Sun Nov 15 01:09:43 UTC 2020 I: starting to build ghmm/buster/i386 on jenkins on '2020-11-15 01:09' Sun Nov 15 01:09:43 UTC 2020 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/i386_12/17169/console.log Sun Nov 15 01:09:43 UTC 2020 I: Downloading source for buster/ghmm=0.9~rc3-2 --2020-11-15 01:09:43-- http://deb.debian.org/debian/pool/main/g/ghmm/ghmm_0.9~rc3-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2083 (2.0K) Saving to: ‘ghmm_0.9~rc3-2.dsc’ 0K .. 100% 185M=0s 2020-11-15 01:09:43 (185 MB/s) - ‘ghmm_0.9~rc3-2.dsc’ saved [2083/2083] Sun Nov 15 01:09:43 UTC 2020 I: ghmm_0.9~rc3-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 3.0 (quilt) Source: ghmm Binary: ghmm, libghmm-dev, libghmm1 Architecture: any Version: 0.9~rc3-2 Maintainer: Debian Med Packaging Team Uploaders: Steffen Moeller Homepage: https://ghmm.org Standards-Version: 4.3.0 Vcs-Browser: https://salsa.debian.org/med-team/ghmm Vcs-Git: https://salsa.debian.org/med-team/ghmm.git Build-Depends: debhelper (>= 11~), d-shlibs, python-dev, pkg-config, libxml2-dev, libgsl-dev, liblapack-dev, zlib1g-dev, swig Package-List: ghmm deb science optional arch=any libghmm-dev deb libdevel optional arch=any libghmm1 deb libs optional arch=any Checksums-Sha1: c3f2be9c27010a6f82df6f136821673112ed41a5 770526 ghmm_0.9~rc3.orig.tar.gz 66d998f8f2005450b6fe19a137bb1a5072aac0b2 4092 ghmm_0.9~rc3-2.debian.tar.xz Checksums-Sha256: c42462ff4f87aadd5efe7bb6adb59657786ed71046ba924111bc28c7cbb588d0 770526 ghmm_0.9~rc3.orig.tar.gz 3020d8c0a3f2cd2f176d98efa8eb1e83177e68f92e3a949971a4e85c2717e697 4092 ghmm_0.9~rc3-2.debian.tar.xz Files: 4e2db5a83bbd5b2a7cc6476657c0c4d7 770526 ghmm_0.9~rc3.orig.tar.gz aa755dbcd3da74d5440b3815e7d58bd0 4092 ghmm_0.9~rc3-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCAAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAlzzzEMRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtH4nQ//XGdI8QwfVBm3izkMrGu1WWjlynJdnzNT 7iMTH8hjGeuTIrtF3hWKqvd4aMgaVCUSlv7kmG+atQi84r+7cNymyvsJ/XMw633P CJjaXL4GVPXv+Ky73uugxf8MXBhT+S3S2Ttlq0EIguPGUggvXxu6lrYFKF6KlQc1 ivyjRloFRvEpzg+Qxae2asLuNbP602ahlXyulktMII/1E3T8cCqld0K/7hUW+pfm 1r8eeG/VHuviR5cRfkaRX8NBGs/eF0dOjodum8EVgj0JPcJ7FC4f8+CQsvTuo9m0 Gz8d3cIMo4S+BDFyr4GRPxe8SaBvtDfCvJkIxH+BZxgLERBPCOrr8rxbRnEFgBBe q/LqLv6fqDnvtR9ZcVixWhg2f13O/vw4tg6QqU1Sh9BaKJ/yKgofnNmUiRKh8W/e sjRLt1LWGbdGoGrMdyzHAI/SSWp/sS7iO3VkcjqqErSa7Noqj35bXwLNOuwpbkE9 AD4gZRlVRSVxkFJMAZ+6B4o9Ayt7P/g92n4XCHPsbxpTzso3aziggYj/99diD36H fpyFfBuxj1Q+c6f3ZecHas8u6lNcHPbApJ+XqkCCdG+yzmfLUf03cFS80yqp4A6D mis/s6gIjr16nx5cWrdSivp3g8uKYS6cUsKsm4ZlhjH27nmp4oXEzF25LRu3ksm1 5h53FHOwCdc= =Fw4m -----END PGP SIGNATURE----- Sun Nov 15 01:09:43 UTC 2020 I: Checking whether the package is not for us Sun Nov 15 01:09:43 UTC 2020 I: Starting 1st build on remote node ionos16-i386.debian.net. Sun Nov 15 01:09:43 UTC 2020 I: Preparing to do remote build '1' on ionos16-i386.debian.net. Sun Nov 15 01:10:33 UTC 2020 I: Deleting $TMPDIR on ionos16-i386.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Dec 17 19:32:44 -12 2021 I: pbuilder-time-stamp: 1639812764 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/buster-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 [ghmm_0.9~rc3-2.dsc] I: copying [./ghmm_0.9~rc3.orig.tar.gz] I: copying [./ghmm_0.9~rc3-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/root/.gnupg/trustedkeys.kbx': General error gpgv: Signature made Sun Jun 2 01:16:51 2019 -12 gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1 gpgv: issuer "tille@debian.org" gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./ghmm_0.9~rc3-2.dsc dpkg-source: info: extracting ghmm in ghmm-0.9~rc3 dpkg-source: info: unpacking ghmm_0.9~rc3.orig.tar.gz dpkg-source: info: unpacking ghmm_0.9~rc3-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying buildError.patch dpkg-source: info: applying pythonpaths.patch dpkg-source: info: applying fix_libxml2_config.patch I: using fakeroot in build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/38057/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 parallel=18' DISTRIBUTION='' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='93c397115ad24c0cb77306bb406a3cf3' 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='38057' 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.dqQkeM6RwV/pbuilderrc_0V34 --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/buster-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/b1 --logfile b1/build.log ghmm_0.9~rc3-2.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://85.184.249.68:3128' I: uname -a Linux ionos16-i386 4.19.0-12-amd64 #1 SMP Debian 4.19.152-1 (2020-10-18) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1302248 Apr 17 2019 bash -rwxr-xr-x 3 root root 38280 Jul 10 2019 bunzip2 -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzcat lrwxrwxrwx 1 root root 6 Jul 10 2019 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2227 Jul 10 2019 bzdiff lrwxrwxrwx 1 root root 6 Jul 10 2019 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Jun 24 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 10 2019 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3641 Jul 10 2019 bzgrep -rwxr-xr-x 3 root root 38280 Jul 10 2019 bzip2 -rwxr-xr-x 1 root root 17768 Jul 10 2019 bzip2recover lrwxrwxrwx 1 root root 6 Jul 10 2019 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 10 2019 bzmore -rwxr-xr-x 1 root root 38692 Feb 28 2019 cat -rwxr-xr-x 1 root root 75588 Feb 28 2019 chgrp -rwxr-xr-x 1 root root 63268 Feb 28 2019 chmod -rwxr-xr-x 1 root root 75588 Feb 28 2019 chown -rwxr-xr-x 1 root root 153732 Feb 28 2019 cp -rwxr-xr-x 1 root root 132820 Jan 17 2019 dash -rwxr-xr-x 1 root root 120676 Feb 28 2019 date -rwxr-xr-x 1 root root 92040 Feb 28 2019 dd -rwxr-xr-x 1 root root 100620 Feb 28 2019 df -rwxr-xr-x 1 root root 149736 Feb 28 2019 dir -rwxr-xr-x 1 root root 79412 Jan 9 2019 dmesg lrwxrwxrwx 1 root root 8 Sep 26 2018 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Sep 26 2018 domainname -> hostname -rwxr-xr-x 1 root root 34532 Feb 28 2019 echo -rwxr-xr-x 1 root root 28 Jan 7 2019 egrep -rwxr-xr-x 1 root root 34532 Feb 28 2019 false -rwxr-xr-x 1 root root 28 Jan 7 2019 fgrep -rwxr-xr-x 1 root root 67700 Jan 9 2019 findmnt -rwsr-xr-x 1 root root 30112 Apr 22 2020 fusermount -rwxr-xr-x 1 root root 206392 Jan 7 2019 grep -rwxr-xr-x 2 root root 2345 Jan 5 2019 gunzip -rwxr-xr-x 1 root root 6375 Jan 5 2019 gzexe -rwxr-xr-x 1 root root 100952 Jan 5 2019 gzip -rwxr-xr-x 1 root root 21916 Sep 26 2018 hostname -rwxr-xr-x 1 root root 79752 Feb 28 2019 ln -rwxr-xr-x 1 root root 55400 Jul 26 2018 login -rwxr-xr-x 1 root root 149736 Feb 28 2019 ls -rwxr-xr-x 1 root root 112032 Jan 9 2019 lsblk -rwxr-xr-x 1 root root 87972 Feb 28 2019 mkdir -rwxr-xr-x 1 root root 79748 Feb 28 2019 mknod -rwxr-xr-x 1 root root 46916 Feb 28 2019 mktemp -rwxr-xr-x 1 root root 42348 Jan 9 2019 more -rwsr-xr-x 1 root root 50592 Jan 9 2019 mount -rwxr-xr-x 1 root root 13724 Jan 9 2019 mountpoint -rwxr-xr-x 1 root root 157832 Feb 28 2019 mv lrwxrwxrwx 1 root root 8 Sep 26 2018 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Feb 14 2019 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 38660 Feb 28 2019 pwd lrwxrwxrwx 1 root root 4 Apr 17 2019 rbash -> bash -rwxr-xr-x 1 root root 46852 Feb 28 2019 readlink -rwxr-xr-x 1 root root 75588 Feb 28 2019 rm -rwxr-xr-x 1 root root 42756 Feb 28 2019 rmdir -rwxr-xr-x 1 root root 22276 Jan 21 2019 run-parts -rwxr-xr-x 1 root root 125036 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Dec 10 02:46 sh -> dash -rwxr-xr-x 1 root root 34532 Feb 28 2019 sleep -rwxr-xr-x 1 root root 79652 Feb 28 2019 stty -rwsr-xr-x 1 root root 71072 Jan 9 2019 su -rwxr-xr-x 1 root root 34564 Feb 28 2019 sync -rwxr-xr-x 1 root root 504024 Apr 23 2019 tar -rwxr-xr-x 1 root root 13860 Jan 21 2019 tempfile -rwxr-xr-x 1 root root 104292 Feb 28 2019 touch -rwxr-xr-x 1 root root 34532 Feb 28 2019 true -rwxr-xr-x 1 root root 17768 Apr 22 2020 ulockmgr_server -rwsr-xr-x 1 root root 30108 Jan 9 2019 umount -rwxr-xr-x 1 root root 34532 Feb 28 2019 uname -rwxr-xr-x 2 root root 2345 Jan 5 2019 uncompress -rwxr-xr-x 1 root root 149736 Feb 28 2019 vdir -rwxr-xr-x 1 root root 34208 Jan 9 2019 wdctl -rwxr-xr-x 1 root root 946 Jan 21 2019 which lrwxrwxrwx 1 root root 8 Sep 26 2018 ypdomainname -> hostname -rwxr-xr-x 1 root root 1983 Jan 5 2019 zcat -rwxr-xr-x 1 root root 1677 Jan 5 2019 zcmp -rwxr-xr-x 1 root root 5879 Jan 5 2019 zdiff -rwxr-xr-x 1 root root 29 Jan 5 2019 zegrep -rwxr-xr-x 1 root root 29 Jan 5 2019 zfgrep -rwxr-xr-x 1 root root 2080 Jan 5 2019 zforce -rwxr-xr-x 1 root root 7584 Jan 5 2019 zgrep -rwxr-xr-x 1 root root 2205 Jan 5 2019 zless -rwxr-xr-x 1 root root 1841 Jan 5 2019 zmore -rwxr-xr-x 1 root root 4552 Jan 5 2019 znew I: user script /srv/workspace/pbuilder/38057/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 (>= 11~), d-shlibs, python-dev, pkg-config, libxml2-dev, libgsl-dev, liblapack-dev, zlib1g-dev, swig dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19234 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 (>= 11~); however: Package debhelper is not installed. pbuilder-satisfydepends-dummy depends on d-shlibs; however: Package d-shlibs is not installed. pbuilder-satisfydepends-dummy depends on python-dev; however: Package python-dev