Wed Dec 29 16:45:39 UTC 2021 I: starting to build libvcflib/bullseye/amd64 on jenkins on '2021-12-29 16:45' Wed Dec 29 16:45:39 UTC 2021 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_30/47692/console.log Wed Dec 29 16:45:39 UTC 2021 I: Downloading source for bullseye/libvcflib=1.0.2+dfsg-2 --2021-12-29 16:45:39-- http://cdn-fastly.deb.debian.org/debian/pool/main/libv/libvcflib/libvcflib_1.0.2%2bdfsg-2.dsc Connecting to 78.137.99.97:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2322 (2.3K) Saving to: ‘libvcflib_1.0.2+dfsg-2.dsc’ 0K .. 100% 18.8M=0s 2021-12-29 16:45:39 (18.8 MB/s) - ‘libvcflib_1.0.2+dfsg-2.dsc’ saved [2322/2322] Wed Dec 29 16:45:39 UTC 2021 I: libvcflib_1.0.2+dfsg-2.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: libvcflib Binary: libvcflib1, libvcflib-dev, libvcflib-tools Architecture: any Version: 1.0.2+dfsg-2 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille Homepage: https://github.com/vcflib/vcflib Standards-Version: 4.5.1 Vcs-Browser: https://salsa.debian.org/med-team/libvcflib Vcs-Git: https://salsa.debian.org/med-team/libvcflib.git Testsuite: autopkgtest Build-Depends: debhelper-compat (= 13), cmake, markdown , libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libgtest-dev Package-List: libvcflib-dev deb libdevel optional arch=any libvcflib-tools deb science optional arch=any libvcflib1 deb libs optional arch=any Checksums-Sha1: d7f3ffe909a1b9aeb405807c1f260b8b31ba01d5 7565940 libvcflib_1.0.2+dfsg.orig.tar.xz 8cf996b5662c5b50d4638e4584802005ad124ff3 9228 libvcflib_1.0.2+dfsg-2.debian.tar.xz Checksums-Sha256: 922bcb38ce670de70b7d95a261bab6f711f0fd0ee3d5f5465316664af656d125 7565940 libvcflib_1.0.2+dfsg.orig.tar.xz 06e86dd9979cc908092be05017be148d6d0573e6727aad55f92e1290a5a23a4d 9228 libvcflib_1.0.2+dfsg-2.debian.tar.xz Files: 86b5165ce85341fc4748d3226715b9a9 7565940 libvcflib_1.0.2+dfsg.orig.tar.xz c075fed8412c633240f206eb05f65db3 9228 libvcflib_1.0.2+dfsg-2.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEck1gkzcRPHEFUNdHPCZ2P2xn5uIFAmASqDEACgkQPCZ2P2xn 5uIoOhAAwp95JO3ZOUXK3BBR/QDp+Ipkm+ZGGP8vswv3fvDD1DZblGiwTnwDQpty yoYgy1OBSLNSItWD8pXqAmrWWH3bt6zT01D35UxDwTwXOb1Ore/CPLbM68xtZZpZ 7Z9Hlx8UV4Zlm8qP3fD3R72N0EdDBxRf2+gBS6cji3TJNfpxFzZF1iPsQk0VV7MA 5OhnNtm4RkByft5PQmha/LkzgEzi6jN3K18G4Nqva4nMUWLAITsOwT5UWmH5yMwa CZmUE9owfeH69Vsa1vTh3BE5NlkEQDrCazIaz2FcKCebIlLRq2trEDuO+Z3Rc4E9 dFGg1ee//VGIEB1QFCU8JOJnLDNCQp9MR7XB6RD1UTpiV4mLpQXCjjSajrV3lOlO EBPHw0UfleggQ4LslZRnHY/eRGE9dccBJI0RvcAfpOdav00tPkSX7ZZHhlw19Dp4 lSYmPpV1Lef7lEn83ZpneVsTVfavE6MFVPOiONsgpSf0Nhzc3cQ0ylylmQte0B+R CUTs/I4fGNZMinsq2NEwMD9/+sKl4JNyxxvXqR+hh0GV2dPdc3Nxd0Fj96b9lAhr 0rx09Q+HgEvv2bjhuu3EqrDReu5ny/fvtRBQpcnaw0jLhp3fBr4lvJ9pyMT0fby2 J7XoUszkDxQkjTumy4ivDDbQWnSGrT8jgysEHjyCAD+4rM5eQ10= =ZUPm -----END PGP SIGNATURE----- Wed Dec 29 16:45:39 UTC 2021 I: Checking whether the package is not for us Wed Dec 29 16:45:39 UTC 2021 I: Starting 1st build on remote node ionos5-amd64.debian.net. Wed Dec 29 16:45:39 UTC 2021 I: Preparing to do remote build '1' on ionos5-amd64.debian.net. Wed Dec 29 16:48:05 UTC 2021 I: Deleting $TMPDIR on ionos5-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Tue Jan 31 11:08:41 -12 2023 I: pbuilder-time-stamp: 1675206521 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/bullseye-reproducible-base.tgz] I: copying local configuration I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [libvcflib_1.0.2+dfsg-2.dsc] I: copying [./libvcflib_1.0.2+dfsg.orig.tar.xz] I: copying [./libvcflib_1.0.2+dfsg-2.debian.tar.xz] I: Extracting source gpgv: unknown type of key resource 'trustedkeys.kbx' gpgv: keyblock resource '/tmp/dpkg-verify-sig.Kqyn2lcs/trustedkeys.kbx': General error gpgv: Signature made Thu Jan 28 00:04:01 2021 -12 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: failed to verify signature on ./libvcflib_1.0.2+dfsg-2.dsc dpkg-source: info: extracting libvcflib in libvcflib-1.0.2+dfsg dpkg-source: info: unpacking libvcflib_1.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking libvcflib_1.0.2+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling dpkg-source: info: applying no_fsom dpkg-source: info: applying use_debian_packaged_smithwaterman.patch dpkg-source: info: applying use_debian_packaged_fastahack.patch dpkg-source: info: applying use_debian_packaged_libssw.patch dpkg-source: info: applying shared_lib.patch dpkg-source: info: applying pkg-config.patch dpkg-source: info: applying hardening-flags dpkg-source: info: applying tabix_linking dpkg-source: info: applying tests I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/3605696/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='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all,-fixfilepath parallel=16' DISTRIBUTION='' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='e5af9c3758f64a0ab980a57896d48b44' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='3605696' 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.xd6uW2oBOf/pbuilderrc_QB7N --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bullseye-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/b1 --logfile b1/build.log libvcflib_1.0.2+dfsg-2.dsc' SUDO_GID='110' SUDO_UID='105' 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 ionos5-amd64 5.14.0-0.bpo.2-amd64 #1 SMP Debian 5.14.9-2~bpo11+1 (2021-10-10) x86_64 GNU/Linux I: ls -l /bin total 5476 -rwxr-xr-x 1 root root 1234376 Aug 4 2021 bash -rwxr-xr-x 3 root root 38984 Jul 20 2020 bunzip2 -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzcat lrwxrwxrwx 1 root root 6 Jul 20 2020 bzcmp -> bzdiff -rwxr-xr-x 1 root root 2225 Jul 20 2020 bzdiff lrwxrwxrwx 1 root root 6 Jul 20 2020 bzegrep -> bzgrep -rwxr-xr-x 1 root root 4877 Sep 4 2019 bzexe lrwxrwxrwx 1 root root 6 Jul 20 2020 bzfgrep -> bzgrep -rwxr-xr-x 1 root root 3775 Jul 20 2020 bzgrep -rwxr-xr-x 3 root root 38984 Jul 20 2020 bzip2 -rwxr-xr-x 1 root root 18424 Jul 20 2020 bzip2recover lrwxrwxrwx 1 root root 6 Jul 20 2020 bzless -> bzmore -rwxr-xr-x 1 root root 1297 Jul 20 2020 bzmore -rwxr-xr-x 1 root root 43936 Sep 23 2020 cat -rwxr-xr-x 1 root root 72672 Sep 23 2020 chgrp -rwxr-xr-x 1 root root 64448 Sep 23 2020 chmod -rwxr-xr-x 1 root root 72672 Sep 23 2020 chown -rwxr-xr-x 1 root root 151168 Sep 23 2020 cp -rwxr-xr-x 1 root root 125560 Dec 10 2020 dash -rwxr-xr-x 1 root root 113664 Sep 23 2020 date -rwxr-xr-x 1 root root 80968 Sep 23 2020 dd -rwxr-xr-x 1 root root 93936 Sep 23 2020 df -rwxr-xr-x 1 root root 147176 Sep 23 2020 dir -rwxr-xr-x 1 root root 84440 Jul 28 2021 dmesg lrwxrwxrwx 1 root root 8 Nov 6 2019 dnsdomainname -> hostname lrwxrwxrwx 1 root root 8 Nov 6 2019 domainname -> hostname -rwxr-xr-x 1 root root 39712 Sep 23 2020 echo -rwxr-xr-x 1 root root 28 Nov 9 2020 egrep -rwxr-xr-x 1 root root 39680 Sep 23 2020 false -rwxr-xr-x 1 root root 28 Nov 9 2020 fgrep -rwxr-xr-x 1 root root 69032 Jul 28 2021 findmnt -rwsr-xr-x 1 root root 34896 Feb 26 2021 fusermount -rwxr-xr-x 1 root root 203072 Nov 9 2020 grep -rwxr-xr-x 2 root root 2346 Mar 2 2021 gunzip -rwxr-xr-x 1 root root 6376 Mar 2 2021 gzexe -rwxr-xr-x 1 root root 98048 Mar 2 2021 gzip -rwxr-xr-x 1 root root 22600 Nov 6 2019 hostname -rwxr-xr-x 1 root root 72840 Sep 23 2020 ln -rwxr-xr-x 1 root root 56952 Feb 7 2020 login -rwxr-xr-x 1 root root 147176 Sep 23 2020 ls -rwxr-xr-x 1 root root 149736 Jul 28 2021 lsblk -rwxr-xr-x 1 root root 85184 Sep 23 2020 mkdir -rwxr-xr-x 1 root root 76896 Sep 23 2020 mknod -rwxr-xr-x 1 root root 48064 Sep 23 2020 mktemp -rwxr-xr-x 1 root root 59632 Jul 28 2021 more -rwsr-xr-x 1 root root 55528 Jul 28 2021 mount -rwxr-xr-x 1 root root 18664 Jul 28 2021 mountpoint -rwxr-xr-x 1 root root 147080 Sep 23 2020 mv lrwxrwxrwx 1 root root 8 Nov 6 2019 nisdomainname -> hostname lrwxrwxrwx 1 root root 14 Apr 18 2021 pidof -> /sbin/killall5 -rwxr-xr-x 1 root root 43872 Sep 23 2020 pwd lrwxrwxrwx 1 root root 4 Aug 4 2021 rbash -> bash -rwxr-xr-x 1 root root 52032 Sep 23 2020 readlink -rwxr-xr-x 1 root root 72704 Sep 23 2020 rm -rwxr-xr-x 1 root root 52032 Sep 23 2020 rmdir -rwxr-xr-x 1 root root 27472 Sep 27 2020 run-parts -rwxr-xr-x 1 root root 122224 Dec 22 2018 sed lrwxrwxrwx 1 root root 4 Jan 23 03:47 sh -> dash -rwxr-xr-x 1 root root 43808 Sep 23 2020 sleep -rwxr-xr-x 1 root root 84928 Sep 23 2020 stty -rwsr-xr-x 1 root root 71912 Jul 28 2021 su -rwxr-xr-x 1 root root 39744 Sep 23 2020 sync -rwxr-xr-x 1 root root 531928 Feb 16 2021 tar -rwxr-xr-x 1 root root 14456 Sep 27 2020 tempfile -rwxr-xr-x 1 root root 101408 Sep 23 2020 touch -rwxr-xr-x 1 root root 39680 Sep 23 2020 true -rwxr-xr-x 1 root root 14328 Feb 26 2021 ulockmgr_server -rwsr-xr-x 1 root root 35040 Jul 28 2021 umount -rwxr-xr-x 1 root root 39744 Sep 23 2020 uname -rwxr-xr-x 2 root root 2346 Mar 2 2021 uncompress -rwxr-xr-x 1 root root 147176 Sep 23 2020 vdir -rwxr-xr-x 1 root root 63744 Jul 28 2021 wdctl lrwxrwxrwx 1 root root 8 Nov 6 2019 ypdomainname -> hostname -rwxr-xr-x 1 root root 1984 Mar 2 2021 zcat -rwxr-xr-x 1 root root 1678 Mar 2 2021 zcmp -rwxr-xr-x 1 root root 5880 Mar 2 2021 zdiff -rwxr-xr-x 1 root root 29 Mar 2 2021 zegrep -rwxr-xr-x 1 root root 29 Mar 2 2021 zfgrep -rwxr-xr-x 1 root root 2081 Mar 2 2021 zforce -rwxr-xr-x 1 root root 7585 Mar 2 2021 zgrep -rwxr-xr-x 1 root root 2206 Mar 2 2021 zless -rwxr-xr-x 1 root root 1842 Mar 2 2021 zmore -rwxr-xr-x 1 root root 4553 Mar 2 2021 znew I: user script /srv/workspace/pbuilder/3605696/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: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), cmake, markdown, libtabixpp-dev, libbz2-dev, libdisorder-dev, libsmithwaterman-dev (>= 0.0+20160702-2), libssw-dev, libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~), pkg-config, libgtest-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on cmake; however: Package cmake is not installed. pbuilder-satisfydepends-dummy depends on markdown; however: Package markdown is not installed. pbuilder-satisfydepends-dummy depends on libtabixpp-dev; however: Package libtabixpp-dev is not installed. pbuilder-satisfydepends-dummy depends on libbz2-dev; however: Package libbz2-dev is not installed. pbuilder-satisfydepends-dummy depends on libdisorder-dev; however: Package libdisorder-dev is not installed. pbuilder-satisfydepends-dummy depends on libsmithwaterman-dev (>= 0.0+20160702-2); however: Package libsmithwaterman-dev is not installed. pbuilder-satisfydepends-dummy depends on libssw-dev; however: Package libssw-dev is not installed. pbuilder-satisfydepends-dummy depends on libfastahack-dev (>= 0.0+git20160702.bbc645f+dfsg-5~); however: Package libfastahack-dev is not installed. pbuilder-satisfydepends-dummy depends on pkg-config; however: Package pkg-config is not installed. pbuilder-satisfydepends-dummy depends on libgtest-dev; however: Package libgtest-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} cmake{a} cmake-data{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} gettext{a} gettext-base{a} googletest{a} groff-base{a} intltool-debian{a} libarchive-zip-perl{a} libarchive13{a} libbrotli1{a} libbz2-dev{a} libcurl3-gnutls{a} libcurl4{a} libcurl4-gnutls-dev{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdisorder-dev{a} libdisorder0{a} libelf1{a} libexpat1{a} libfastahack-dev{a} libfastahack0{a} libfile-stripnondeterminism-perl{a} libglib2.0-0{a} libgtest-dev{a} libhts-dev{a} libhts3{a} libicu67{a} libjsoncpp24{a} libldap-2.4-2{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{a} libncurses6{a} libnghttp2-14{a} libpipeline1{a} libprocps8{a} libpsl5{a} librhash0{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsigsegv2{a} libsmithwaterman-dev{a} libsmithwaterman0{a} libssh2-1{a} libssw-dev{a} libssw0{a} libsub-override-perl{a} libtabixpp-dev{a} libtabixpp0{a} libtool{a} libuchardet0{a} libuv1{a} libxml2{a} m4{a} man-db{a} markdown{a} pkg-config{a} po-debconf{a} procps{a} sensible-utils{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc ca-certificates curl libarchive-cpio-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libsasl2-modules lynx psmisc publicsuffix shared-mime-info wget xdg-user-dirs 0 packages upgraded, 74 newly installed, 0 to remove and 0 not upgraded. Need to get 36.5 MB of archives. After unpacking 129 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian bullseye/main amd64 bsdextrautils amd64 2.36.1-8 [145 kB] Get: 2 http://deb.debian.org/debian bullseye/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB] Get: 3 http://deb.debian.org/debian bullseye/main amd64 groff-base amd64 1.22.4-6 [936 kB] Get: 4 http://deb.debian.org/debian bullseye/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB] Get: 5 http://deb.debian.org/debian bullseye/main amd64 man-db amd64 2.9.4-2 [1354 kB] Get: 6 http://deb.debian.org/debian bullseye/main amd64 libncurses6 amd64 6.2+20201114-2 [102 kB] Get: 7 http://deb.debian.org/debian bullseye/main amd64 libprocps8 