 4553 Mar 2 11:30 znew I: user script /srv/workspace/pbuilder/3987/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: i386 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), help2man, libatlas-base-dev, liblapack-dev, libzstd-dev (>= 1.4.4), zlib1g-dev, libsimde-dev, libdeflate-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 ... 19675 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 help2man; however: Package help2man is not installed. pbuilder-satisfydepends-dummy depends on libatlas-base-dev; however: Package libatlas-base-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapack-dev; however: Package liblapack-dev is not installed. pbuilder-satisfydepends-dummy depends on libzstd-dev (>= 1.4.4); however: Package libzstd-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on libsimde-dev; however: Package libsimde-dev is not installed. pbuilder-satisfydepends-dummy depends on libdeflate-dev; however: Package libdeflate-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} groff-base{a} help2man{a} intltool-debian{a} libarchive-zip-perl{a} libatlas-base-dev{a} libatlas3-base{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libelf1{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libicu67{a} liblapack-dev{a} liblapack3{a} liblocale-gettext-perl{a} libmagic-mgc{a} libmagic1{a} libpipeline1{a} libsigsegv2{a} libsimde-dev{a} libsub-override-perl{a} libtool{a} libuchardet0{a} libxml2{a} libzstd-dev{a} m4{a} man-db{a} po-debconf{a} sensible-utils{a} zlib1g-dev{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, 43 newly installed, 0 to remove and 0 not upgraded. Need to get 31.9 MB of archives. After unpacking 139 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main i386 bsdextrautils i386 2.36.1-8 [149 kB] Get: 2 http://deb.debian.org/debian bullseye/main i386 libuchardet0 i386 0.0.7-1 [67.9 kB] Get: 3 http://deb.debian.org/debian bullseye/main i386 groff-base i386 1.22.4-6 [952 kB] Get: 4 http://deb.debian.org/debian bullseye/main i386 libpipeline1 i386 1.5.3-1 [36.8 kB] Get: 5 http://deb.debian.org/debian bullseye/main i386 man-db i386 2.9.4-2 [1367 kB] Get: 6 http://deb.debian.org/debian bullseye/main i386 liblocale-gettext-perl i386 1.07-4+b1 [19.4 kB] Get: 7 http://deb.debian.org/debian bullseye/main i386 sensible-utils all 0.0.14 [14.8 kB] Get: 8 http://deb.debian.org/debian bullseye/main i386 libmagic-mgc i386 1:5.39-3 [273 kB] Get: 9 http://deb.debian.org/debian bullseye/main i386 libmagic1 i386 1:5.39-3 [133 kB] Get: 10 http://deb.debian.org/debian bullseye/main i386 file i386 1:5.39-3 [69.0 kB] Get: 11 http://deb.debian.org/debian bullseye/main i386 gettext-base i386 0.21-4 [176 kB] Get: 12 http://deb.debian.org/debian bullseye/main i386 libsigsegv2 i386 2.13-1 [35.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main i386 m4 i386 1.4.18-5 [206 kB] Get: 14 http://deb.debian.org/debian bullseye/main i386 autoconf all 2.69-14 [313 kB] Get: 15 http://deb.debian.org/debian bullseye/main i386 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 16 http://deb.debian.org/debian bullseye/main i386 automake all 1:1.16.3-2 [814 kB] Get: 17 http://deb.debian.org/debian bullseye/main i386 autopoint all 0.21-4 [510 kB] Get: 18 http://deb.debian.org/debian bullseye/main i386 libdebhelper-perl all 13.3.4 [189 kB] Get: 19 http://deb.debian.org/debian bullseye/main i386 libtool all 2.4.6-15 [513 kB] Get: 20 http://deb.debian.org/debian bullseye/main i386 dh-autoreconf all 20 [17.1 kB] Get: 21 http://deb.debian.org/debian bullseye/main i386 libarchive-zip-perl all 1.68-1 [104 kB] Get: 22 http://deb.debian.org/debian bullseye/main i386 libsub-override-perl all 0.09-2 [10.2 kB] Get: 23 http://deb.debian.org/debian bullseye/main i386 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 24 http://deb.debian.org/debian bullseye/main i386 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 25 http://deb.debian.org/debian bullseye/main i386 libelf1 i386 0.183-1 [171 kB] Get: 26 http://deb.debian.org/debian bullseye/main i386 dwz i386 0.13+20210201-1 [179 kB] Get: 27 http://deb.debian.org/debian bullseye/main i386 libicu67 i386 67.1-7 [8775 kB] Get: 28 http://deb.debian.org/debian bullseye/main i386 libxml2 i386 2.9.10+dfsg-6.7 [728 kB] Get: 29 http://deb.debian.org/debian bullseye/main i386 gettext i386 0.21-4 [1322 kB] Get: 30 http://deb.debian.org/debian bullseye/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 31 http://deb.debian.org/debian bullseye/main i386 po-debconf all 1.0.21+nmu1 [248 kB] Get: 32 http://deb.debian.org/debian bullseye/main i386 debhelper all 13.3.4 [1049 kB] Get: 33 http://deb.debian.org/debian bullseye/main i386 help2man i386 1.48.1 [190 kB] Get: 34 http://deb.debian.org/debian bullseye/main i386 libgfortran5 i386 10.2.1-6 [643 kB] Get: 35 http://deb.debian.org/debian bullseye/main i386 libatlas3-base i386 3.10.3-10 [2811 kB] Get: 36 http://deb.debian.org/debian bullseye/main i386 libatlas-base-dev i386 3.10.3-10 [2986 kB] Get: 37 http://deb.debian.org/debian bullseye/main i386 libdeflate0 i386 1.7-1 [48.4 kB] Get: 38 http://deb.debian.org/debian bullseye/main i386 libdeflate-dev i386 1.7-1 [44.4 kB] Get: 39 http://deb.debian.org/debian bullseye/main i386 liblapack3 i386 3.9.0-3 [1960 kB] Get: 40 http://deb.debian.org/debian bullseye/main i386 liblapack-dev i386 3.9.0-3 [3759 kB] Get: 41 http://deb.debian.org/debian bullseye/main i386 libsimde-dev all 0.7.2-4 [259 kB] Get: 42 http://deb.debian.org/debian bullseye/main i386 libzstd-dev i386 1.4.8+dfsg-2.1 [374 kB] Get: 43 http://deb.debian.org/debian bullseye/main i386 zlib1g-dev i386 1:1.2.11.dfsg-2 [194 kB] Fetched 31.9 MB in 5s (6315 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (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 ... 19675 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_i386.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../01-libuchardet0_0.0.7-1_i386.deb ... Unpacking libuchardet0:i386 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_i386.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:i386. Preparing to unpack .../03-libpipeline1_1.5.3-1_i386.deb ... Unpacking libpipeline1:i386 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_i386.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package liblocale-gettext-perl. Preparing to unpack .../05-liblocale-gettext-perl_1.07-4+b1_i386.deb ... Unpacking liblocale-gettext-perl (1.07-4+b1) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../06-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../07-libmagic-mgc_1%3a5.39-3_i386.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:i386. Preparing to unpack .../08-libmagic1_1%3a5.39-3_i386.deb ... Unpacking libmagic1:i386 (1:5.39-3) ... 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Setting up libatlas3-base:i386 (3.10.3-10) ... update-alternatives: using /usr/lib/i386-linux-gnu/atlas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/atlas/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libtool (2.4.6-15) ... Setting up m4 (1.4.18-5) ... Setting up libatlas-base-dev:i386 (3.10.3-10) ... update-alternatives: using /usr/lib/i386-linux-gnu/atlas/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode update-alternatives: using /usr/lib/i386-linux-gnu/atlas/liblapack.so to provide /usr/lib/i386-linux-gnu/liblapack.so (liblapack.so-i386-linux-gnu) in auto mode Setting up intltool-debian (0.35.0+20060710.5) ... Setting up help2man (1.48.1) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up liblapack3:i386 (3.9.0-3) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up liblapack-dev:i386 (3.9.0-3) ... Setting up debhelper (13.3.4) ... Processing triggers for libc-bin (2.31-13) ... 