is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. pbuilder-satisfydepends-dummy depends on libxml2-dev; however: Package libxml2-dev is not installed. pbuilder-satisfydepends-dummy depends on libgsl-dev; however: Package libgsl-dev is not installed. pbuilder-satisfydepends-dummy depends on liblapack-dev; however: Package liblapack-dev is not installed. pbuilder-satisfydepends-dummy depends on zlib1g-dev; however: Package zlib1g-dev is not installed. pbuilder-satisfydepends-dummy depends on swig; however: Package swig 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} bsdmainutils{a} d-shlibs{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} groff-base{a} icu-devtools{a} intltool-debian{a} libarchive-zip-perl{a} libblas-dev{a} libblas3{a} libbsd0{a} libcroco3{a} libelf1{a} libexpat1{a} libexpat1-dev{a} libfile-stripnondeterminism-perl{a} libgfortran5{a} libglib2.0-0{a} libgsl-dev{a} libgsl23{a} libgslcblas0{a} libicu-dev{a} libicu63{a} liblapack-dev{a} liblapack3{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libpipeline1{a} libpython-dev{a} libpython-stdlib{a} libpython2-dev{a} libpython2-stdlib{a} libpython2.7{a} libpython2.7-dev{a} libpython2.7-minimal{a} libpython2.7-stdlib{a} libreadline7{a} libsigsegv2{a} libssl1.1{a} libtool{a} libuchardet0{a} libxml2{a} libxml2-dev{a} m4{a} man-db{a} mime-support{a} pkg-config{a} po-debconf{a} python{a} python-dev{a} python-minimal{a} python2{a} python2-dev{a} python2-minimal{a} python2.7{a} python2.7-dev{a} python2.7-minimal{a} readline-common{a} sensible-utils{a} swig{a} swig3.0{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: curl libarchive-cpio-perl libglib2.0-data libgpm2 libltdl-dev libmail-sendmail-perl lynx shared-mime-info wget xdg-user-dirs 0 packages upgraded, 72 newly installed, 0 to remove and 0 not upgraded. Need to get 77.7 MB of archives. After unpacking 228 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian buster/main i386 libbsd0 i386 0.9.1-2 [104 kB] Get: 2 http://deb.debian.org/debian buster/main i386 bsdmainutils i386 11.1.2+b1 [193 kB] Get: 3 http://deb.debian.org/debian buster/main i386 libuchardet0 i386 0.0.6-3 [65.2 kB] Get: 4 http://deb.debian.org/debian buster/main i386 groff-base i386 1.22.4-3 [935 kB] Get: 5 http://deb.debian.org/debian buster/main i386 libpipeline1 i386 1.5.1-2 [33.3 kB] Get: 6 http://deb.debian.org/debian buster/main i386 man-db i386 2.8.5-2 [1284 kB] Get: 7 http://deb.debian.org/debian buster/main i386 libpython2.7-minimal i386 2.7.16-2+deb10u1 [395 kB] Get: 8 http://deb.debian.org/debian buster/main i386 python2.7-minimal i386 2.7.16-2+deb10u1 [1381 kB] Get: 9 http://deb.debian.org/debian buster/main i386 python2-minimal i386 2.7.16-1 [41.4 kB] Get: 10 http://deb.debian.org/debian buster/main i386 python-minimal i386 2.7.16-1 [21.0 kB] Get: 11 http://deb.debian.org/debian buster/main i386 libssl1.1 i386 1.1.1d-0+deb10u3 [1537 kB] Get: 12 http://deb.debian.org/debian buster/main i386 mime-support all 3.62 [37.2 kB] Get: 13 http://deb.debian.org/debian buster/main i386 libexpat1 i386 2.2.6-2+deb10u1 [104 kB] Get: 14 http://deb.debian.org/debian buster/main i386 readline-common all 7.0-5 [70.6 kB] Get: 15 http://deb.debian.org/debian buster/main i386 libreadline7 i386 7.0-5 [156 kB] Get: 16 http://deb.debian.org/debian buster/main i386 libpython2.7-stdlib i386 2.7.16-2+deb10u1 [1934 kB] Get: 17 http://deb.debian.org/debian buster/main i386 python2.7 i386 2.7.16-2+deb10u1 [305 kB] Get: 18 http://deb.debian.org/debian buster/main i386 libpython2-stdlib i386 2.7.16-1 [20.8 kB] Get: 19 http://deb.debian.org/debian buster/main i386 libpython-stdlib i386 2.7.16-1 [20.8 kB] Get: 20 http://deb.debian.org/debian buster/main i386 python2 i386 2.7.16-1 [41.6 kB] Get: 21 http://deb.debian.org/debian buster/main i386 python i386 2.7.16-1 [22.8 kB] Get: 22 http://deb.debian.org/debian buster/main i386 sensible-utils all 0.0.12 [15.8 kB] Get: 23 http://deb.debian.org/debian buster/main i386 libmagic-mgc i386 1:5.35-4+deb10u1 [242 kB] Get: 24 http://deb.debian.org/debian buster/main i386 libmagic1 i386 1:5.35-4+deb10u1 [124 kB] Get: 25 http://deb.debian.org/debian buster/main i386 file i386 1:5.35-4+deb10u1 [66.3 kB] Get: 26 http://deb.debian.org/debian buster/main i386 gettext-base i386 0.19.8.1-9 [124 kB] Get: 27 http://deb.debian.org/debian buster/main i386 libsigsegv2 i386 2.12-2 [33.2 kB] Get: 28 http://deb.debian.org/debian buster/main i386 m4 i386 1.4.18-2 [205 kB] Get: 29 http://deb.debian.org/debian buster/main i386 autoconf all 2.69-11 [341 kB] Get: 30 http://deb.debian.org/debian buster/main i386 autotools-dev all 20180224.1 [77.0 kB] Get: 31 http://deb.debian.org/debian buster/main i386 automake all 1:1.16.1-4 [771 kB] Get: 32 http://deb.debian.org/debian buster/main i386 autopoint all 0.19.8.1-9 [434 kB] Get: 33 http://deb.debian.org/debian buster/main i386 d-shlibs all 0.84 [17.2 kB] Get: 34 http://deb.debian.org/debian buster/main i386 libtool all 2.4.6-9 [547 kB] Get: 35 http://deb.debian.org/debian buster/main i386 dh-autoreconf all 19 [16.9 kB] Get: 36 http://deb.debian.org/debian buster/main i386 libarchive-zip-perl all 1.64-1 [96.8 kB] Get: 37 http://deb.debian.org/debian buster/main i386 libfile-stripnondeterminism-perl all 1.1.2-1 [19.8 kB] Get: 38 http://deb.debian.org/debian buster/main i386 dh-strip-nondeterminism all 1.1.2-1 [13.0 kB] Get: 39 http://deb.debian.org/debian buster/main i386 libelf1 i386 0.176-1.1 [166 kB] Get: 40 http://deb.debian.org/debian buster/main i386 dwz i386 0.12-3 [81.4 kB] Get: 41 http://deb.debian.org/debian buster/main i386 libglib2.0-0 i386 2.58.3-2+deb10u2 [1334 kB] Get: 42 http://deb.debian.org/debian buster/main i386 libicu63 i386 63.1-6+deb10u1 [8451 kB] Get: 43 http://deb.debian.org/debian buster/main i386 libxml2 i386 2.9.4+dfsg1-7+b3 [721 kB] Get: 44 http://deb.debian.org/debian buster/main i386 libcroco3 i386 0.6.12-3 [151 kB] Get: 45 http://deb.debian.org/debian buster/main i386 libncurses6 i386 6.1+20181013-2+deb10u2 [109 kB] Get: 46 http://deb.debian.org/debian buster/main i386 gettext i386 0.19.8.1-9 [1314 kB] Get: 47 http://deb.debian.org/debian buster/main i386 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 48 http://deb.debian.org/debian buster/main i386 po-debconf all 1.0.21 [248 kB] Get: 49 http://deb.debian.org/debian buster/main i386 debhelper all 12.1.1 [1016 kB] Get: 50 http://deb.debian.org/debian buster/main i386 icu-devtools i386 63.1-6+deb10u1 [196 kB] Get: 51 http://deb.debian.org/debian buster/main i386 libgfortran5 i386 8.3.0-6 [549 kB] Get: 52 http://deb.debian.org/debian buster/main i386 libblas3 i386 3.8.0-2 [142 kB] Get: 53 http://deb.debian.org/debian buster/main i386 libblas-dev i386 3.8.0-2 [150 kB] Get: 54 http://deb.debian.org/debian buster/main i386 libexpat1-dev i386 2.2.6-2+deb10u1 [156 kB] Get: 55 http://deb.debian.org/debian buster/main i386 libgslcblas0 i386 2.5+dfsg-6 [99.2 kB] Get: 56 http://deb.debian.org/debian buster/main i386 libgsl23 i386 2.5+dfsg-6 [855 kB] Get: 57 http://deb.debian.org/debian buster/main i386 libgsl-dev i386 2.5+dfsg-6 [1076 kB] Get: 58 http://deb.debian.org/debian buster/main i386 libicu-dev i386 63.1-6+deb10u1 [9377 kB] Get: 59 http://deb.debian.org/debian buster/main i386 liblapack3 i386 3.8.0-2 [1974 kB] Get: 60 http://deb.debian.org/debian buster/main i386 liblapack-dev i386 3.8.0-2 [2035 kB] Get: 61 http://deb.debian.org/debian buster/main i386 libpython2.7 i386 2.7.16-2+deb10u1 [1059 kB] Get: 62 http://deb.debian.org/debian buster/main i386 libpython2.7-dev i386 2.7.16-2+deb10u1 [31.4 MB] Get: 63 http://deb.debian.org/debian buster/main i386 libpython2-dev i386 2.7.16-1 [20.9 kB] Get: 64 http://deb.debian.org/debian buster/main i386 libpython-dev i386 2.7.16-1 [20.9 kB] Get: 65 http://deb.debian.org/debian buster/main i386 libxml2-dev i386 2.9.4+dfsg1-7+b3 [843 kB] Get: 66 http://deb.debian.org/debian buster/main i386 pkg-config i386 0.29-6 [64.7 kB] Get: 67 http://deb.debian.org/debian buster/main i386 python2.7-dev i386 2.7.16-2+deb10u1 [295 kB] Get: 68 http://deb.debian.org/debian buster/main i386 python2-dev i386 2.7.16-1 [1208 B] Get: 69 http://deb.debian.org/debian buster/main i386 python-dev i386 2.7.16-1 [1184 B] Get: 70 http://deb.debian.org/debian buster/main i386 swig3.0 i386 3.0.12-2 [1456 kB] Get: 71 http://deb.debian.org/debian buster/main i386 swig i386 3.0.12-2 [310 kB] Get: 72 http://deb.debian.org/debian buster/main i386 zlib1g-dev i386 1:1.2.11.dfsg-1 [216 kB] Fetched 77.7 MB in 1s (82.3 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libbsd0:i386. (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 ... 19234 files and directories currently installed.) Preparing to unpack .../00-libbsd0_0.9.1-2_i386.deb ... Unpacking libbsd0:i386 (0.9.1-2) ... Selecting previously unselected package bsdmainutils. Preparing to unpack .../01-bsdmainutils_11.1.2+b1_i386.deb ... Unpacking bsdmainutils (11.1.2+b1) ... Selecting previously unselected package libuchardet0:i386. Preparing to unpack .../02-libuchardet0_0.0.6-3_i386.deb ... 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(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 ... 20699 files and directories currently installed.) Preparing to unpack .../python2_2.7.16-1_i386.deb ... Unpacking python2 (2.7.16-1) ... Setting up python-minimal (2.7.16-1) ... Selecting previously unselected package python. (Reading database ... 