amd64 2:3.3.17-5 [63.9 kB] Get: 8 http://deb.debian.org/debian bullseye/main amd64 procps amd64 2:3.3.17-5 [502 kB] Get: 9 http://deb.debian.org/debian bullseye/main amd64 sensible-utils all 0.0.14 [14.8 kB] Get: 10 http://deb.debian.org/debian bullseye/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB] Get: 11 http://deb.debian.org/debian bullseye/main amd64 libmagic1 amd64 1:5.39-3 [126 kB] Get: 12 http://deb.debian.org/debian bullseye/main amd64 file amd64 1:5.39-3 [69.1 kB] Get: 13 http://deb.debian.org/debian bullseye/main amd64 gettext-base amd64 0.21-4 [175 kB] Get: 14 http://deb.debian.org/debian bullseye/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB] Get: 15 http://deb.debian.org/debian bullseye/main amd64 m4 amd64 1.4.18-5 [204 kB] Get: 16 http://deb.debian.org/debian bullseye/main amd64 autoconf all 2.69-14 [313 kB] Get: 17 http://deb.debian.org/debian bullseye/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB] Get: 18 http://deb.debian.org/debian bullseye/main amd64 automake all 1:1.16.3-2 [814 kB] Get: 19 http://deb.debian.org/debian bullseye/main amd64 autopoint all 0.21-4 [510 kB] Get: 20 http://deb.debian.org/debian bullseye/main amd64 cmake-data all 3.18.4-2+deb11u1 [1725 kB] Get: 21 http://deb.debian.org/debian bullseye/main amd64 libicu67 amd64 67.1-7 [8622 kB] Get: 22 http://deb.debian.org/debian bullseye/main amd64 libxml2 amd64 2.9.10+dfsg-6.7 [693 kB] Get: 23 http://deb.debian.org/debian bullseye/main amd64 libarchive13 amd64 3.4.3-2+b1 [343 kB] Get: 24 http://deb.debian.org/debian bullseye/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB] Get: 25 http://deb.debian.org/debian bullseye/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB] Get: 26 http://deb.debian.org/debian bullseye/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB] Get: 27 http://deb.debian.org/debian bullseye/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-3 [232 kB] Get: 28 http://deb.debian.org/debian bullseye/main amd64 libnghttp2-14 amd64 1.43.0-1 [77.1 kB] Get: 29 http://deb.debian.org/debian bullseye/main amd64 libpsl5 amd64 0.21.0-1.2 [57.3 kB] Get: 30 http://deb.debian.org/debian bullseye/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b2 [60.8 kB] Get: 31 http://deb.debian.org/debian bullseye/main amd64 libssh2-1 amd64 1.9.0-2 [156 kB] Get: 32 http://deb.debian.org/debian bullseye/main amd64 libcurl4 amd64 7.74.0-1.3+deb11u1 [341 kB] Get: 33 http://deb.debian.org/debian bullseye/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB] Get: 34 http://deb.debian.org/debian bullseye/main amd64 libjsoncpp24 amd64 1.9.4-4 [78.9 kB] Get: 35 http://deb.debian.org/debian bullseye/main amd64 librhash0 amd64 1.4.1-2 [129 kB] Get: 36 http://deb.debian.org/debian bullseye/main amd64 libuv1 amd64 1.40.0-2 [132 kB] Get: 37 http://deb.debian.org/debian bullseye/main amd64 cmake amd64 3.18.4-2+deb11u1 [5593 kB] Get: 38 http://deb.debian.org/debian bullseye/main amd64 libdebhelper-perl all 13.3.4 [189 kB] Get: 39 http://deb.debian.org/debian bullseye/main amd64 libtool all 2.4.6-15 [513 kB] Get: 40 http://deb.debian.org/debian bullseye/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 41 http://deb.debian.org/debian bullseye/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 42 http://deb.debian.org/debian bullseye/main amd64 libsub-override-perl all 0.09-2 [10.2 kB] Get: 43 http://deb.debian.org/debian bullseye/main amd64 libfile-stripnondeterminism-perl all 1.12.0-1 [26.3 kB] Get: 44 http://deb.debian.org/debian bullseye/main amd64 dh-strip-nondeterminism all 1.12.0-1 [15.4 kB] Get: 45 http://deb.debian.org/debian bullseye/main amd64 libelf1 amd64 0.183-1 [165 kB] Get: 46 http://deb.debian.org/debian bullseye/main amd64 dwz amd64 0.13+20210201-1 [175 kB] Get: 47 http://deb.debian.org/debian bullseye/main amd64 gettext amd64 0.21-4 [1311 kB] Get: 48 http://deb.debian.org/debian bullseye/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB] Get: 49 http://deb.debian.org/debian bullseye/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 50 http://deb.debian.org/debian bullseye/main amd64 debhelper all 13.3.4 [1049 kB] Get: 51 http://deb.debian.org/debian bullseye/main amd64 googletest all 1.10.0.20201025-1.1 [629 kB] Get: 52 http://deb.debian.org/debian bullseye/main amd64 libbz2-dev amd64 1.0.8-4 [30.1 kB] Get: 53 http://deb.debian.org/debian bullseye/main amd64 libcurl3-gnutls amd64 7.74.0-1.3+deb11u1 [338 kB] Get: 54 http://deb.debian.org/debian bullseye/main amd64 libcurl4-gnutls-dev amd64 7.74.0-1.3+deb11u1 [429 kB] Get: 55 http://deb.debian.org/debian bullseye/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB] Get: 56 http://deb.debian.org/debian bullseye/main amd64 libdeflate-dev amd64 1.7-1 [46.9 kB] Get: 57 http://deb.debian.org/debian bullseye/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-2 [4344 B] Get: 58 http://deb.debian.org/debian bullseye/main amd64 libdisorder-dev amd64 0.0.2+git20130809.8062ee1-2 [4348 B] Get: 59 http://deb.debian.org/debian bullseye/main amd64 libfastahack0 amd64 1.0.0+dfsg-7 [25.6 kB] Get: 60 http://deb.debian.org/debian bullseye/main amd64 libfastahack-dev amd64 1.0.0+dfsg-7 [27.0 kB] Get: 61 http://deb.debian.org/debian bullseye/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB] Get: 62 http://deb.debian.org/debian bullseye/main amd64 libgtest-dev amd64 1.10.0.20201025-1.1 [226 kB] Get: 63 http://deb.debian.org/debian bullseye/main amd64 libhts3 amd64 1.11-4 [378 kB] Get: 64 http://deb.debian.org/debian bullseye/main amd64 liblzma-dev amd64 5.2.5-2 [229 kB] Get: 65 http://deb.debian.org/debian bullseye/main amd64 zlib1g-dev amd64 1:1.2.11.dfsg-2 [190 kB] Get: 66 http://deb.debian.org/debian bullseye/main amd64 libhts-dev amd64 1.11-4 [3858 kB] Get: 67 http://deb.debian.org/debian bullseye/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-11 [36.2 kB] Get: 68 http://deb.debian.org/debian bullseye/main amd64 libsmithwaterman-dev amd64 0.0+git20160702.2610e25-11 [39.1 kB] Get: 69 http://deb.debian.org/debian bullseye/main amd64 libssw0 amd64 1.1-13 [19.7 kB] Get: 70 http://deb.debian.org/debian bullseye/main amd64 libssw-dev amd64 1.1-13 [22.4 kB] Get: 71 http://deb.debian.org/debian bullseye/main amd64 libtabixpp0 amd64 1.1.0-4 [9200 B] Get: 72 http://deb.debian.org/debian bullseye/main amd64 libtabixpp-dev amd64 1.1.0-4 [8288 B] Get: 73 http://deb.debian.org/debian bullseye/main amd64 markdown all 1.0.1-10.1 [17.5 kB] Get: 74 http://deb.debian.org/debian bullseye/main amd64 pkg-config amd64 0.29.2-1 [65.1 kB] Fetched 36.5 MB in 1s (70.4 MB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package bsdextrautils. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 19655 files and directories currently installed.) Preparing to unpack .../00-bsdextrautils_2.36.1-8_amd64.deb ... Unpacking bsdextrautils (2.36.1-8) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../01-libuchardet0_0.0.7-1_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.7-1) ... Selecting previously unselected package groff-base. Preparing to unpack .../02-groff-base_1.22.4-6_amd64.deb ... Unpacking groff-base (1.22.4-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../03-libpipeline1_1.5.3-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.3-1) ... Selecting previously unselected package man-db. Preparing to unpack .../04-man-db_2.9.4-2_amd64.deb ... Unpacking man-db (2.9.4-2) ... Selecting previously unselected package libncurses6:amd64. Preparing to unpack .../05-libncurses6_6.2+20201114-2_amd64.deb ... Unpacking libncurses6:amd64 (6.2+20201114-2) ... Selecting previously unselected package libprocps8:amd64. Preparing to unpack .../06-libprocps8_2%3a3.3.17-5_amd64.deb ... Unpacking libprocps8:amd64 (2:3.3.17-5) ... Selecting previously unselected package procps. Preparing to unpack .../07-procps_2%3a3.3.17-5_amd64.deb ... Unpacking procps (2:3.3.17-5) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../08-sensible-utils_0.0.14_all.deb ... Unpacking sensible-utils (0.0.14) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../09-libmagic-mgc_1%3a5.39-3_amd64.deb ... Unpacking libmagic-mgc (1:5.39-3) ... Selecting previously unselected package libmagic1:amd64. Preparing to unpack .../10-libmagic1_1%3a5.39-3_amd64.deb ... Unpacking libmagic1:amd64 (1:5.39-3) ... Selecting previously unselected package file. Preparing to unpack .../11-file_1%3a5.39-3_amd64.deb ... Unpacking file (1:5.39-3) ... Selecting previously unselected package gettext-base. Preparing to unpack .../12-gettext-base_0.21-4_amd64.deb ... Unpacking gettext-base (0.21-4) ... Selecting previously unselected package libsigsegv2:amd64. Preparing to unpack .../13-libsigsegv2_2.13-1_amd64.deb ... Unpacking libsigsegv2:amd64 (2.13-1) ... Selecting previously unselected package m4. Preparing to unpack .../14-m4_1.4.18-5_amd64.deb ... Unpacking m4 (1.4.18-5) ... Selecting previously unselected package autoconf. Preparing to unpack .../15-autoconf_2.69-14_all.deb ... 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Selecting previously unselected package libarchive13:amd64. Preparing to unpack .../22-libarchive13_3.4.3-2+b1_amd64.deb ... Unpacking libarchive13:amd64 (3.4.3-2+b1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../23-libbrotli1_1.0.9-2+b2_amd64.deb ... Unpacking libbrotli1:amd64 (1.0.9-2+b2) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../24-libsasl2-modules-db_2.1.27+dfsg-2.1_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../25-libsasl2-2_2.1.27+dfsg-2.1_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Selecting previously unselected package libldap-2.4-2:amd64. Preparing to unpack .../26-libldap-2.4-2_2.4.57+dfsg-3_amd64.deb ... Unpacking libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Selecting previously unselected package libnghttp2-14:amd64. Preparing to unpack .../27-libnghttp2-14_1.43.0-1_amd64.deb ... Unpacking libnghttp2-14:amd64 (1.43.0-1) ... Selecting previously unselected package libpsl5:amd64. Preparing to unpack .../28-libpsl5_0.21.0-1.2_amd64.deb ... Unpacking libpsl5:amd64 (0.21.0-1.2) ... Selecting previously unselected package librtmp1:amd64. Preparing to unpack .../29-librtmp1_2.4+20151223.gitfa8646d.1-2+b2_amd64.deb ... Unpacking librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Selecting previously unselected package libssh2-1:amd64. Preparing to unpack .../30-libssh2-1_1.9.0-2_amd64.deb ... Unpacking libssh2-1:amd64 (1.9.0-2) ... Selecting previously unselected package libcurl4:amd64. Preparing to unpack .../31-libcurl4_7.74.0-1.3+deb11u1_amd64.deb ... Unpacking libcurl4:amd64 (7.74.0-1.3+deb11u1) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../32-libexpat1_2.2.10-2_amd64.deb ... Unpacking libexpat1:amd64 (2.2.10-2) ... Selecting previously unselected package libjsoncpp24:amd64. Preparing to unpack .../33-libjsoncpp24_1.9.4-4_amd64.deb ... Unpacking libjsoncpp24:amd64 (1.9.4-4) ... Selecting previously unselected package librhash0:amd64. Preparing to unpack .../34-librhash0_1.4.1-2_amd64.deb ... Unpacking librhash0:amd64 (1.4.1-2) ... Selecting previously unselected package libuv1:amd64. Preparing to unpack .../35-libuv1_1.40.0-2_amd64.deb ... Unpacking libuv1:amd64 (1.40.0-2) ... Selecting previously unselected package cmake. Preparing to unpack .../36-cmake_3.18.4-2+deb11u1_amd64.deb ... Unpacking cmake (3.18.4-2+deb11u1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../37-libdebhelper-perl_13.3.4_all.deb ... Unpacking libdebhelper-perl (13.3.4) ... Selecting previously unselected package libtool. Preparing to unpack .../38-libtool_2.4.6-15_all.deb ... Unpacking libtool (2.4.6-15) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../39-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../40-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libsub-override-perl. Preparing to unpack .../41-libsub-override-perl_0.09-2_all.deb ... Unpacking libsub-override-perl (0.09-2) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../42-libfile-stripnondeterminism-perl_1.12.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.12.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../43-dh-strip-nondeterminism_1.12.