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: Running cd /build/plink2-2.00~a3-210203+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package plink2 dpkg-buildpackage: info: source version 2.00~a3-210203+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dylan Aïssi dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 debian/rules clean dh clean --sourcedirectory=build_dynamic/ debian/rules override_dh_auto_clean make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' dh_auto_clean cd build_dynamic && make -j8 clean make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' rm -f *.o rm -f plink2 rm -f pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' rm -f plink2.1 rm -f pgen_compress.1 make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_autoreconf_clean -O--sourcedirectory=build_dynamic/ dh_clean -O--sourcedirectory=build_dynamic/ debian/rules binary dh binary --sourcedirectory=build_dynamic/ dh_update_autotools_config -O--sourcedirectory=build_dynamic/ dh_autoreconf -O--sourcedirectory=build_dynamic/ dh_auto_configure -O--sourcedirectory=build_dynamic/ debian/rules override_dh_auto_build-arch make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' mkdir -p /build/plink2-2.00~a3-210203+dfsg/debian/plink2/usr mkdir -p /build/plink2-2.00~a3-210203+dfsg/debian/plink2/usr/lib/plink2 for SIMD in ssse3 sse3 sse2 sse mmx; do \ export CXXFLAGS="-g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -m${SIMD}" && export CFLAGS="-g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -m${SIMD}" && \ make clean ; \ dh_auto_build -- SFX=-${SIMD} ; \ done make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-ssse3 make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mssse3 -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mssse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-ssse3 echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mssse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-ssse3 -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-sse3 make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse3 -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse3 echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse3 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-sse3 -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-sse2 make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse2 -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse2 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse2 echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse2 -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-sse2 -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-sse make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-sse echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -msse -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-sse -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' rm -f *.o include/*.o zstd/lib/common/*.o zstd/lib/compress/*.o zstd/lib/decompress/*.o bin/plink2 bin/pgen_compress make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-mmx make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mmmx -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mmmx -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-mmx echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -mmmx -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-mmx -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' dh_auto_build -- SFX=-plain cd build_dynamic && make -j8 "INSTALL=install --strip-program=true" SFX=-plain make[2]: Entering directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' cc -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security ../include/SFMT.c -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde -Wl,-z,relro -Wl,-z,now -ldeflate ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../pgen_compress.cc -o pgen_compress-plain echo cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c cc -O2 -std=gnu99 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -I../zstd/lib -I../zstd/lib/common -c g++ -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -fdebug-prefix-map=/build/plink2-2.00~a3-210203+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -DSIMDE_ENABLE_OPENMP -fopenmp-simd -O3 -I/usr/include/simde -std=c++11 -O2 -DZSTD_MULTITHREAD -Wall -Wextra -Wshadow -Wformat-security -Wold-style-cast -I../simde ../include/plink2_base.cc ../include/plink2_bits.cc ../include/pgenlib_misc.cc ../include/pgenlib_read.cc ../include/pgenlib_write.cc ../include/plink2_bgzf.cc ../include/plink2_stats.cc ../include/plink2_string.cc ../include/plink2_text.cc ../include/plink2_thread.cc ../include/plink2_zstfile.cc ../plink2.cc ../plink2_adjust.cc ../plink2_cmdline.cc ../plink2_common.cc ../plink2_compress_stream.cc ../plink2_data.cc ../plink2_decompress.cc ../plink2_export.cc ../plink2_fasta.cc ../plink2_filter.cc ../plink2_glm.cc ../plink2_help.cc ../plink2_import.cc ../plink2_ld.cc ../plink2_matrix.cc ../plink2_matrix_calc.cc ../plink2_merge.cc ../plink2_misc.cc ../plink2_psam.cc ../plink2_pvar.cc ../plink2_random.cc ../plink2_set.cc -c ../plink2_psam.cc: In function 'plink2::PglErr plink2::LoadPhenos(const char*, const RangeList*, const uintptr_t*, const SampleIdInfo*, uint32_t, uint32_t, int32_t, uint32_t, uint32_t, uint32_t, uint32_t, plink2::PhenoCol**, char**, uint32_t*, uintptr_t*)': ../plink2_psam.cc:1254:105: warning: '*' in boolean context, suggest '&&' instead [-Wint-in-bool-context] 1254 | if (unlikely(S_CAST(uintptr_t, tmp_bigstack_end - bigstack_base_copy) < pheno_info_alloc_byte_ct) * (xid_idx_end - xid_idx_start)) { g++ -Wdate-time -D_FORTIFY_SOURCE=2 ../plink2_cpu.cc -c g++ SFMT.o plink2_base.o plink2_bits.o pgenlib_misc.o pgenlib_read.o pgenlib_write.o plink2_bgzf.o plink2_stats.o plink2_string.o plink2_text.o plink2_thread.o plink2_zstfile.o plink2.o plink2_adjust.o plink2_cmdline.o plink2_common.o plink2_compress_stream.o plink2_data.o plink2_decompress.o plink2_export.o plink2_fasta.o plink2_filter.o plink2_glm.o plink2_help.o plink2_import.o plink2_ld.o plink2_matrix.o plink2_matrix_calc.o plink2_merge.o plink2_misc.o plink2_psam.o plink2_pvar.o plink2_random.o plink2_set.o plink2_cpu.o -o plink2-plain -llapack -lblas -lcblas -latlas -lm -lpthread -lz -lzstd -Wl,-z,relro -Wl,-z,now -ldeflate make[2]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg/build_dynamic' help2man --no-discard-stderr --name="whole genome SNP analysis" build_dynamic//pgen_compress-plain > pgen_compress.1 make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_auto_test -O--sourcedirectory=build_dynamic/ create-stamp debian/debhelper-build-stamp dh_testroot -O--sourcedirectory=build_dynamic/ dh_prep -O--sourcedirectory=build_dynamic/ debian/rules override_dh_auto_install-arch make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' dh_install debian/bin/simd-dispatch /usr/lib/plink2/ for SIMD in ssse3 sse3 sse2 plain ; do \ dh_install build_dynamic/plink2-${SIMD} usr/lib/plink2/ ; \ dh_install build_dynamic/pgen_compress-${SIMD} usr/lib/plink2/ ; \ done mkdir -p /build/plink2-2.00~a3-210203+dfsg/debian/plink2/usr/bin cd /build/plink2-2.00~a3-210203+dfsg/debian/plink2/usr/bin \ && for prog in plink2 pgen_compress ; do \ ln -s ../lib/plink2/simd-dispatch ${prog} ; done make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_installdocs -O--sourcedirectory=build_dynamic/ debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' dh_installchangelogs debian/upstream.docs/upstream.changelog make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_installexamples -O--sourcedirectory=build_dynamic/ debian/rules override_dh_installman make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' dh_installman debian/plink2.1 dh_installman pgen_compress.1 make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_installsystemduser -O--sourcedirectory=build_dynamic/ dh_perl -O--sourcedirectory=build_dynamic/ dh_link -O--sourcedirectory=build_dynamic/ dh_strip_nondeterminism -O--sourcedirectory=build_dynamic/ dh_compress -O--sourcedirectory=build_dynamic/ dh_fixperms -O--sourcedirectory=build_dynamic/ dh_missing -O--sourcedirectory=build_dynamic/ dh_dwz -a -O--sourcedirectory=build_dynamic/ dh_strip -a -O--sourcedirectory=build_dynamic/ dh_makeshlibs -a -O--sourcedirectory=build_dynamic/ dh_shlibdeps -a -O--sourcedirectory=build_dynamic/ dh_installdeb -O--sourcedirectory=build_dynamic/ debian/rules override_dh_gencontrol make[1]: Entering directory '/build/plink2-2.00~a3-210203+dfsg' dh_gencontrol -- -Vsimde:Built-Using="simde (= 0.7.2-4), " make[1]: Leaving directory '/build/plink2-2.00~a3-210203+dfsg' dh_md5sums -O--sourcedirectory=build_dynamic/ dh_builddeb -O--sourcedirectory=build_dynamic/ dpkg-deb: building package 'plink2-dbgsym' in '../plink2-dbgsym_2.00~a3-210203+dfsg-1_i386.deb'. dpkg-deb: building package 'plink2' in '../plink2_2.00~a3-210203+dfsg-1_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../plink2_2.00~a3-210203+dfsg-1_i386.