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Unpacking libicu63:i386 (63.1-6+deb10u1) ... Selecting previously unselected package libxml2:i386. Preparing to unpack .../22-libxml2_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package libcroco3:i386. Preparing to unpack .../23-libcroco3_0.6.12-3_i386.deb ... Unpacking libcroco3:i386 (0.6.12-3) ... Selecting previously unselected package libncurses6:i386. Preparing to unpack .../24-libncurses6_6.1+20181013-2+deb10u2_i386.deb ... Unpacking libncurses6:i386 (6.1+20181013-2+deb10u2) ... Selecting previously unselected package gettext. Preparing to unpack .../25-gettext_0.19.8.1-9_i386.deb ... Unpacking gettext (0.19.8.1-9) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../26-intltool-debian_0.35.0+20060710.5_all.deb ... Unpacking intltool-debian (0.35.0+20060710.5) ... Selecting previously unselected package po-debconf. Preparing to unpack .../27-po-debconf_1.0.21_all.deb ... 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Selecting previously unselected package libgslcblas0:i386. Preparing to unpack .../34-libgslcblas0_2.5+dfsg-6_i386.deb ... Unpacking libgslcblas0:i386 (2.5+dfsg-6) ... Selecting previously unselected package libgsl23:i386. Preparing to unpack .../35-libgsl23_2.5+dfsg-6_i386.deb ... Unpacking libgsl23:i386 (2.5+dfsg-6) ... Selecting previously unselected package libgsl-dev. Preparing to unpack .../36-libgsl-dev_2.5+dfsg-6_i386.deb ... Unpacking libgsl-dev (2.5+dfsg-6) ... Selecting previously unselected package libicu-dev:i386. Preparing to unpack .../37-libicu-dev_63.1-6+deb10u1_i386.deb ... Unpacking libicu-dev:i386 (63.1-6+deb10u1) ... Selecting previously unselected package liblapack3:i386. Preparing to unpack .../38-liblapack3_3.8.0-2_i386.deb ... Unpacking liblapack3:i386 (3.8.0-2) ... Selecting previously unselected package liblapack-dev:i386. Preparing to unpack .../39-liblapack-dev_3.8.0-2_i386.deb ... Unpacking liblapack-dev:i386 (3.8.0-2) ... Selecting previously unselected package libpython2.7:i386. Preparing to unpack .../40-libpython2.7_2.7.16-2+deb10u1_i386.deb ... Unpacking libpython2.7:i386 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2.7-dev:i386. Preparing to unpack .../41-libpython2.7-dev_2.7.16-2+deb10u1_i386.deb ... Unpacking libpython2.7-dev:i386 (2.7.16-2+deb10u1) ... Selecting previously unselected package libpython2-dev:i386. Preparing to unpack .../42-libpython2-dev_2.7.16-1_i386.deb ... Unpacking libpython2-dev:i386 (2.7.16-1) ... Selecting previously unselected package libpython-dev:i386. Preparing to unpack .../43-libpython-dev_2.7.16-1_i386.deb ... Unpacking libpython-dev:i386 (2.7.16-1) ... Selecting previously unselected package libxml2-dev:i386. Preparing to unpack .../44-libxml2-dev_2.9.4+dfsg1-7+b3_i386.deb ... Unpacking libxml2-dev:i386 (2.9.4+dfsg1-7+b3) ... Selecting previously unselected package pkg-config. Preparing to unpack .../45-pkg-config_0.29-6_i386.deb ... Unpacking pkg-config (0.29-6) ... Selecting previously unselected package python2.7-dev. Preparing to unpack .../46-python2.7-dev_2.7.16-2+deb10u1_i386.deb ... Unpacking python2.7-dev (2.7.16-2+deb10u1) ... Selecting previously unselected package python2-dev. Preparing to unpack .../47-python2-dev_2.7.16-1_i386.deb ... Unpacking python2-dev (2.7.16-1) ... Selecting previously unselected package python-dev. Preparing to unpack .../48-python-dev_2.7.16-1_i386.deb ... Unpacking python-dev (2.7.16-1) ... Selecting previously unselected package swig3.0. Preparing to unpack .../49-swig3.0_3.0.12-2_i386.deb ... Unpacking swig3.0 (3.0.12-2) ... Selecting previously unselected package swig. Preparing to unpack .../50-swig_3.0.12-2_i386.deb ... Unpacking swig (3.0.12-2) ... Selecting previously unselected package zlib1g-dev:i386. Preparing to unpack .../51-zlib1g-dev_1%3a1.2.11.dfsg-1_i386.deb ... Unpacking zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up libexpat1:i386 (2.2.6-2+deb10u1) ... Setting up libpipeline1:i386 (1.5.1-2) ... Setting up mime-support (3.62) ... Setting up libgslcblas0:i386 (2.5+dfsg-6) ... Setting up libmagic-mgc (1:5.35-4+deb10u1) ... Setting up libarchive-zip-perl (1.64-1) ... Setting up libglib2.0-0:i386 (2.58.3-2+deb10u2) ... No schema files found: doing nothing. Setting up libssl1.1:i386 (1.1.1d-0+deb10u3) ... Setting up libmagic1:i386 (1:5.35-4+deb10u1) ... Setting up gettext-base (0.19.8.1-9) ... Setting up file (1:5.35-4+deb10u1) ... Setting up libicu63:i386 (63.1-6+deb10u1) ... Setting up autotools-dev (20180224.1) ... Setting up libexpat1-dev:i386 (2.2.6-2+deb10u1) ... Setting up swig3.0 (3.0.12-2) ... Setting up libgsl23:i386 (2.5+dfsg-6) ... Setting up libncurses6:i386 (6.1+20181013-2+deb10u2) ... Setting up libsigsegv2:i386 (2.12-2) ... Setting up autopoint (0.19.8.1-9) ... Setting up icu-devtools (63.1-6+deb10u1) ... Setting up pkg-config (0.29-6) ... Setting up d-shlibs (0.84) ... Setting up libgfortran5:i386 (8.3.0-6) ... Setting up zlib1g-dev:i386 (1:1.2.11.dfsg-1) ... Setting up sensible-utils (0.0.12) ... Setting up libuchardet0:i386 (0.0.6-3) ... Setting up libbsd0:i386 (0.9.1-2) ... Setting up libelf1:i386 (0.176-1.1) ... Setting up readline-common (7.0-5) ... Setting up libicu-dev:i386 (63.1-6+deb10u1) ... Setting up libxml2:i386 (2.9.4+dfsg1-7+b3) ... Setting up libreadline7:i386 (7.0-5) ... Setting up libfile-stripnondeterminism-perl (1.1.2-1) ... Setting up libgsl-dev (2.5+dfsg-6) ... Setting up swig (3.0.12-2) ... Setting up libtool (2.4.6-9) ... Setting up m4 (1.4.18-2) ... Setting up libpython2.7-stdlib:i386 (2.7.16-2+deb10u1) ... Setting up libxml2-dev:i386 (2.9.4+dfsg1-7+b3) ... Setting up libblas3:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so.3 to provide /usr/lib/i386-linux-gnu/libblas.so.3 (libblas.so.3-i386-linux-gnu) in auto mode Setting up bsdmainutils (11.1.2+b1) ... update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode Setting up libcroco3:i386 (0.6.12-3) ... Setting up autoconf (2.69-11) ... Setting up dwz (0.12-3) ... Setting up groff-base (1.22.4-3) ... Setting up libblas-dev:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/blas/libblas.so to provide /usr/lib/i386-linux-gnu/libblas.so (libblas.so-i386-linux-gnu) in auto mode Setting up automake (1:1.16.1-4) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libpython2.7:i386 (2.7.16-2+deb10u1) ... Setting up liblapack3:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/i386-linux-gnu/liblapack.so.3 (liblapack.so.3-i386-linux-gnu) in auto mode Setting up libpython2.7-dev:i386 (2.7.16-2+deb10u1) ... Setting up gettext (0.19.8.1-9) ... Setting up python2.7 (2.7.16-2+deb10u1) ... Setting up libpython2-stdlib:i386 (2.7.16-1) ... Setting up man-db (2.8.5-2) ... Not building database; man-db/auto-update is not 'true'. Setting up python2 (2.7.16-1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libpython-stdlib:i386 (2.7.16-1) ... Setting up liblapack-dev:i386 (3.8.0-2) ... update-alternatives: using /usr/lib/i386-linux-gnu/lapack/liblapack.so to provide /usr/lib/i386-linux-gnu/liblapack.so (liblapack.so-i386-linux-gnu) in auto mode Setting up libpython2-dev:i386 (2.7.16-1) ... Setting up python (2.7.16-1) ... Setting up python2.7-dev (2.7.16-2+deb10u1) ... Setting up python2-dev (2.7.16-1) ... Setting up po-debconf (1.0.21) ... Setting up libpython-dev:i386 (2.7.16-1) ... Setting up python-dev (2.7.16-1) ... Setting up debhelper (12.1.1) ... Setting up dh-autoreconf (19) ... Setting up dh-strip-nondeterminism (1.1.2-1) ... Processing triggers for libc-bin (2.28-10) ... 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 Reading package lists... Building dependency tree... Reading state information... fakeroot is already the newest version (1.23-1). 0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded. I: Building the package I: Running cd /build/ghmm-0.9~rc3/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b dpkg-buildpackage: info: source package ghmm dpkg-buildpackage: info: source version 0.9~rc3-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture i386 fakeroot debian/rules clean dh clean --enable-gsl --enable-atlas debian/rules override_dh_auto_clean make[1]: Entering directory '/build/ghmm-0.9~rc3' if [ -r Makefile ]; then /usr/bin/make clean; fi find . -name Makefile -delete find . \( -name "*.o" -o -name "*.lo" \) -delete rm -f ghmmwrapper/ghmmwrapper.py ghmmwrapper/ghmmwrapper_wrap.c rm -rf HMMEd/build/ ghmmwrapper/build/ rm -f config.h config.log config.status rm -f libtool stamp-h1 tests/chmm_test.2JNcXz rm -f tools/ghmm-config rm -rf ghmm/.deps/ tests/.deps/ tools/.deps/ make[1]: Leaving directory '/build/ghmm-0.9~rc3' dh_autoreconf_clean -O--enable-gsl -O--enable-atlas dh_clean -O--enable-gsl -O--enable-atlas debian/rules build dh build --enable-gsl --enable-atlas dh_update_autotools_config -O--enable-gsl -O--enable-atlas dh_autoreconf -O--enable-gsl -O--enable-atlas aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in' libtoolize: putting auxiliary files in '.'