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.12.0-1) ... Selecting previously unselected package libelf1:amd64. Preparing to unpack .../44-libelf1_0.183-1_amd64.deb ... Unpacking libelf1:amd64 (0.183-1) ... Selecting previously unselected package dwz. Preparing to unpack .../45-dwz_0.13+20210201-1_amd64.deb ... Unpacking dwz (0.13+20210201-1) ... Selecting previously unselected package gettext. Preparing to unpack .../46-gettext_0.21-4_amd64.deb ... Unpacking gettext (0.21-4) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../47-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 .../48-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../49-debhelper_13.3.4_all.deb ... Unpacking debhelper (13.3.4) ... Selecting previously unselected package googletest. Preparing to unpack .../50-googletest_1.10.0.20201025-1.1_all.deb ... Unpacking googletest (1.10.0.20201025-1.1) ... Selecting previously unselected package libbz2-dev:amd64. Preparing to unpack .../51-libbz2-dev_1.0.8-4_amd64.deb ... Unpacking libbz2-dev:amd64 (1.0.8-4) ... Selecting previously unselected package libcurl3-gnutls:amd64. Preparing to unpack .../52-libcurl3-gnutls_7.74.0-1.3+deb11u1_amd64.deb ... Unpacking libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u1) ... Selecting previously unselected package libcurl4-gnutls-dev:amd64. Preparing to unpack .../53-libcurl4-gnutls-dev_7.74.0-1.3+deb11u1_amd64.deb ... Unpacking libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u1) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../54-libdeflate0_1.7-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.7-1) ... Selecting previously unselected package libdeflate-dev:amd64. Preparing to unpack .../55-libdeflate-dev_1.7-1_amd64.deb ... Unpacking libdeflate-dev:amd64 (1.7-1) ... Selecting previously unselected package libdisorder0:amd64. Preparing to unpack .../56-libdisorder0_0.0.2+git20130809.8062ee1-2_amd64.deb ... Unpacking libdisorder0:amd64 (0.0.2+git20130809.8062ee1-2) ... Selecting previously unselected package libdisorder-dev:amd64. Preparing to unpack .../57-libdisorder-dev_0.0.2+git20130809.8062ee1-2_amd64.deb ... Unpacking libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-2) ... Selecting previously unselected package libfastahack0. Preparing to unpack .../58-libfastahack0_1.0.0+dfsg-7_amd64.deb ... Unpacking libfastahack0 (1.0.0+dfsg-7) ... Selecting previously unselected package libfastahack-dev. Preparing to unpack .../59-libfastahack-dev_1.0.0+dfsg-7_amd64.deb ... Unpacking libfastahack-dev (1.0.0+dfsg-7) ... Selecting previously unselected package libglib2.0-0:amd64. Preparing to unpack .../60-libglib2.0-0_2.66.8-1_amd64.deb ... Unpacking libglib2.0-0:amd64 (2.66.8-1) ... Selecting previously unselected package libgtest-dev:amd64. Preparing to unpack .../61-libgtest-dev_1.10.0.20201025-1.1_amd64.deb ... Unpacking libgtest-dev:amd64 (1.10.0.20201025-1.1) ... Selecting previously unselected package libhts3:amd64. Preparing to unpack .../62-libhts3_1.11-4_amd64.deb ... Unpacking libhts3:amd64 (1.11-4) ... Selecting previously unselected package liblzma-dev:amd64. Preparing to unpack .../63-liblzma-dev_5.2.5-2_amd64.deb ... Unpacking liblzma-dev:amd64 (5.2.5-2) ... Selecting previously unselected package zlib1g-dev:amd64. Preparing to unpack .../64-zlib1g-dev_1%3a1.2.11.dfsg-2_amd64.deb ... Unpacking zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Selecting previously unselected package libhts-dev:amd64. Preparing to unpack .../65-libhts-dev_1.11-4_amd64.deb ... Unpacking libhts-dev:amd64 (1.11-4) ... Selecting previously unselected package libsmithwaterman0. Preparing to unpack .../66-libsmithwaterman0_0.0+git20160702.2610e25-11_amd64.deb ... Unpacking libsmithwaterman0 (0.0+git20160702.2610e25-11) ... Selecting previously unselected package libsmithwaterman-dev. Preparing to unpack .../67-libsmithwaterman-dev_0.0+git20160702.2610e25-11_amd64.deb ... Unpacking libsmithwaterman-dev (0.0+git20160702.2610e25-11) ... Selecting previously unselected package libssw0:amd64. Preparing to unpack .../68-libssw0_1.1-13_amd64.deb ... Unpacking libssw0:amd64 (1.1-13) ... Selecting previously unselected package libssw-dev:amd64. Preparing to unpack .../69-libssw-dev_1.1-13_amd64.deb ... Unpacking libssw-dev:amd64 (1.1-13) ... Selecting previously unselected package libtabixpp0:amd64. Preparing to unpack .../70-libtabixpp0_1.1.0-4_amd64.deb ... Unpacking libtabixpp0:amd64 (1.1.0-4) ... Selecting previously unselected package libtabixpp-dev:amd64. Preparing to unpack .../71-libtabixpp-dev_1.1.0-4_amd64.deb ... Unpacking libtabixpp-dev:amd64 (1.1.0-4) ... Selecting previously unselected package markdown. Preparing to unpack .../72-markdown_1.0.1-10.1_all.deb ... Unpacking markdown (1.0.1-10.1) ... Selecting previously unselected package pkg-config. Preparing to unpack .../73-pkg-config_0.29.2-1_amd64.deb ... Unpacking pkg-config (0.29.2-1) ... Setting up libexpat1:amd64 (2.2.10-2) ... Setting up libpipeline1:amd64 (1.5.3-1) ... Setting up libdisorder0:amd64 (0.0.2+git20130809.8062ee1-2) ... Setting up libpsl5:amd64 (0.21.0-1.2) ... Setting up bsdextrautils (2.36.1-8) ... update-alternatives: using /usr/bin/write.ul to provide /usr/bin/write (write) in auto mode Setting up libicu67:amd64 (67.1-7) ... Setting up libmagic-mgc (1:5.39-3) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglib2.0-0:amd64 (2.66.8-1) ... No schema files found: doing nothing. Setting up libdebhelper-perl (13.3.4) ... Setting up libbrotli1:amd64 (1.0.9-2+b2) ... Setting up libsmithwaterman0 (0.0+git20160702.2610e25-11) ... Setting up libnghttp2-14:amd64 (1.43.0-1) ... Setting up libmagic1:amd64 (1:5.39-3) ... Setting up libdeflate0:amd64 (1.7-1) ... Setting up gettext-base (0.21-4) ... Setting up file (1:5.39-3) ... Setting up googletest (1.10.0.20201025-1.1) ... Setting up libfastahack0 (1.0.0+dfsg-7) ... Setting up libsasl2-modules-db:amd64 (2.1.27+dfsg-2.1) ... Setting up libfastahack-dev (1.0.0+dfsg-7) ... Setting up autotools-dev (20180224.1+nmu1) ... Setting up libuv1:amd64 (1.40.0-2) ... Setting up librtmp1:amd64 (2.4+20151223.gitfa8646d.1-2+b2) ... Setting up libncurses6:amd64 (6.2+20201114-2) ... Setting up libsigsegv2:amd64 (2.13-1) ... Setting up autopoint (0.21-4) ... Setting up pkg-config (0.29.2-1) ... Setting up libdisorder-dev:amd64 (0.0.2+git20130809.8062ee1-2) ... Setting up libsasl2-2:amd64 (2.1.27+dfsg-2.1) ... Setting up libjsoncpp24:amd64 (1.9.4-4) ... Setting up liblzma-dev:amd64 (5.2.5-2) ... Setting up zlib1g-dev:amd64 (1:1.2.11.dfsg-2) ... Setting up sensible-utils (0.0.14) ... Setting up librhash0:amd64 (1.4.1-2) ... Setting up libuchardet0:amd64 (0.0.7-1) ... Setting up libsub-override-perl (0.09-2) ... Setting up libssh2-1:amd64 (1.9.0-2) ... Setting up cmake-data (3.18.4-2+deb11u1) ... Setting up libdeflate-dev:amd64 (1.7-1) ... Setting up libelf1:amd64 (0.183-1) ... Setting up libssw0:amd64 (1.1-13) ... Setting up libxml2:amd64 (2.9.10+dfsg-6.7) ... Setting up libprocps8:amd64 (2:3.3.17-5) ... Setting up markdown (1.0.1-10.1) ... Setting up libbz2-dev:amd64 (1.0.8-4) ... Setting up libfile-stripnondeterminism-perl (1.12.0-1) ... Setting up gettext (0.21-4) ... Setting up libgtest-dev:amd64 (1.10.0.20201025-1.1) ... Setting up libssw-dev:amd64 (1.1-13) ... Setting up libtool (2.4.6-15) ... Setting up libarchive13:amd64 (3.4.3-2+b1) ... Setting up libldap-2.4-2:amd64 (2.4.57+dfsg-3) ... Setting up m4 (1.4.18-5) ... Setting up libcurl3-gnutls:amd64 (7.74.0-1.3+deb11u1) ... Setting up libcurl4-gnutls-dev:amd64 (7.74.0-1.3+deb11u1) ... Setting up intltool-debian (0.35.0+20060710.5) ... Setting up libsmithwaterman-dev (0.0+git20160702.2610e25-11) ... Setting up autoconf (2.69-14) ... Setting up dh-strip-nondeterminism (1.12.0-1) ... Setting up dwz (0.13+20210201-1) ... Setting up groff-base (1.22.4-6) ... Setting up procps (2:3.3.17-5) ... Setting up libcurl4:amd64 (7.74.0-1.3+deb11u1) ... Setting up automake (1:1.16.3-2) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up libhts3:amd64 (1.11-4) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhts-dev:amd64 (1.11-4) ... Setting up man-db (2.9.4-2) ... Not building database; man-db/auto-update is not 'true'. Setting up dh-autoreconf (20) ... Setting up libtabixpp0:amd64 (1.1.0-4) ... Setting up cmake (3.18.4-2+deb11u1) ... Setting up debhelper (13.3.4) ... Setting up libtabixpp-dev:amd64 (1.1.0-4) ... Processing triggers for libc-bin (2.31-13+deb11u2) ... Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/libvcflib-1.0.2+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../libvcflib_1.0.2+dfsg-2_source.changes dpkg-buildpackage: info: source package libvcflib dpkg-buildpackage: info: source version 1.0.2+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Michael R. Crusoe dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem cmake debian/rules override_dh_auto_clean make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_auto_clean || true make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' dh_autoreconf_clean -O--buildsystem=cmake debian/rules override_dh_clean make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_clean find . -name "*.o" -delete rm -f README.html make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' debian/rules binary dh binary --buildsystem cmake dh_update_autotools_config -O--buildsystem=cmake dh_autoreconf -O--buildsystem=cmake debian/rules override_dh_auto_configure make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_auto_configure -- -DOPENMP=ON cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu -DOPENMP=ON .. -- The C compiler identification is GNU 10.2.1 -- The CXX compiler identification is GNU 10.2.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/cc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Found PkgConfig: /usr/bin/pkg-config (found version "0.29.2") -- Found BZip2: /usr/lib/x86_64-linux-gnu/libbz2.so (found version "1.0.8") -- Looking for BZ2_bzCompressInit -- Looking for BZ2_bzCompressInit - found -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_auto_decoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_easy_encoder in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so -- Looking for lzma_lzma_preset in /usr/lib/x86_64-linux-gnu/liblzma.so - found -- Found LibLZMA: /usr/lib/x86_64-linux-gnu/liblzma.so (found version "5.2.5") -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- -- Looking for pthread.h -- Looking for pthread.h - found -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed -- Looking for pthread_create in pthreads -- Looking for pthread_create in pthreads - not found -- Looking for pthread_create in pthread -- Looking for pthread_create in pthread - found -- Found Threads: TRUE -- Checking for module 'htslib' -- Found htslib, version 1.11-4 -- Checking for module 'tabixpp' -- No package 'tabixpp' found -- Checking for module 'libsmithwaterman' -- Found libsmithwaterman, version 0.0 -- Checking for module 'libfastahack' -- Found libfastahack, version 0.0 -- Found OpenMP_C: -fopenmp (found version "4.5") -- Found OpenMP_CXX: -fopenmp (found version "4.5") -- Found OpenMP: TRUE (found version "4.5") Pandoc needs to be installed to generate the man pages -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_auto_build cd obj-x86_64-linux-gnu && make -j16 "INSTALL=install --strip-program=true" VERBOSE=1 make[2]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/libvcflib-1.0.2+dfsg -B/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu//CMakeFiles/progress.marks make -f CMakeFiles/Makefile2 all make[3]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflib.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflib.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflib.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflib.dir/depend.internal". Scanning dependencies of target vcflib make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcflib.dir/build.make CMakeFiles/vcflib.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 0%] Building CXX object CMakeFiles/vcflib.dir/src/pdflib.cpp.o [ 1%] Building CXX object CMakeFiles/vcflib.dir/src/rnglib.cpp.o [ 1%] Building CXX object CMakeFiles/vcflib.dir/src/Variant.cpp.o [ 2%] Building CXX object CMakeFiles/vcflib.dir/src/cdflib.cpp.o [ 3%] Building C object CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o [ 4%] Building CXX object CMakeFiles/vcflib.dir/src/var.cpp.o [ 4%] Building CXX object CMakeFiles/vcflib.dir/src/split.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -Dvcflib_EXPORTS -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -o CMakeFiles/vcflib.dir/src/Variant.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/Variant.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -Dvcflib_EXPORTS -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -o CMakeFiles/vcflib.dir/src/rnglib.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/rnglib.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -Dvcflib_EXPORTS -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -o CMakeFiles/vcflib.dir/src/var.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/var.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -Dvcflib_EXPORTS -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 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-I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -fPIC -o CMakeFiles/vcflib.dir/src/split.