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) 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/3987 and its subdirectories I: Current time: Sun Aug 15 18:17:01 -12 2021 I: pbuilder-time-stamp: 1629094621 Mon Aug 16 06:17:02 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos16-i386.debian.net. Mon Aug 16 06:17:02 UTC 2021 I: Preparing to do remote build '2' on ionos16-i386.debian.net. Mon Aug 16 06:29:43 UTC 2021 I: Deleting $TMPDIR on ionos16-i386.debian.net. Mon Aug 16 06:29:43 UTC 2021 I: plink2_2.00~a3-210203+dfsg-1_i386.changes: Format: 1.8 Date: Thu, 04 Feb 2021 11:52:52 +0100 Source: plink2 Binary: plink2 plink2-dbgsym Architecture: i386 Version: 2.00~a3-210203+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Dylan Aïssi Description: plink2 - whole-genome association analysis toolset Changes: plink2 (2.00~a3-210203+dfsg-1) unstable; urgency=medium . * New upstream version * Remove obsolete field Name from debian/upstream/metadata (already present in machine-readable debian/copyright). Checksums-Sha1: 0e715756f19f2f04ef937e96b25588603a7c3d38 16875300 plink2-dbgsym_2.00~a3-210203+dfsg-1_i386.deb 625ba34c0df284d74c47eac4dac4a128bb7e0c71 5288 plink2_2.00~a3-210203+dfsg-1_i386.buildinfo 3c79e0df5b05fdf0526b87ace15c81b8bb866f55 1239464 plink2_2.00~a3-210203+dfsg-1_i386.deb Checksums-Sha256: 8787df74d1154790f30b1502338b69b8c1490298daa46d147d117cae67c38556 16875300 plink2-dbgsym_2.00~a3-210203+dfsg-1_i386.deb e01a4335afb3ee400a79d21c7538bfdaa50b121e836c700469c36c121f2543ee 5288 plink2_2.00~a3-210203+dfsg-1_i386.buildinfo 2277fac93b2b54da4d270d1c0aa9ffdf5d677a584c99a7c5f2974ff333dbcab8 1239464 plink2_2.00~a3-210203+dfsg-1_i386.deb Files: 4d672f8eef15c57fc8fd3b0b8f0cfcc9 16875300 debug optional plink2-dbgsym_2.00~a3-210203+dfsg-1_i386.deb f9c2690d95123c01cc2150b7a8389881 5288 science optional plink2_2.00~a3-210203+dfsg-1_i386.buildinfo 5ead282bb8c607c5d4d23a288a047805 1239464 science optional plink2_2.00~a3-210203+dfsg-1_i386.deb Mon Aug 16 06:29:44 UTC 2021 I: diffoscope 177 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/plink2_2.00~a3-210203+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/plink2_2.00~a3-210203+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/plink2_2.00~a3-210203+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/b1/plink2_2.00~a3-210203+dfsg-1_i386.changes /srv/reproducible-results/rbuild-debian/tmp.cEoNVIZYK6/b2/plink2_2.00~a3-210203+dfsg-1_i386.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: 0.637s) 0.637s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.210s) 0.210s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Mon Aug 16 06:29:46 UTC 2021 I: diffoscope 177 found no differences in the changes files, and a .buildinfo file also exists. Mon Aug 16 06:29:46 UTC 2021 I: plink2 from bullseye built successfully and reproducibly on i386. Mon Aug 16 06:29:47 UTC 2021 I: Submitting .buildinfo files to external archives: Mon Aug 16 06:29:47 UTC 2021 I: Submitting 8.0K b1/plink2_2.00~a3-210203+dfsg-1_i386.buildinfo.asc Mon Aug 16 06:29:48 UTC 2021 I: Submitting 8.0K b2/plink2_2.00~a3-210203+dfsg-1_i386.buildinfo.asc Mon Aug 16 06:29:49 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Aug 16 06:29:49 UTC 2021 I: Done submitting .buildinfo files. Mon Aug 16 06:29:49 UTC 2021 I: Removing signed plink2_2.00~a3-210203+dfsg-1_i386.buildinfo.asc files: removed './b1/plink2_2.00~a3-210203+dfsg-1_i386.buildinfo.asc' removed './b2/plink2_2.00~a3-210203+dfsg-1_i386.buildinfo.asc'