. libtoolize: copying file './ltmain.sh' libtoolize: Consider adding 'AC_CONFIG_MACRO_DIRS([m4])' to configure.in, libtoolize: and rerunning libtoolize and aclocal. libtoolize: Consider adding '-I m4' to ACLOCAL_AMFLAGS in Makefile.am. aclocal: warning: autoconf input should be named 'configure.ac', not 'configure.in' automake: warning: autoconf input should be named 'configure.ac', not 'configure.in' configure.in:62: installing './compile' configure.in:49: installing './missing' ghmm/Makefile.am:77: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') automake: warning: autoconf input should be named 'configure.ac', not 'configure.in' ghmm/Makefile.am: installing './depcomp' tests/Makefile.am:51: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') parallel-tests: installing './test-driver' tools/Makefile.am:48: warning: 'INCLUDES' is the old name for 'AM_CPPFLAGS' (or '*_CPPFLAGS') dh_auto_configure -O--enable-gsl -O--enable-atlas ./configure --build=i686-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-silent-rules --libdir=\${prefix}/lib/i386-linux-gnu --libexecdir=\${prefix}/lib/i386-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking configure: WARNING: unrecognized options: --disable-maintainer-mode checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of gcc... none checking build system type... i686-pc-linux-gnu checking host system type... i686-pc-linux-gnu checking how to print strings... printf checking for a sed that does not truncate output... /bin/sed checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking how to convert i686-pc-linux-gnu file names to i686-pc-linux-gnu format... func_convert_file_noop checking how to convert i686-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for ar... ar checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking how to run the C preprocessor... gcc -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes checking for gawk... (cached) mawk checking for doxygen... no checking for rm... /bin/rm checking for pkg-config... /usr/bin/pkg-config checking for expect... no checking for runtest... no configure: obsolete features disabled configure: unsupported features disabled checking for pthread_join in -lpthread... yes checking for ANSI C header files... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking whether time.h and sys/time.h may both be included... yes checking whether struct tm is in sys/time.h or time.h... time.h checking for sqrt in -lm... yes checking for exp in -lm... yes checking for pow in -lm... yes configure: "not using gsl" checking for cos in -lm... yes configure: "not using diagonal covariance matrix hack" configure: "not using lapack" configure: using internal Mersenne-Twister random number generator checking for python... /usr/bin/python checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating ghmm/Makefile config.status: creating ghmm/ghmmconfig.h config.status: creating tools/Makefile config.status: creating tests/Makefile config.status: creating tests/data/Makefile config.status: creating tools/ghmm-config config.status: creating ghmmwrapper/Makefile config.status: creating HMMEd/Makefile config.status: creating config.h config.status: executing depfiles commands config.status: executing libtool commands /bin/rm: cannot remove 'libtoolT': No such file or directory configure: WARNING: unrecognized options: --disable-maintainer-mode dh_auto_build -O--enable-gsl -O--enable-atlas make -j18 make[1]: Entering directory '/build/ghmm-0.9~rc3' make all-recursive make[2]: Entering directory '/build/ghmm-0.9~rc3' Making all in ghmm make[3]: Entering directory '/build/ghmm-0.9~rc3/ghmm' Making all in . make[4]: Entering directory '/build/ghmm-0.9~rc3/ghmm' /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o rng.lo rng.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o randvar.lo randvar.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o matrixop.lo matrixop.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o gauss_tail.lo gauss_tail.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o mes.lo mes.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o ghmm_internals.lo ghmm_internals.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o mprintf.lo mprintf.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o vector.lo vector.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o matrix.lo matrix.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o scanner.lo scanner.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o linkedlist.lo linkedlist.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sequence.lo sequence.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o psequence.lo psequence.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o xmlreader.lo xmlreader.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o xmlwriter.lo xmlwriter.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o model.lo model.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o foba.lo foba.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o viterbi.lo viterbi.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c linkedlist.c -fPIC -DPIC -o .libs/linkedlist.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c gauss_tail.c -fPIC -DPIC -o .libs/gauss_tail.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c rng.c -fPIC -DPIC -o .libs/rng.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c vector.c -fPIC -DPIC -o .libs/vector.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c mprintf.c -fPIC -DPIC -o .libs/mprintf.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c ghmm_internals.c -fPIC -DPIC -o .libs/ghmm_internals.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c randvar.c -fPIC -DPIC -o .libs/randvar.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sequence.c -fPIC -DPIC -o .libs/sequence.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c mes.c -fPIC -DPIC -o .libs/mes.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c xmlreader.c -fPIC -DPIC -o .libs/xmlreader.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c matrixop.c -fPIC -DPIC -o .libs/matrixop.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c psequence.c -fPIC -DPIC -o .libs/psequence.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c matrix.c -fPIC -DPIC -o .libs/matrix.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c scanner.c -fPIC -DPIC -o .libs/scanner.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c model.c -fPIC -DPIC -o .libs/model.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c foba.c -fPIC -DPIC -o .libs/foba.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c xmlwriter.c -fPIC -DPIC -o .libs/xmlwriter.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c viterbi.c -fPIC -DPIC -o .libs/viterbi.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c scanner.c -o scanner.o >/dev/null 2>&1 psequence.c: In function 'ghmm_dpseq_free': psequence.c:78:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(seq, return(-1)); ^ sequence.c: In function 'ghmm_dseq_subseq_free': sequence.c:685:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (sq, return (-1)); ^ sequence.c: In function 'ghmm_cseq_subseq_free': sequence.c:715:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (sqd, return (-1)); ^ matrix.c: In function 'ighmm_cmatrix_stat_free': matrix.c:176:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (matrix, return (-1)); ^ matrix.c: In function 'ighmm_dmatrix_stat_free': matrix.c:214:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (matrix, return (-1)); ^ matrix.c: In function 'ighmm_cmatrix_3d_free': matrix.c:270:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(matrix, return(-1)); ^ matrix.c: In function 'ighmm_cmatrix_free': matrix.c:285:36: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(matrix, return (-1)); ^ matrix.c: In function 'ighmm_dmatrix_free': matrix.c:343:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (matrix, return (-1)); ^ matrix.c: In function 'ighmm_dmatrix_3d_free': matrix.c:378:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(matrix, return(-1)); ^ /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o reestimate.lo reestimate.c sequence.c: In function 'ghmm_dseq_free': sequence.c:1189:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(sq, return -1); ^ sequence.c: In function 'ghmm_cseq_free': sequence.c:1226:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(sqd, return -1); ^ foba.c: In function 'ghmm_dmodel_backward': foba.c:286:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_0 (scale[t], goto STOP); ^ model.c: In function 'ghmm_dmodel_free': model.c:632:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (mo, return (-1)); ^ model.c:634:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (m, return (-1)); ^ foba.c: In function 'ghmm_dmodel_label_backward': foba.c:848:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_0 (scale[t], goto STOP); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c ghmm_internals.c -o ghmm_internals.o >/dev/null 2>&1 model.c: In function 'ghmm_dstate_clean': model.c:1758:35: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (my_state, return;); ^ rng.c: In function 'ghmm_rng_init': rng.c:67:3: warning: argument 2 null where non-null expected [-Wnonnull] initstate(1, ighmm_rng_state, sizeof(ghmm_rng_state_t)); ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ In file included from rng.c:40: /usr/include/stdlib.h:410:14: note: in a call to function 'initstate' declared here extern char *initstate (unsigned int __seed, char *__statebuf, ^~~~~~~~~ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c linkedlist.c -o linkedlist.o >/dev/null 2>&1 viterbi.c: In function 'viterbi_free': viterbi.c:71:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(v, return -1); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c rng.c -o rng.