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/split.cpp /usr/bin/cc -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -Dvcflib_EXPORTS -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -o CMakeFiles/vcflib.dir/filevercmp/filevercmp.c.o -c /build/libvcflib-1.0.2+dfsg/filevercmp/filevercmp.c [ 5%] Linking CXX shared 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cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfo2qual.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfqual2info.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsample2info.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2dag.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcombine.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfevenregions.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/depend make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/depend make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/depend make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfbreakmulti.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsitesummarize.dir/DependInfo.cmake --color= make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfleftalign.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2dag.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2dag.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2dag.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2alleles.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglbound.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglbound.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglbound.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcombine.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcombine.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcombine.dir/depend.internal". Scanning dependencies of target vcf2dag make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremap.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/depend Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosamplenames.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsample2info.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsample2info.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsample2info.dir/depend.internal". make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/depend Scanning dependencies of target vcfgeno2alleles Scanning dependencies of target vcfcombine Scanning dependencies of target vcfglbound Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfo2qual.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfo2qual.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfo2qual.dir/depend.internal". make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstreamsort.dir/DependInfo.cmake --color= Scanning dependencies of target vcfgenosamplenames Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfqual2info.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfqual2info.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfqual2info.dir/depend.internal". Scanning dependencies of target vcfsample2info Scanning dependencies of target vcfinfo2qual Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfleftalign.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfleftalign.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfleftalign.dir/depend.internal". make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfqual2info Scanning dependencies of target vcfleftalign Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfevenregions.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfevenregions.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfevenregions.dir/depend.internal". make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfroc.dir/DependInfo.cmake --color= make -f CMakeFiles/vcfglbound.dir/build.make CMakeFiles/vcfglbound.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfqual2info.dir/build.make CMakeFiles/vcfqual2info.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfevenregions make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfinfo2qual.dir/build.make CMakeFiles/vcfinfo2qual.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstreamsort.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstreamsort.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstreamsort.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfbreakmulti.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfbreakmulti.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfbreakmulti.dir/depend.internal". make -f CMakeFiles/vcfsample2info.dir/build.make CMakeFiles/vcfsample2info.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfstreamsort Scanning dependencies of target vcfbreakmulti make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremap.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremap.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremap.dir/depend.internal". make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcf2dag.dir/build.make CMakeFiles/vcf2dag.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfgeno2alleles.dir/build.make CMakeFiles/vcfgeno2alleles.dir/build Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsitesummarize.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsitesummarize.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsitesummarize.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfroc.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfroc.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfroc.dir/depend.internal". Scanning dependencies of target vcfremap make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfsitesummarize make -f CMakeFiles/vcfcombine.dir/build.make CMakeFiles/vcfcombine.dir/build [ 6%] Building CXX object CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o Scanning dependencies of target vcfroc make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfgenosamplenames.dir/build.make CMakeFiles/vcfgenosamplenames.dir/build make -f CMakeFiles/vcfevenregions.dir/build.make CMakeFiles/vcfevenregions.dir/build [ 6%] Building CXX object CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o make -f CMakeFiles/vcfbreakmulti.dir/build.make CMakeFiles/vcfbreakmulti.dir/build make -f CMakeFiles/vcfleftalign.dir/build.make CMakeFiles/vcfleftalign.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfsitesummarize.dir/build.make CMakeFiles/vcfsitesummarize.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfremap.dir/build.make CMakeFiles/vcfremap.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfstreamsort.dir/build.make CMakeFiles/vcfstreamsort.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfroc.dir/build.make CMakeFiles/vcfroc.dir/build [ 6%] Building CXX object CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfqual2info.cpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfglbound.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfinfo2qual.cpp [ 7%] Building CXX object CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o [ 8%] Building CXX object CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o [ 9%] Building CXX object CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfsample2info.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcf2dag.cpp [ 10%] Building CXX object CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/depend [ 10%] Building CXX object CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o [ 11%] Building CXX object CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfgeno2alleles.cpp [ 11%] Building CXX object CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfgenosamplenames.cpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2tsv.dir/DependInfo.cmake --color= [ 11%] Building CXX object CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o [ 12%] Building CXX object CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o [ 12%] Building CXX object CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfbreakmulti.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfsitesummarize.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcombine.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfleftalign.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfstreamsort.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfevenregions.cpp [ 12%] Building CXX object CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfremap.cpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2tsv.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2tsv.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2tsv.dir/depend.internal". Scanning dependencies of target vcf2tsv make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcf2tsv.dir/build.make CMakeFiles/vcf2tsv.dir/build [ 13%] Building CXX object CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfroc.cpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 14%] Building CXX object CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcf2tsv.cpp [ 15%] Linking CXX executable vcfinfo2qual /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfo2qual.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfinfo2qual.dir/src/vcfinfo2qual.cpp.o -o vcfinfo2qual -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 16%] Linking CXX executable vcfglbound /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglbound.dir/link.txt --verbose=1 [ 16%] Linking CXX executable vcfgeno2alleles /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2alleles.dir/link.txt --verbose=1 [ 16%] Linking CXX executable vcfgenosamplenames /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfglbound.dir/src/vcfglbound.cpp.o -o vcfglbound -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosamplenames.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgeno2alleles.dir/src/vcfgeno2alleles.cpp.o -o vcfgeno2alleles -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenosamplenames.dir/src/vcfgenosamplenames.cpp.o -o vcfgenosamplenames -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 16%] Built target vcfinfo2qual make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhethomratio.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhethomratio.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhethomratio.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhethomratio.dir/depend.internal". Scanning dependencies of target vcfhethomratio make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfhethomratio.dir/build.make CMakeFiles/vcfhethomratio.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 17%] Building CXX object CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfhethomratio.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 17%] Linking CXX executable vcfqual2info [ 17%] Built target vcfglbound /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfqual2info.dir/link.txt --verbose=1 make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/meltEHH.dir/DependInfo.cmake --color= [ 17%] Built target vcfgeno2alleles make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/depend /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfqual2info.dir/src/vcfqual2info.cpp.o -o vcfqual2info -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/meltEHH.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/meltEHH.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/meltEHH.dir/depend.internal". Scanning dependencies of target meltEHH make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/meltEHH.dir/build.make CMakeFiles/meltEHH.dir/build Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfallelicprimitives.dir/depend.internal". make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfallelicprimitives make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfallelicprimitives.dir/build.make CMakeFiles/vcfallelicprimitives.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 18%] Building CXX object CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/meltEHH.cpp [ 19%] Building CXX object CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfallelicprimitives.cpp [ 19%] Built target vcfgenosamplenames make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniq.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniq.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniq.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniq.dir/depend.internal". Scanning dependencies of target vcfuniq make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfuniq.dir/build.make CMakeFiles/vcfuniq.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 20%] Linking CXX executable vcfsitesummarize /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsitesummarize.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsitesummarize.dir/src/vcfsitesummarize.cpp.o -o vcfsitesummarize -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 21%] Building CXX object CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfuniq.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 21%] Built target vcfqual2info make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhetcount.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhetcount.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhetcount.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfhetcount.dir/depend.internal". Scanning dependencies of target vcfhetcount make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfhetcount.dir/build.make CMakeFiles/vcfhetcount.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 22%] Building CXX object CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfhetcount.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 22%] Built target vcfsitesummarize make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcommonsamples.dir/DependInfo.cmake --color= [ 22%] Linking CXX executable vcfevenregions /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfevenregions.dir/link.txt --verbose=1 Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcommonsamples.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcommonsamples.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcommonsamples.dir/depend.internal". Scanning dependencies of target vcfcommonsamples make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcommonsamples.dir/build.make CMakeFiles/vcfcommonsamples.dir/build /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfevenregions.dir/src/vcfevenregions.cpp.o -o vcfevenregions -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 23%] Building CXX object CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcommonsamples.cpp [ 23%] Linking CXX executable vcfsample2info /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsample2info.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsample2info.dir/src/vcfsample2info.cpp.o -o vcfsample2info -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 23%] Built target vcfevenregions make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfindex.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfindex.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfindex.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfindex.dir/depend.internal". Scanning dependencies of target vcfindex make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfindex.dir/build.make CMakeFiles/vcfindex.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 24%] Building CXX object CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfindex.cpp [ 25%] Linking CXX executable vcfbreakmulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfbreakmulti.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfbreakmulti.dir/src/vcfbreakmulti.cpp.o -o vcfbreakmulti -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 25%] Built target vcfsample2info make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteGPAT++.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteGPAT++.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteGPAT++.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteGPAT++.dir/depend.internal". Scanning dependencies of target permuteGPAT++ make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/permuteGPAT++.dir/build.make CMakeFiles/permuteGPAT++.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 26%] Building CXX object CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o [ 27%] Linking CXX executable vcf2tsv /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/permuteGPAT++.cpp /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2tsv.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2tsv.dir/src/vcf2tsv.cpp.o -o vcf2tsv -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 27%] Built target vcfbreakmulti make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/abba-baba.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/abba-baba.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/abba-baba.dir/depend.internal". 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Scanning dependencies of target abba-baba make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/abba-baba.dir/build.make CMakeFiles/abba-baba.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 27%] Building CXX object CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/abba-baba.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 27%] Built target vcf2tsv make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniqalleles.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniqalleles.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniqalleles.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfuniqalleles.dir/depend.internal". Scanning dependencies of target vcfuniqalleles make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfuniqalleles.dir/build.make CMakeFiles/vcfuniqalleles.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 28%] Building CXX object CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfuniqalleles.cpp [ 28%] Linking CXX executable vcfuniq /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniq.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfuniq.dir/src/vcfuniq.cpp.o -o vcfuniq -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 28%] Built target vcfuniq make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfld.dir/DependInfo.cmake --color= [ 28%] Linking CXX executable permuteGPAT++ /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteGPAT++.dir/link.txt --verbose=1 Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfld.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfld.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfld.dir/depend.internal". /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/permuteGPAT++.dir/src/permuteGPAT++.cpp.o -o permuteGPAT++ -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp Scanning dependencies of target vcfld make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfld.dir/build.make CMakeFiles/vcfld.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 29%] Building CXX object CMakeFiles/vcfld.dir/src/vcfld.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfld.dir/src/vcfld.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfld.cpp [ 30%] Linking CXX executable vcfstreamsort /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstreamsort.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfstreamsort.dir/src/vcfstreamsort.cpp.o -o vcfstreamsort -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 30%] Built target permuteGPAT++ make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2fasta.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2fasta.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2fasta.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcf2fasta.dir/depend.internal". Scanning dependencies of target vcf2fasta make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcf2fasta.dir/build.make CMakeFiles/vcf2fasta.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 31%] Building CXX object CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcf2fasta.cpp [ 32%] Linking CXX executable vcfremap /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremap.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremap.dir/src/vcfremap.cpp.o -o vcfremap -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 32%] Linking CXX executable vcfcombine /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcombine.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcombine.dir/src/vcfcombine.cpp.o -o vcfcombine -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 32%] Built target vcfstreamsort make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/plotHaps.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/plotHaps.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/plotHaps.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/plotHaps.dir/depend.internal". Scanning dependencies of target plotHaps make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/plotHaps.dir/build.make CMakeFiles/plotHaps.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 33%] Building CXX object CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/plotHaps.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 33%] Built target vcfremap make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentFst.dir/DependInfo.cmake --color= [ 34%] Linking CXX executable vcfleftalign Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentFst.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentFst.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentFst.dir/depend.internal". Scanning dependencies of target segmentFst /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfleftalign.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/segmentFst.dir/build.make CMakeFiles/segmentFst.dir/build /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfleftalign.dir/src/vcfleftalign.cpp.o -o vcfleftalign -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 34%] Building CXX object CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/segmentFst.cpp [ 35%] Linking CXX executable vcfcommonsamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcommonsamples.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcommonsamples.dir/src/vcfcommonsamples.cpp.o -o vcfcommonsamples -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 35%] Built target vcfcombine make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffixup.dir/DependInfo.cmake --color= [ 35%] Linking CXX executable vcfhetcount /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhetcount.dir/link.txt --verbose=1 Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffixup.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffixup.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffixup.dir/depend.internal". Scanning dependencies of target vcffixup make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcffixup.dir/build.make CMakeFiles/vcffixup.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfhetcount.dir/src/vcfhetcount.cpp.o -o vcfhetcount -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 35%] Building CXX object CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcffixup.cpp [ 35%] Linking CXX executable vcfhethomratio /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfhethomratio.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfhethomratio.dir/src/vcfhethomratio.cpp.o -o vcfhethomratio -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 35%] Built target vcfcommonsamples make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pVst.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pVst.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pVst.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pVst.dir/depend.internal". Scanning dependencies of target pVst make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/pVst.dir/build.make CMakeFiles/pVst.dir/build [ 35%] Built target vcfleftalign make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcheck.dir/DependInfo.cmake --color= [ 35%] Building CXX object CMakeFiles/pVst.dir/src/pVst.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/pVst.dir/src/pVst.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/pVst.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcheck.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcheck.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcheck.dir/depend.internal". Scanning dependencies of target vcfcheck make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcheck.dir/build.make CMakeFiles/vcfcheck.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 35%] Built target vcfhetcount make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaltcount.dir/DependInfo.cmake --color= [ 35%] Building CXX object CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcheck.cpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaltcount.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaltcount.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaltcount.dir/depend.internal". Scanning dependencies of target vcfaltcount make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfaltcount.dir/build.make CMakeFiles/vcfaltcount.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 36%] Building CXX object CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfaltcount.cpp [ 36%] Built target vcfhethomratio make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/DependInfo.cmake --color= [ 37%] Linking CXX executable vcfindex /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfindex.dir/link.txt --verbose=1 Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/dumpContigsFromHeader.dir/depend.internal". /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfindex.dir/src/vcfindex.cpp.o -o vcfindex -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp Scanning dependencies of target dumpContigsFromHeader make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/dumpContigsFromHeader.dir/build.make CMakeFiles/dumpContigsFromHeader.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 37%] Building CXX object CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/dumpContigsFromHeader.cpp [ 37%] Linking CXX executable vcf2dag /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2dag.dir/link.txt --verbose=1 [ 37%] Linking CXX executable vcfuniqalleles /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2dag.dir/src/vcf2dag.cpp.o -o vcf2dag -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfuniqalleles.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfuniqalleles.dir/src/vcfuniqalleles.cpp.o -o vcfuniqalleles -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 37%] Built target vcfindex make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pFst.dir/DependInfo.cmake --color= [ 37%] Built target vcfuniqalleles make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/popStats.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pFst.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pFst.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/pFst.dir/depend.internal". Scanning dependencies of target pFst make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/pFst.dir/build.make CMakeFiles/pFst.dir/build Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/popStats.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/popStats.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/popStats.dir/depend.internal". Scanning dependencies of target popStats make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/popStats.dir/build.make CMakeFiles/popStats.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 37%] Building CXX object CMakeFiles/pFst.dir/src/pFst.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/pFst.dir/src/pFst.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/pFst.cpp [ 38%] Building CXX object CMakeFiles/popStats.dir/src/popStats.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/popStats.dir/src/popStats.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/popStats.cpp [ 38%] Built target vcf2dag make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcreatemulti.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcreatemulti.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcreatemulti.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcreatemulti.dir/depend.internal". Scanning dependencies of target vcfcreatemulti make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcreatemulti.dir/build.make CMakeFiles/vcfcreatemulti.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 39%] Linking CXX executable segmentFst /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentFst.dir/link.txt --verbose=1 [ 39%] Building CXX object CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcreatemulti.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/segmentFst.dir/src/segmentFst.cpp.o -o segmentFst -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 39%] Built target segmentFst make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandomsample.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandomsample.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandomsample.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandomsample.dir/depend.internal". Scanning dependencies of target vcfrandomsample make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfrandomsample.dir/build.make CMakeFiles/vcfrandomsample.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 40%] Building CXX object CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfrandomsample.cpp [ 41%] Linking CXX executable meltEHH /usr/bin/cmake -E cmake_link_script CMakeFiles/meltEHH.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/meltEHH.dir/src/meltEHH.cpp.o -o meltEHH -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 42%] Linking CXX executable abba-baba /usr/bin/cmake -E cmake_link_script CMakeFiles/abba-baba.dir/link.txt --verbose=1 [ 42%] Built target meltEHH make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/abba-baba.dir/src/abba-baba.cpp.o -o abba-baba -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotategenotypes.dir/depend.internal". Scanning dependencies of target vcfannotategenotypes make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfannotategenotypes.dir/build.make CMakeFiles/vcfannotategenotypes.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 43%] Building CXX object CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfannotategenotypes.cpp [ 44%] Linking CXX executable dumpContigsFromHeader /usr/bin/cmake -E cmake_link_script CMakeFiles/dumpContigsFromHeader.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/dumpContigsFromHeader.dir/src/dumpContigsFromHeader.cpp.o -o dumpContigsFromHeader -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 44%] Built target abba-baba make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/bFst.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/bFst.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/bFst.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/bFst.dir/depend.internal". Scanning dependencies of target bFst make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/bFst.dir/build.make CMakeFiles/bFst.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 44%] Building CXX object CMakeFiles/bFst.dir/src/bFst.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/bFst.dir/src/bFst.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/bFst.cpp [ 45%] Linking CXX executable vcfcheck /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcheck.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcheck.dir/src/vcfcheck.cpp.o -o vcfcheck -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 45%] Built target dumpContigsFromHeader make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/normalize-iHS.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/normalize-iHS.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/normalize-iHS.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/normalize-iHS.dir/depend.internal". Scanning dependencies of target normalize-iHS make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/normalize-iHS.dir/build.make CMakeFiles/normalize-iHS.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 45%] Building CXX object CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/normalize-iHS.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 45%] Built target vcfcheck make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/sequenceDiversity.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/sequenceDiversity.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/sequenceDiversity.dir/depend.internal". Scanning dependencies of target sequenceDiversity make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/sequenceDiversity.dir/build.make CMakeFiles/sequenceDiversity.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 45%] Building CXX object CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/sequenceDiversity.cpp [ 45%] Linking CXX executable vcfaltcount /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfaltcount.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfaltcount.dir/src/vcfaltcount.cpp.o -o vcfaltcount -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 46%] Linking CXX executable vcffixup /usr/bin/cmake -E cmake_link_script CMakeFiles/vcffixup.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcffixup.dir/src/vcffixup.cpp.o -o vcffixup -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 46%] Built target vcffixup make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentIhs.dir/DependInfo.cmake --color= [ 46%] Built target vcfaltcount make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/hapLrt.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/hapLrt.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/hapLrt.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/hapLrt.dir/depend.internal". Scanning dependencies of target hapLrt make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/hapLrt.dir/build.make CMakeFiles/hapLrt.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentIhs.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentIhs.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/segmentIhs.dir/depend.internal". Scanning dependencies of target segmentIhs [ 47%] Building CXX object CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/hapLrt.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/segmentIhs.dir/build.make CMakeFiles/segmentIhs.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 47%] Building CXX object CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/segmentIhs.cpp [ 47%] Linking CXX executable vcf2fasta /usr/bin/cmake -E cmake_link_script CMakeFiles/vcf2fasta.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcf2fasta.dir/src/vcf2fasta.cpp.o -o vcf2fasta -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 47%] Linking CXX executable plotHaps /usr/bin/cmake -E cmake_link_script CMakeFiles/plotHaps.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/plotHaps.dir/src/plotHaps.cpp.o -o plotHaps -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 48%] Linking CXX executable normalize-iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/normalize-iHS.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/normalize-iHS.dir/src/normalize-iHS.cpp.o -o normalize-iHS -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 48%] Built target vcf2fasta make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/wcFst.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/wcFst.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/wcFst.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/wcFst.dir/depend.internal". Scanning dependencies of target wcFst make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/wcFst.dir/build.make CMakeFiles/wcFst.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 49%] Building CXX object CMakeFiles/wcFst.dir/src/wcFst.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/wcFst.dir/src/wcFst.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/wcFst.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target plotHaps make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/depend make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffilter.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffilter.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffilter.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcffilter.dir/depend.internal". Scanning dependencies of target vcffilter make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcffilter.dir/build.make CMakeFiles/vcffilter.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 49%] Built target normalize-iHS make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandom.dir/DependInfo.cmake --color= [ 50%] Building CXX object CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandom.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandom.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfrandom.dir/depend.internal". Scanning dependencies of target vcfrandom /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcffilter.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfrandom.dir/build.make CMakeFiles/vcfrandom.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 51%] Building CXX object CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfrandom.cpp [ 52%] Linking CXX executable vcfcreatemulti /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcreatemulti.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcreatemulti.dir/src/vcfcreatemulti.cpp.o -o vcfcreatemulti -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 53%] Linking CXX executable segmentIhs /usr/bin/cmake -E cmake_link_script CMakeFiles/segmentIhs.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/segmentIhs.dir/src/segmentIhs.cpp.o -o segmentIhs -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 54%] Linking CXX executable vcfld /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfld.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfld.dir/src/vcfld.cpp.o -o vcfld -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 54%] Built target segmentIhs make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteSmooth.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteSmooth.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteSmooth.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/permuteSmooth.dir/depend.internal". Scanning dependencies of target permuteSmooth make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/permuteSmooth.dir/build.make CMakeFiles/permuteSmooth.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 55%] Building CXX object CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/permuteSmooth.