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c gauss_tail.c -o gauss_tail.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c vector.c -o vector.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c psequence.c -o psequence.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c reestimate.c -fPIC -DPIC -o .libs/reestimate.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c matrixop.c -o matrixop.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o gradescent.lo gradescent.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o kbest.lo kbest.c reestimate.c: In function 'reestimate_free': reestimate.c:79:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (r, return (-1)); ^ reestimate.c: In function 'reestimate_setlambda': reestimate.c:306:38: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_0 (r->pi_denom, goto STOP); ^ /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o discrime.lo discrime.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o modelutil.lo modelutil.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c matrix.c -o matrix.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c gradescent.c -fPIC -DPIC -o .libs/gradescent.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c kbest.c -fPIC -DPIC -o .libs/kbest.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o cluster.lo cluster.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o root_finder.lo root_finder.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c randvar.c -o randvar.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c discrime.c -fPIC -DPIC -o .libs/discrime.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c modelutil.c -fPIC -DPIC -o .libs/modelutil.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o smodel.lo smodel.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c mes.c -o mes.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c viterbi.c -o viterbi.o >/dev/null 2>&1 modelutil.c: In function 'topo_free': modelutil.c:89:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (v, return (-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c cluster.c -fPIC -DPIC -o .libs/cluster.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c root_finder.c -fPIC -DPIC -o .libs/root_finder.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c cluster.c -o cluster.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c mprintf.c -o mprintf.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sfoba.lo sfoba.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smodel.c -fPIC -DPIC -o .libs/smodel.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c root_finder.c -o root_finder.o >/dev/null 2>&1 smodel.c: In function 'ghmm_cmodel_free': smodel.c:765:34: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (smo, return (-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sfoba.c -fPIC -DPIC -o .libs/sfoba.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c modelutil.c -o modelutil.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sviterbi.lo sviterbi.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sreestimate.lo sreestimate.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o scluster.lo scluster.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sviterbi.c -fPIC -DPIC -o .libs/sviterbi.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sreestimate.c -fPIC -DPIC -o .libs/sreestimate.o sviterbi.c: In function 'sviterbi_free': sviterbi.c:89:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (v, return (-1)); ^ sreestimate.c: In function 'sreestimate_free': sreestimate.c:174:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (r, return (-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c gradescent.c -o gradescent.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c scluster.c -fPIC -DPIC -o .libs/scluster.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sgenerate.lo sgenerate.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o smixturehmm.lo smixturehmm.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c scluster.c -o scluster.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o smap_classify.lo smap_classify.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sdmodel.lo sdmodel.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sgenerate.c -fPIC -DPIC -o .libs/sgenerate.o /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sdfoba.lo sdfoba.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smixturehmm.c -fPIC -DPIC -o .libs/smixturehmm.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c kbest.c -o kbest.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c xmlwriter.c -o xmlwriter.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smap_classify.c -fPIC -DPIC -o .libs/smap_classify.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdmodel.c -fPIC -DPIC -o .libs/sdmodel.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smixturehmm.c -o smixturehmm.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sfoba.c -o sfoba.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smap_classify.c -o smap_classify.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sdviterbi.lo sdviterbi.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sviterbi.c -o sviterbi.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c foba.c -o foba.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o pmodel.lo pmodel.c sdmodel.c: In function 'ghmm_dsmodel_free': sdmodel.c:211:33: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (mo, return (-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdfoba.c -fPIC -DPIC -o .libs/sdfoba.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c reestimate.c -o reestimate.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdviterbi.c -fPIC -DPIC -o .libs/sdviterbi.o sdfoba.c: In function 'ghmm_dsmodel_backward': sdfoba.c:336:37: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_0 (scale[t], goto STOP); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sequence.c -o sequence.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pmodel.c -fPIC -DPIC -o .libs/pmodel.o sdviterbi.c: In function 'sdviterbi_free': sdviterbi.c:111:32: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr (v, return (-1)); ^ pmodel.c: In function 'ghmm_dpmodel_free': pmodel.c:127:31: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(mo, return(-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c xmlreader.c -o xmlreader.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o pviterbi.lo pviterbi.c /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o pviterbi_propagate.lo pviterbi_propagate.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pmodel.c -o pmodel.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdfoba.c -o sdfoba.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o fbgibbs.lo fbgibbs.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pviterbi.c -fPIC -DPIC -o .libs/pviterbi.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pviterbi_propagate.c -fPIC -DPIC -o .libs/pviterbi_propagate.o pviterbi.c: In function 'pviterbi_free': pviterbi.c:151:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(v, return(-1)); ^ libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sgenerate.c -o sgenerate.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c fbgibbs.c -fPIC -DPIC -o .libs/fbgibbs.o pviterbi_propagate.c: In function 'pviterbi_propagate_free': pviterbi_propagate.c:255:30: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] mes_check_ptr(v, return(-1)); ^ /bin/bash ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o cfbgibbs.lo cfbgibbs.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdviterbi.c -o sdviterbi.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c cfbgibbs.c -fPIC -DPIC -o .libs/cfbgibbs.o libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sreestimate.c -o sreestimate.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c sdmodel.c -o sdmodel.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c smodel.c -o smodel.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c model.c -o model.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c fbgibbs.c -o fbgibbs.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pviterbi.c -o pviterbi.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c discrime.c -o discrime.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c pviterbi_propagate.c -o pviterbi_propagate.o >/dev/null 2>&1 libtool: compile: gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c cfbgibbs.c -o cfbgibbs.o >/dev/null 2>&1 /bin/bash ../libtool --tag=CC --mode=link gcc -DDTD_LOC=\"/usr/share/ghmm/ghmm.dtd.1.0\" -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -version-info 1:0:0 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o libghmm.la -rpath /usr/lib/i386-linux-gnu rng.lo randvar.lo matrixop.lo gauss_tail.lo mes.lo ghmm_internals.lo mprintf.lo vector.lo matrix.lo scanner.lo linkedlist.lo sequence.lo psequence.lo xmlreader.lo xmlwriter.lo model.lo foba.lo viterbi.lo reestimate.lo gradescent.lo kbest.lo discrime.lo modelutil.lo cluster.lo root_finder.lo smodel.lo sfoba.lo sviterbi.lo sreestimate.lo scluster.lo sgenerate.lo smixturehmm.lo smap_classify.lo sdmodel.lo sdfoba.lo sdviterbi.lo pmodel.lo pviterbi.lo pviterbi_propagate.lo fbgibbs.lo cfbgibbs.lo -lm -lm -lm -lm -lpthread -lxml2 libtool: link: gcc -shared -fPIC -DPIC .libs/rng.o .libs/randvar.o .libs/matrixop.o .libs/gauss_tail.o .libs/mes.o .libs/ghmm_internals.o .libs/mprintf.o .libs/vector.o .libs/matrix.o .libs/scanner.o .libs/linkedlist.o .libs/sequence.o .libs/psequence.o .libs/xmlreader.o .libs/xmlwriter.o .libs/model.o .libs/foba.o .libs/viterbi.o .libs/reestimate.o .libs/gradescent.o .libs/kbest.o .libs/discrime.o .libs/modelutil.o .libs/cluster.o .libs/root_finder.o .libs/smodel.o .libs/sfoba.o .libs/sviterbi.o .libs/sreestimate.o .libs/scluster.o .libs/sgenerate.o .libs/smixturehmm.o .libs/smap_classify.o .libs/sdmodel.o .libs/sdfoba.o .libs/sdviterbi.o .libs/pmodel.o .libs/pviterbi.o .libs/pviterbi_propagate.o .libs/fbgibbs.o .libs/cfbgibbs.o -lm -lpthread -lxml2 -g -O2 -fstack-protector-strong -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -Wl,-soname -Wl,libghmm.so.1 -o .libs/libghmm.so.1.0.0 libtool: link: (cd ".libs" && rm -f "libghmm.so.1" && ln -s "libghmm.so.1.0.0" "libghmm.so.1") libtool: link: (cd ".libs" && rm -f "libghmm.so" && ln -s "libghmm.so.1.0.0" "libghmm.so") libtool: link: ar cru .libs/libghmm.a rng.o randvar.o matrixop.o gauss_tail.o mes.o ghmm_internals.o mprintf.o vector.o matrix.o scanner.o linkedlist.o sequence.o psequence.o xmlreader.o xmlwriter.o model.o foba.o viterbi.o reestimate.o gradescent.o kbest.o discrime.o modelutil.o cluster.o root_finder.o smodel.o sfoba.o sviterbi.o sreestimate.o scluster.o sgenerate.o smixturehmm.o smap_classify.o sdmodel.o sdfoba.o sdviterbi.o pmodel.o pviterbi.o pviterbi_propagate.o fbgibbs.o cfbgibbs.o ar: `u' modifier ignored since `D' is the default (see `U') libtool: link: ranlib .libs/libghmm.a libtool: link: ( cd ".libs" && rm -f "libghmm.la" && ln -s "../libghmm.la" "libghmm.la" ) make[4]: Leaving directory '/build/ghmm-0.9~rc3/ghmm' make[3]: Leaving directory '/build/ghmm-0.9~rc3/ghmm' Making all in tools make[3]: Entering directory '/build/ghmm-0.9~rc3/tools' make all-recursive make[4]: Entering directory '/build/ghmm-0.9~rc3/tools' Making all in . make[5]: Entering directory '/build/ghmm-0.9~rc3/tools' gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o probdist.o probdist.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o cluster.o cluster.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o scluster.o scluster.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o smix_hmm.o smix_hmm.c /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o scluster scluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o smix_hmm smix_hmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o cluster cluster.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o probdist probdist.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o smix_hmm smix_hmm.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o cluster cluster.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o scluster scluster.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o probdist probdist.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 make[5]: Leaving directory '/build/ghmm-0.9~rc3/tools' make[4]: Leaving directory '/build/ghmm-0.9~rc3/tools' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tools' Making all in tests make[3]: Entering directory '/build/ghmm-0.9~rc3/tests' Making all in data make[4]: Entering directory '/build/ghmm-0.9~rc3/tests/data' Making all in . make[5]: Entering directory '/build/ghmm-0.9~rc3/tests/data' make[5]: Nothing to be done for 'all-am'. make[5]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[4]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[4]: Entering directory '/build/ghmm-0.9~rc3/tests' gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o randvar_test.o randvar_test.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 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-fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o chmm.o chmm.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o chmm_test.o chmm_test.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o shmm_viterbi_test.o shmm_viterbi_test.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o test_gsl_ran_gaussian_tail.o test_gsl_ran_gaussian_tail.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sequences_test.o sequences_test.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o sequences_old_format.o sequences_old_format.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o label_higher_order_test.o label_higher_order_test.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o read_fa.o read_fa.c gcc -DHAVE_CONFIG_H -I. -I.. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -c -o mcmc.o mcmc.c /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o root_finder_test root_finder_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o sequences_old_format sequences_old_format.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 mcmc.c: In function 'main': mcmc.c:144:3: warning: implicit declaration of function 'init_priors' [-Wimplicit-function-declaration] init_priors(mo, &pA, &pB, &pPi); ^~~~~~~~~~~ mcmc.c:146:15: warning: implicit declaration of function 'ghmm_dmodel_cfbgibbs'; did you mean 'ghmm_dmodel_logp'? [-Wimplicit-function-declaration] int * Q = ghmm_dmodel_cfbgibbs(mo, my_output, ^~~~~~~~~~~~~~~~~~~~ ghmm_dmodel_logp mcmc.c:146:15: warning: initialization of 'int *' from 'int' makes pointer from integer without a cast [-Wint-conversion] mcmc.c:148:108: warning: passing argument 4 of 'ghmm_dmodel_viterbi_logp' makes pointer from integer without a cast [-Wint-conversion] printf("viterbi prob mcmc%f \n", ghmm_dmodel_viterbi_logp(mo, my_output->seq[0], my_output->seq_len[0], Q[0])); ~^~~ In file included from mcmc.c:13: ../ghmm/viterbi.h:75:76: note: expected 'int *' but argument is of type 'int' double ghmm_dmodel_viterbi_logp (ghmm_dmodel * mo, int *o, int len, int *state_seq); ~~~~~^~~~~~~~~ /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o libxml-test libxml-test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o shmm_viterbi_test shmm_viterbi_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o sequences_test sequences_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o two_states_three_symbols two_states_three_symbols.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o randvar_test randvar_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o chmm chmm.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o chmm_test chmm_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o mcmc mcmc.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o coin_toss_test coin_toss_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o read_fa read_fa.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o root_finder_test root_finder_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 /bin/bash ../libtool --tag=CC --mode=link gcc -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -o label_higher_order_test label_higher_order_test.o ../ghmm/.libs/libghmm.a -lm -lm -lm -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o sequences_old_format sequences_old_format.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o test_gsl_ran_gaussian_tail test_gsl_ran_gaussian_tail.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o shmm_viterbi_test shmm_viterbi_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o libxml-test libxml-test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o sequences_test sequences_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o two_states_three_symbols two_states_three_symbols.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o chmm_test chmm_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o chmm chmm.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o randvar_test randvar_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o coin_toss_test coin_toss_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o mcmc mcmc.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o read_fa read_fa.