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 56%] Linking CXX executable vcfrandomsample /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandomsample.dir/link.txt --verbose=1 [ 56%] Built target vcfcreatemulti make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/genotypeSummary.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfrandomsample.dir/src/vcfrandomsample.cpp.o -o vcfrandomsample -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/genotypeSummary.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/genotypeSummary.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/genotypeSummary.dir/depend.internal". [ 57%] Linking CXX executable popStats Scanning dependencies of target genotypeSummary /usr/bin/cmake -E cmake_link_script CMakeFiles/popStats.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/genotypeSummary.dir/build.make CMakeFiles/genotypeSummary.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/popStats.dir/src/popStats.cpp.o -o popStats -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 57%] Built target vcfld [ 58%] Building CXX object CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/depend /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/genotypeSummary.cpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfecho.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfecho.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfecho.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfecho.dir/depend.internal". Scanning dependencies of target vcfecho make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfecho.dir/build.make CMakeFiles/vcfecho.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 59%] Building CXX object CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfecho.cpp [ 60%] Linking CXX executable pFst /usr/bin/cmake -E cmake_link_script CMakeFiles/pFst.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/pFst.dir/src/pFst.cpp.o -o pFst -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 60%] Built target popStats make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfclassify.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfclassify.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfclassify.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfclassify.dir/depend.internal". Scanning dependencies of target vcfclassify make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfclassify.dir/build.make CMakeFiles/vcfclassify.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 61%] Building CXX object CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o [ 61%] Built target vcfrandomsample /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfclassify.cpp make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremovesamples.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremovesamples.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremovesamples.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremovesamples.dir/depend.internal". Scanning dependencies of target vcfremovesamples make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfremovesamples.dir/build.make CMakeFiles/vcfremovesamples.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 61%] Building CXX object CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfremovesamples.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 61%] Built target pFst make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfentropy.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfentropy.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfentropy.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfentropy.dir/depend.internal". Scanning dependencies of target vcfentropy make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfentropy.dir/build.make CMakeFiles/vcfentropy.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 62%] Building CXX object CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfentropy.cpp [ 62%] Linking CXX executable permuteSmooth /usr/bin/cmake -E cmake_link_script CMakeFiles/permuteSmooth.dir/link.txt --verbose=1 [ 63%] Linking CXX executable bFst /usr/bin/cmake -E cmake_link_script CMakeFiles/bFst.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/permuteSmooth.dir/src/permuteSmooth.cpp.o -o permuteSmooth -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/bFst.dir/src/bFst.cpp.o -o bFst -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 63%] Built target permuteSmooth make -f CMakeFiles/vcfkeepsamples.dir/build.make CMakeFiles/vcfkeepsamples.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepsamples.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepsamples.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepsamples.dir/depend.internal". 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Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsamplenames.dir/depend.internal". Scanning dependencies of target vcfsamplenames make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfsamplenames.dir/build.make CMakeFiles/vcfsamplenames.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 65%] Building CXX object CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfsamplenames.cpp [ 65%] Linking CXX executable vcfecho /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfecho.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfecho.dir/src/vcfecho.cpp.o -o vcfecho -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target vcfecho make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfosummarize.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfosummarize.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfosummarize.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfinfosummarize.dir/depend.internal". Scanning dependencies of target vcfinfosummarize make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfinfosummarize.dir/build.make CMakeFiles/vcfinfosummarize.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 65%] Building CXX object CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfinfosummarize.cpp [ 65%] Linking CXX executable vcfclassify /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfclassify.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfclassify.dir/src/vcfclassify.cpp.o -o vcfclassify -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 65%] Linking CXX executable vcfallelicprimitives /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfallelicprimitives.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfallelicprimitives.dir/src/vcfallelicprimitives.cpp.o -o vcfallelicprimitives -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 65%] Built target vcfclassify make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypecompare.dir/depend.internal". Scanning dependencies of target vcfgenotypecompare make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfgenotypecompare.dir/build.make CMakeFiles/vcfgenotypecompare.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 65%] Building CXX object CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfgenotypecompare.cpp [ 66%] Linking CXX executable vcfremovesamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremovesamples.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremovesamples.dir/src/vcfremovesamples.cpp.o -o vcfremovesamples -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 66%] Linking CXX executable vcfentropy /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfentropy.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfentropy.dir/src/vcfentropy.cpp.o -o vcfentropy -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 66%] Linking CXX executable vcfrandom /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfrandom.dir/link.txt --verbose=1 make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfrandom.dir/src/vcfrandom.cpp.o -o vcfrandom -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 66%] Built target vcfallelicprimitives make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgeno2haplo.dir/depend.internal". Scanning dependencies of target vcfgeno2haplo make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfgeno2haplo.dir/build.make CMakeFiles/vcfgeno2haplo.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 67%] Building CXX object CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfgeno2haplo.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 67%] Built target vcfremovesamples make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsamplediff.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsamplediff.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsamplediff.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfsamplediff.dir/depend.internal". Scanning dependencies of target vcfsamplediff make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfsamplediff.dir/build.make CMakeFiles/vcfsamplediff.dir/build [ 67%] Built target vcfentropy make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 68%] Linking CXX executable pVst /usr/bin/cmake -E cmake_link_script CMakeFiles/pVst.dir/link.txt --verbose=1 make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/depend [ 69%] Building CXX object CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfsamplediff.cpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/DependInfo.cmake --color= [ 69%] Built target vcfrandom /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/pVst.dir/src/pVst.cpp.o -o pVst -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfparsealts.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfremoveaberrantgenotypes.dir/depend.internal". Scanning dependencies of target vcfremoveaberrantgenotypes make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfremoveaberrantgenotypes.dir/build.make CMakeFiles/vcfremoveaberrantgenotypes.dir/build Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfparsealts.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfparsealts.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfparsealts.dir/depend.internal". make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 70%] Linking CXX executable vcfsamplenames /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplenames.dir/link.txt --verbose=1 Scanning dependencies of target vcfparsealts make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfparsealts.dir/build.make CMakeFiles/vcfparsealts.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsamplenames.dir/src/vcfsamplenames.cpp.o -o vcfsamplenames -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 70%] Building CXX object CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o [ 70%] Building CXX object CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfremoveaberrantgenotypes.cpp /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfparsealts.cpp [ 71%] Linking CXX executable sequenceDiversity /usr/bin/cmake -E cmake_link_script CMakeFiles/sequenceDiversity.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/sequenceDiversity.dir/src/sequenceDiversity.cpp.o -o sequenceDiversity -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 71%] Built target vcfsamplenames make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfafpath.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfafpath.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfafpath.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfafpath.dir/depend.internal". Scanning dependencies of target vcfafpath make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfafpath.dir/build.make CMakeFiles/vcfafpath.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 71%] Linking CXX executable hapLrt /usr/bin/cmake -E cmake_link_script CMakeFiles/hapLrt.dir/link.txt --verbose=1 make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/hapLrt.dir/src/hapLrt.cpp.o -o hapLrt -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 71%] Building CXX object CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o [ 71%] Built target pVst /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfafpath.cpp make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstats.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstats.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstats.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfstats.dir/depend.internal". make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfstats make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfstats.dir/build.make CMakeFiles/vcfstats.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 71%] Built target sequenceDiversity make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfflatten.dir/DependInfo.cmake --color= [ 71%] Building CXX object CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfstats.cpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfflatten.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfflatten.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfflatten.dir/depend.internal". Scanning dependencies of target vcfflatten make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfflatten.dir/build.make CMakeFiles/vcfflatten.