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 libtool: link: gcc -g -O2 "-ffile-prefix-map=/build/ghmm-0.9~rc3=." -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wl,-z -Wl,relro -Wl,-z -Wl,now -Wl,--as-needed -o label_higher_order_test label_higher_order_test.o ../ghmm/.libs/libghmm.a -lm -lpthread -lxml2 make[4]: Leaving directory '/build/ghmm-0.9~rc3/tests' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tests' Making all in ghmmwrapper make[3]: Entering directory '/build/ghmm-0.9~rc3/ghmmwrapper' Making all in . make[4]: Entering directory '/build/ghmm-0.9~rc3/ghmmwrapper' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/ghmm-0.9~rc3/ghmmwrapper' /usr/bin/python setup.py build running build running build_py file ghmmwrapper.py (for module ghmmwrapper) not found creating build creating build/lib.linux-x86_64-2.7 copying ghmm.py -> build/lib.linux-x86_64-2.7 copying ghmmhelper.py -> build/lib.linux-x86_64-2.7 copying modhmmer.py -> build/lib.linux-x86_64-2.7 copying class_change.py -> build/lib.linux-x86_64-2.7 file ghmmwrapper.py (for module ghmmwrapper) not found running build_ext building '_ghmmwrapper' extension swigging ghmmwrapper.i to ghmmwrapper_wrap.c swig -python -o ghmmwrapper_wrap.c ghmmwrapper.i creating build/temp.linux-x86_64-2.7 i686-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I.. -I/usr/include/python2.7 -c sclass_change.c -o build/temp.linux-x86_64-2.7/sclass_change.o -O2 -pipe -Wall i686-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I.. -I/usr/include/python2.7 -c pclasschange.c -o build/temp.linux-x86_64-2.7/pclasschange.o -O2 -pipe -Wall i686-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I.. -I/usr/include/python2.7 -c gql.c -o build/temp.linux-x86_64-2.7/gql.o -O2 -pipe -Wall i686-linux-gnu-gcc -pthread -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -fno-strict-aliasing -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -I.. -I/usr/include/python2.7 -c ghmmwrapper_wrap.c -o build/temp.linux-x86_64-2.7/ghmmwrapper_wrap.o -O2 -pipe -Wall In file included from ghmmwrapper_wrap.c:3086: ../ghmm/randvar.h:218:3: warning: function declaration isn't a prototype [-Wstrict-prototypes] double ighmm_rand_get_xPHIless1(); ^~~~~~ ../ghmm/randvar.h:250:3: warning: function declaration isn't a prototype [-Wstrict-prototypes] double ighmm_rand_get_xfaktphi(); ^~~~~~ ../ghmm/randvar.h:255:3: warning: function declaration isn't a prototype [-Wstrict-prototypes] double ighmm_rand_get_xstepphi(); ^~~~~~ ../ghmm/randvar.h:260:3: warning: function declaration isn't a prototype [-Wstrict-prototypes] double ighmm_rand_get_philen(); ^~~~~~ i686-linux-gnu-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall -Wstrict-prototypes -Wdate-time -D_FORTIFY_SOURCE=2 -g -fdebug-prefix-map=/build/python2.7-EBAgX8/python2.7-2.7.16=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -Wl,--as-needed -g -O2 -ffile-prefix-map=/build/ghmm-0.9~rc3=. -fstack-protector-strong -Wformat -Werror=format-security -I/usr/include/libxml2 -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-x86_64-2.7/sclass_change.o build/temp.linux-x86_64-2.7/pclasschange.o build/temp.linux-x86_64-2.7/gql.o build/temp.linux-x86_64-2.7/ghmmwrapper_wrap.o -L../ghmm/.libs -lghmm -lm -lpthread -lxml2 -lz -o build/lib.linux-x86_64-2.7/_ghmmwrapper.so make[3]: Leaving directory '/build/ghmm-0.9~rc3/ghmmwrapper' Making all in HMMEd make[3]: Entering directory '/build/ghmm-0.9~rc3/HMMEd' Making all in . make[4]: Entering directory '/build/ghmm-0.9~rc3/HMMEd' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/ghmm-0.9~rc3/HMMEd' /usr/bin/python setup.py build running build running build_py creating build creating build/lib.linux-x86_64-2.7 copying HMMEditor.py -> build/lib.linux-x86_64-2.7 copying ObjectHMM.py -> build/lib.linux-x86_64-2.7 copying HMMEditingContext.py -> build/lib.linux-x86_64-2.7 running build_scripts creating build/scripts-2.7 copying and adjusting HMMEd -> build/scripts-2.7 changing mode of build/scripts-2.7/HMMEd from 644 to 755 make[3]: Leaving directory '/build/ghmm-0.9~rc3/HMMEd' make[3]: Entering directory '/build/ghmm-0.9~rc3' make[3]: Leaving directory '/build/ghmm-0.9~rc3' make[2]: Leaving directory '/build/ghmm-0.9~rc3' make[1]: Leaving directory '/build/ghmm-0.9~rc3' debian/rules override_dh_auto_test make[1]: Entering directory '/build/ghmm-0.9~rc3' /usr/bin/make --directory=tests make[2]: Entering directory '/build/ghmm-0.9~rc3/tests' Making all in data make[3]: Entering directory '/build/ghmm-0.9~rc3/tests/data' Making all in . make[4]: Entering directory '/build/ghmm-0.9~rc3/tests/data' make[4]: Nothing to be done for 'all-am'. make[4]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[3]: Entering directory '/build/ghmm-0.9~rc3/tests' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/ghmm-0.9~rc3/tests' make[2]: Leaving directory '/build/ghmm-0.9~rc3/tests' make[1]: Leaving directory '/build/ghmm-0.9~rc3' create-stamp debian/debhelper-build-stamp fakeroot debian/rules binary dh binary --enable-gsl --enable-atlas dh_testroot -O--enable-gsl -O--enable-atlas dh_prep -O--enable-gsl -O--enable-atlas dh_auto_install -O--enable-gsl -O--enable-atlas make -j1 install DESTDIR=/build/ghmm-0.9\~rc3/debian/tmp AM_UPDATE_INFO_DIR=no make[1]: Entering directory '/build/ghmm-0.9~rc3' Making install in ghmm make[2]: Entering directory '/build/ghmm-0.9~rc3/ghmm' Making install in . make[3]: Entering directory '/build/ghmm-0.9~rc3/ghmm' make[4]: Entering directory '/build/ghmm-0.9~rc3/ghmm' /bin/mkdir -p '/build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu' /bin/bash ../libtool --mode=install /usr/bin/install -c libghmm.la '/build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu' libtool: install: /usr/bin/install -c .libs/libghmm.so.1.0.0 /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.so.1.0.0 libtool: install: (cd /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f libghmm.so.1.0.0 libghmm.so.1 || { rm -f libghmm.so.1 && ln -s libghmm.so.1.0.0 libghmm.so.1; }; }) libtool: install: (cd /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu && { ln -s -f libghmm.so.1.0.0 libghmm.so || { rm -f libghmm.so && ln -s libghmm.so.1.0.0 libghmm.so; }; }) libtool: install: /usr/bin/install -c .libs/libghmm.lai /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.la libtool: install: /usr/bin/install -c .libs/libghmm.a /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.a libtool: install: chmod 644 /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.a libtool: install: ranlib /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.a libtool: warning: remember to run 'libtool --finish /usr/lib/i386-linux-gnu' /bin/mkdir -p '/build/ghmm-0.9~rc3/debian/tmp/usr/include/ghmm' /usr/bin/install -c -m 644 ghmm.h ghmmconfig.h sequence.h psequence.h xmlreader.h xmlwriter.h model.h foba.h viterbi.h gradescent.h kbest.h discrime.h cluster.h scluster.h reestimate.h sfoba.h sviterbi.h smodel.h sdmodel.h sdfoba.h sreestimate.h sgenerate.h smixturehmm.h smap_classify.h pmodel.h pviterbi.h pviterbi_propagate.h rng.h scanner.h obsolete.h unsupported.h fbgibbs.h cfbgibbs.h '/build/ghmm-0.9~rc3/debian/tmp/usr/include/ghmm' make[4]: Leaving directory '/build/ghmm-0.9~rc3/ghmm' make[3]: Leaving directory '/build/ghmm-0.9~rc3/ghmm' make[2]: Leaving directory '/build/ghmm-0.9~rc3/ghmm' Making install in tools make[2]: Entering directory '/build/ghmm-0.9~rc3/tools' make install-recursive make[3]: Entering directory '/build/ghmm-0.9~rc3/tools' Making install in . make[4]: Entering directory '/build/ghmm-0.9~rc3/tools' make[5]: Entering directory '/build/ghmm-0.9~rc3/tools' /bin/mkdir -p '/build/ghmm-0.9~rc3/debian/tmp/usr/bin' /bin/bash ../libtool --mode=install /usr/bin/install -c probdist cluster scluster smix_hmm '/build/ghmm-0.9~rc3/debian/tmp/usr/bin' libtool: install: /usr/bin/install -c probdist /build/ghmm-0.9~rc3/debian/tmp/usr/bin/probdist libtool: install: /usr/bin/install -c cluster /build/ghmm-0.9~rc3/debian/tmp/usr/bin/cluster libtool: install: /usr/bin/install -c scluster /build/ghmm-0.9~rc3/debian/tmp/usr/bin/scluster libtool: install: /usr/bin/install -c smix_hmm /build/ghmm-0.9~rc3/debian/tmp/usr/bin/smix_hmm /bin/mkdir -p '/build/ghmm-0.9~rc3/debian/tmp/usr/bin' /usr/bin/install -c ghmm-config '/build/ghmm-0.9~rc3/debian/tmp/usr/bin' make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/build/ghmm-0.9~rc3/tools' make[4]: Leaving directory '/build/ghmm-0.9~rc3/tools' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tools' make[2]: Leaving directory '/build/ghmm-0.9~rc3/tools' Making install in tests make[2]: Entering directory '/build/ghmm-0.9~rc3/tests' Making install in data make[3]: Entering directory '/build/ghmm-0.9~rc3/tests/data' Making install in . make[4]: Entering directory '/build/ghmm-0.9~rc3/tests/data' make[5]: Entering directory '/build/ghmm-0.9~rc3/tests/data' make[5]: Nothing to be done for 'install-exec-am'. make[5]: Nothing to be done for 'install-data-am'. make[5]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[4]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tests/data' make[3]: Entering directory '/build/ghmm-0.9~rc3/tests' make[4]: Entering directory '/build/ghmm-0.9~rc3/tests' make[4]: Nothing to be done for 'install-exec-am'. make[4]: Nothing to be done for 'install-data-am'. make[4]: Leaving directory '/build/ghmm-0.9~rc3/tests' make[3]: Leaving directory '/build/ghmm-0.9~rc3/tests' make[2]: Leaving directory '/build/ghmm-0.9~rc3/tests' Making install in ghmmwrapper make[2]: Entering directory '/build/ghmm-0.9~rc3/ghmmwrapper' Making all in . make[3]: Entering directory '/build/ghmm-0.9~rc3/ghmmwrapper' make[3]: Nothing to be done for 'all-am'. make[3]: Leaving directory '/build/ghmm-0.9~rc3/ghmmwrapper' /usr/bin/python setup.py build running build running build_py copying ghmmwrapper.py -> build/lib.linux-x86_64-2.7 running build_ext /usr/bin/python setup.py install --prefix=/build/ghmm-0.9~rc3/debian/tmp//usr running install running build running build_py running build_ext running install_lib creating /build/ghmm-0.9~rc3/debian/tmp/usr/lib/python2.7 creating /build/ghmm-0.9~rc3/debian/tmp/usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/ghmmhelper.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/ghmmwrapper.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/modhmmer.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/class_change.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/_ghmmwrapper.so -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/ghmm.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/ghmmhelper.py to ghmmhelper.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/ghmmwrapper.py to ghmmwrapper.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/modhmmer.py to modhmmer.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/class_change.py to class_change.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/ghmm.py to ghmm.pyc running install_egg_info Writing /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/ghmmwrapper-0.8-py2.7.egg-info make[2]: Leaving directory '/build/ghmm-0.9~rc3/ghmmwrapper' Making install in HMMEd make[2]: Entering directory '/build/ghmm-0.9~rc3/HMMEd' /usr/bin/python setup.py install --prefix=/build/ghmm-0.9~rc3/debian/tmp//usr running install running build running build_py running build_scripts running install_lib copying build/lib.linux-x86_64-2.7/ObjectHMM.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/HMMEditor.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages copying build/lib.linux-x86_64-2.7/HMMEditingContext.py -> /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/ObjectHMM.py to ObjectHMM.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/HMMEditor.py to HMMEditor.pyc byte-compiling /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/HMMEditingContext.py to HMMEditingContext.pyc running install_scripts copying build/scripts-2.7/HMMEd -> /build/ghmm-0.9~rc3/debian/tmp//usr/bin changing mode of /build/ghmm-0.9~rc3/debian/tmp//usr/bin/HMMEd to 755 running install_egg_info Writing /build/ghmm-0.9~rc3/debian/tmp//usr/lib/python2.7/site-packages/HMMEd-0.8-py2.7.egg-info make[2]: Leaving directory '/build/ghmm-0.9~rc3/HMMEd' make[2]: Entering directory '/build/ghmm-0.9~rc3' make[3]: Entering directory '/build/ghmm-0.9~rc3' make[3]: Nothing to be done for 'install-exec-am'. /bin/mkdir -p '/build/ghmm-0.9~rc3/debian/tmp/usr/share/ghmm' /usr/bin/install -c -m 644 doc/ghmm.dtd.1.0 '/build/ghmm-0.9~rc3/debian/tmp/usr/share/ghmm' make[3]: Leaving directory '/build/ghmm-0.9~rc3' make[2]: Leaving directory '/build/ghmm-0.9~rc3' make[1]: Leaving directory '/build/ghmm-0.9~rc3' debian/rules override_dh_install make[1]: Entering directory '/build/ghmm-0.9~rc3' dh_install find /build/ghmm-0.9~rc3/debian/tmp -name "*.pyc" -delete d-shlibmove --commit \ --multiarch \ --devunversioned \ --exclude-la \ --movedev debian/tmp/usr/include usr \ debian/tmp/usr/lib/*/*.so Library package automatic movement utility --> libxml2-dev package exists. set -e install -d -m 755 debian/libghmm-dev/usr/lib/i386-linux-gnu install -d -m 755 debian/libghmm1/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libghmm.a debian/libghmm-dev/usr/lib/i386-linux-gnu mv debian/tmp/usr/lib/i386-linux-gnu/libghmm.so debian/libghmm-dev/usr/lib/i386-linux-gnu mv /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.so.1 debian/libghmm1/usr/lib/i386-linux-gnu mv /build/ghmm-0.9~rc3/debian/tmp/usr/lib/i386-linux-gnu/libghmm.so.1.0.0 debian/libghmm1/usr/lib/i386-linux-gnu PKGDEV=libghmm-dev PKGSHL=libghmm1 install -d -m 755 debian/libghmm-dev/usr mv debian/tmp/usr/include debian/libghmm-dev/usr cd /build/ghmm-0.9~rc3/debian/ghmm/usr/bin/ && mv cluster ghmm-cluster sed -i -e 's@ [^ ]*-f\(file\|debug\)-prefix-map=[^ ]*@@g' \ /build/ghmm-0.9~rc3/debian/ghmm/usr/bin/ghmm-config #echo "FIXME: The following files are not installed" #ls -l # cd /build/ghmm-0.9~rc3/debian/tmp/usr/lib/python2.7/ && mv site-packages dist-packages make[1]: Leaving directory '/build/ghmm-0.9~rc3' dh_installdocs -O--enable-gsl -O--enable-atlas dh_installchangelogs -O--enable-gsl -O--enable-atlas dh_installinit -O--enable-gsl -O--enable-atlas dh_perl -O--enable-gsl -O--enable-atlas dh_link -O--enable-gsl -O--enable-atlas dh_strip_nondeterminism -O--enable-gsl -O--enable-atlas dh_compress -O--enable-gsl -O--enable-atlas dh_fixperms -O--enable-gsl -O--enable-atlas dh_missing -O--enable-gsl -O--enable-atlas dh_strip -O--enable-gsl -O--enable-atlas dh_makeshlibs -O--enable-gsl -O--enable-atlas dh_shlibdeps -O--enable-gsl -O--enable-atlas dh_installdeb -O--enable-gsl -O--enable-atlas dh_gencontrol -O--enable-gsl -O--enable-atlas dpkg-gencontrol: warning: Depends field of package libghmm-dev: substitution variable ${shlibs:Depends} used, but is not defined dpkg-gencontrol: warning: package libghmm-dev: substitution variable ${devlibs:Depends} unused, but is defined dh_md5sums -O--enable-gsl -O--enable-atlas dh_builddeb -O--enable-gsl -O--enable-atlas dpkg-deb: building package 'ghmm' in '../ghmm_0.9~rc3-2_i386.deb'. dpkg-deb: building package 'ghmm-dbgsym' in '../ghmm-dbgsym_0.9~rc3-2_i386.deb'. dpkg-deb: building package 'libghmm-dev' in '../libghmm-dev_0.9~rc3-2_i386.deb'. dpkg-deb: building package 'libghmm1' in '../libghmm1_0.9~rc3-2_i386.deb'. dpkg-deb: building package 'libghmm1-dbgsym' in '../libghmm1-dbgsym_0.9~rc3-2_i386.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../ghmm_0.9~rc3-2_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/38057 and its subdirectories I: Current time: Fri Dec 17 19:33:32 -12 2021 I: pbuilder-time-stamp: 1639812812 Sun Nov 15 01:10:33 UTC 2020 I: 1st build successful. Starting 2nd build on remote node ionos2-i386.debian.net. Sun Nov 15 01:10:33 UTC 2020 I: Preparing to do remote build '2' on ionos2-i386.debian.net. Sun Nov 15 01:14:13 UTC 2020 I: Deleting $TMPDIR on ionos2-i386.debian.net. Sun Nov 15 01:14:13 UTC 2020 I: ghmm_0.9~rc3-2_i386.changes: Format: 1.8 Date: Sun, 02 Jun 2019 15:13:30 +0200 Source: ghmm Binary: ghmm ghmm-dbgsym libghmm-dev libghmm1 libghmm1-dbgsym Architecture: i386 Version: 0.9~rc3-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Andreas Tille Description: ghmm - General Hidden-Markov-Model library - tools libghmm-dev - General Hidden-Markov-Model library - header files libghmm1 - General Hidden-Markov-Model library Closes: 929791 Changes: ghmm (0.9~rc3-2) unstable; urgency=medium . [ Chris Lamb ] * Enable reproducible build by removing absolute build path from ghmm-config Closes: #929791 . [ Andreas Tille ] * Standards-Version: 4.3.0 Checksums-Sha1: 0eef8c2939126af5cbb7f89411f954200417cb2b 8896 ghmm-dbgsym_0.9~rc3-2_i386.deb 1486982ae2af279e19ff2f004fbc604bf78188f7 6996 ghmm_0.9~rc3-2_i386.buildinfo e5b1783a758d6c64a94c8b116f457f69016a9c76 6476 ghmm_0.9~rc3-2_i386.deb 6a8bbb15f472e4c7428578bea5e6d0d891bdc48a 190548 libghmm-dev_0.9~rc3-2_i386.deb 5ee3c14e5121237d735b570d18cb28063ee6b8e1 296160 libghmm1-dbgsym_0.9~rc3-2_i386.deb 9b7484fa09e71a52f43bc6bb2532fea2bd06152f 143220 libghmm1_0.9~rc3-2_i386.deb Checksums-Sha256: 70906b49bcaab414ca21e3f3ada9a1fdb78160b6c680729d758f387eb68d3849 8896 ghmm-dbgsym_0.9~rc3-2_i386.deb baf9970f57b9fec2adbc72986ae6d80798ad5e9edc2a882c128f94ab24520a70 6996 ghmm_0.9~rc3-2_i386.buildinfo 17d51ac31530d18f301a7aa99b070b9a940f0a18e662d1d81e3552af30cf438c 6476 ghmm_0.9~rc3-2_i386.deb 7e01750d8871006fc1ee52bb5f7b720c1b885410275a9db8a54b622c1cfb2c41 190548 libghmm-dev_0.9~rc3-2_i386.deb 7d193b6cff5340d62d54a1867bcebd06fd01c8975b2941483b7b7739aceec33f 296160 libghmm1-dbgsym_0.9~rc3-2_i386.deb 53a1d40aa366a3a6a1dd49ed63bd616012df3a93888a7780080e0c32a70b98fc 143220 libghmm1_0.9~rc3-2_i386.deb Files: 09f160d4692b42bcabebe6368e357a98 8896 debug optional ghmm-dbgsym_0.9~rc3-2_i386.deb 85078703bcd489367de8e79c18282463 6996 science optional ghmm_0.9~rc3-2_i386.buildinfo d8440209874a1ce54c72fefa89d5c6b1 6476 science optional ghmm_0.9~rc3-2_i386.deb 6ae4a47f1f11a96db9c125bcb15588d5 190548 libdevel optional libghmm-dev_0.9~rc3-2_i386.deb 7ac2d979b07e77f72baead2c27c4b546 296160 debug optional libghmm1-dbgsym_0.9~rc3-2_i386.deb 2f2b56ba9cbc12d94e82c5fd3425be5e 143220 libs optional libghmm1_0.9~rc3-2_i386.deb Sun Nov 15 01:14:17 UTC 2020 I: diffoscope 161 will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/ghmm_0.9~rc3-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/ghmm_0.9~rc3-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/ghmm_0.9~rc3-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/b1/ghmm_0.9~rc3-2_i386.changes /srv/reproducible-results/rbuild-debian/tmp.dqQkeM6RwV/b2/ghmm_0.9~rc3-2_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: 1.043s) 1.043s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.028s) 0.028s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Sun Nov 15 01:14:19 UTC 2020 I: diffoscope 161 found no differences in the changes files, and a .buildinfo file also exists. Sun Nov 15 01:14:19 UTC 2020 I: ghmm from buster built successfully and reproducibly on i386. Sun Nov 15 01:14:20 UTC 2020 I: Submitting .buildinfo files to external archives: Sun Nov 15 01:14:20 UTC 2020 I: Submitting 8.0K b1/ghmm_0.9~rc3-2_i386.buildinfo.asc Sun Nov 15 01:14:21 UTC 2020 I: Submitting 8.0K b2/ghmm_0.9~rc3-2_i386.buildinfo.asc Sun Nov 15 01:14:22 UTC 2020 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Sun Nov 15 01:14:22 UTC 2020 I: Done submitting .buildinfo files. Sun Nov 15 01:14:22 UTC 2020 I: Removing signed ghmm_0.9~rc3-2_i386.buildinfo.asc files: removed './b1/ghmm_0.9~rc3-2_i386.buildinfo.asc' removed './b2/ghmm_0.9~rc3-2_i386.buildinfo.asc'