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 71%] Building CXX object CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfflatten.cpp [ 71%] Built target hapLrt make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfprimers.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfprimers.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfprimers.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfprimers.dir/depend.internal". Scanning dependencies of target vcfprimers make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfprimers.dir/build.make CMakeFiles/vcfprimers.dir/build [ 71%] Linking CXX executable vcfkeepsamples /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepsamples.dir/link.txt --verbose=1 make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepsamples.dir/src/vcfkeepsamples.cpp.o -o vcfkeepsamples -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 72%] Building CXX object CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfprimers.cpp [ 73%] Linking CXX executable vcfannotategenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotategenotypes.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfannotategenotypes.dir/src/vcfannotategenotypes.cpp.o -o vcfannotategenotypes -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 73%] Built target vcfkeepsamples make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/iHS.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/iHS.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/iHS.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/iHS.dir/depend.internal". Scanning dependencies of target iHS make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/iHS.dir/build.make CMakeFiles/iHS.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object CMakeFiles/iHS.dir/src/iHS.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/iHS.dir/src/iHS.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/iHS.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 74%] Built target vcfannotategenotypes make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfnumalt.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfnumalt.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfnumalt.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfnumalt.dir/depend.internal". Scanning dependencies of target vcfnumalt make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfnumalt.dir/build.make CMakeFiles/vcfnumalt.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 74%] Building CXX object CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfnumalt.cpp [ 75%] Linking CXX executable vcffilter /usr/bin/cmake -E cmake_link_script CMakeFiles/vcffilter.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcffilter.dir/src/vcffilter.cpp.o -o vcffilter -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 75%] Linking CXX executable genotypeSummary /usr/bin/cmake -E cmake_link_script CMakeFiles/genotypeSummary.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/genotypeSummary.dir/src/genotypeSummary.cpp.o -o genotypeSummary -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 75%] Linking CXX executable vcfroc /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfroc.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfroc.dir/src/vcfroc.cpp.o -o vcfroc -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 75%] Built target vcffilter make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypes.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypes.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypes.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenotypes.dir/depend.internal". Scanning dependencies of target vcfgenotypes make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfgenotypes.dir/build.make CMakeFiles/vcfgenotypes.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 75%] Building CXX object CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfgenotypes.dir/src/vcfgenotypes.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfgenotypes.cpp [ 76%] Linking CXX executable wcFst /usr/bin/cmake -E cmake_link_script CMakeFiles/wcFst.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/wcFst.dir/src/wcFst.cpp.o -o wcFst -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 76%] Built target vcfroc make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 77%] Linking CXX executable vcfinfosummarize Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcountalleles.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcountalleles.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcountalleles.dir/depend.internal". /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfinfosummarize.dir/link.txt --verbose=1 Scanning dependencies of target vcfcountalleles make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcountalleles.dir/build.make CMakeFiles/vcfcountalleles.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 77%] Built target genotypeSummary /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfinfosummarize.dir/src/vcfinfosummarize.cpp.o -o vcfinfosummarize -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcat.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcat.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcat.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcat.dir/depend.internal". Scanning dependencies of target vcfcat make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcat.dir/build.make CMakeFiles/vcfcat.dir/build [ 77%] Building CXX object CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcountalleles.cpp [ 78%] Linking CXX executable vcfparsealts /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfparsealts.dir/link.txt --verbose=1 [ 78%] Building CXX object CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcat.cpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfparsealts.dir/src/vcfparsealts.cpp.o -o vcfparsealts -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 78%] Built target vcfparsealts [ 78%] Built target wcFst make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcleancomplex.dir/DependInfo.cmake --color= make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/smoother.dir/DependInfo.cmake --color= [ 78%] Built target vcfinfosummarize make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfintersect.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/smoother.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/smoother.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/smoother.dir/depend.internal". Scanning dependencies of target smoother Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcleancomplex.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcleancomplex.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfcleancomplex.dir/depend.internal". Scanning dependencies of target vcfcleancomplex make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/smoother.dir/build.make CMakeFiles/smoother.dir/build make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfcleancomplex.dir/build.make CMakeFiles/vcfcleancomplex.dir/build Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfintersect.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfintersect.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfintersect.dir/depend.internal". make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Scanning dependencies of target vcfintersect make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfintersect.dir/build.make CMakeFiles/vcfintersect.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 79%] Building CXX object CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfcleancomplex.cpp [ 80%] Building CXX object CMakeFiles/smoother.dir/src/smoother.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/smoother.dir/src/smoother.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/smoother.cpp [ 80%] Building CXX object CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfintersect.cpp [ 80%] Linking CXX executable vcfsamplediff /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfsamplediff.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfsamplediff.dir/src/vcfsamplediff.cpp.o -o vcfsamplediff -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 81%] Linking CXX executable vcfremoveaberrantgenotypes /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfremoveaberrantgenotypes.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfremoveaberrantgenotypes.dir/src/vcfremoveaberrantgenotypes.cpp.o -o vcfremoveaberrantgenotypes -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 81%] Built target vcfsamplediff make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotate.dir/DependInfo.cmake --color= make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotate.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfannotate.dir/depend.internal". 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Scanning dependencies of target vcfannotate make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 81%] Built target vcfremoveaberrantgenotypes make -f CMakeFiles/vcfannotate.dir/build.make CMakeFiles/vcfannotate.dir/build make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfoverlay.dir/DependInfo.cmake --color= [ 82%] Building CXX object CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfoverlay.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfoverlay.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfoverlay.dir/depend.internal". Scanning dependencies of target vcfoverlay make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfoverlay.dir/build.make CMakeFiles/vcfoverlay.dir/build /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfannotate.cpp [ 82%] Linking CXX executable vcfprimers /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfprimers.dir/link.txt --verbose=1 make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfprimers.dir/src/vcfprimers.cpp.o -o vcfprimers -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 82%] Building CXX object CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfoverlay.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 82%] Built target vcfprimers make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaddinfo.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaddinfo.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaddinfo.dir/depend.internal". Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfaddinfo.dir/depend.internal". Scanning dependencies of target vcfaddinfo make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfaddinfo.dir/build.make CMakeFiles/vcfaddinfo.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 82%] Building CXX object CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfaddinfo.cpp [ 83%] Linking CXX executable vcfcountalleles /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcountalleles.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcountalleles.dir/src/vcfcountalleles.cpp.o -o vcfcountalleles -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 83%] Linking CXX executable smoother [ 83%] Built target vcfcountalleles /usr/bin/cmake -E cmake_link_script CMakeFiles/smoother.dir/link.txt --verbose=1 make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepinfo.dir/DependInfo.cmake --color= /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/smoother.dir/src/smoother.cpp.o -o smoother -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepinfo.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfkeepinfo.dir/depend.internal". 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Scanning dependencies of target vcfkeepinfo make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfkeepinfo.dir/build.make CMakeFiles/vcfkeepinfo.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 84%] Building CXX object CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfkeepinfo.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 85%] Linking CXX executable vcfcat [ 86%] Linking CXX executable vcfnumalt /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcat.dir/link.txt --verbose=1 /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfnumalt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcat.dir/src/vcfcat.cpp.o -o vcfcat -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 86%] Built target smoother make -f CMakeFiles/vcfgenosummarize.dir/build.make CMakeFiles/vcfgenosummarize.dir/depend /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfnumalt.dir/src/vcfnumalt.cpp.o -o vcfnumalt -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosummarize.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfgenosummarize.dir/depend.internal". 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Scanning dependencies of target vcfdistance make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcfdistance.dir/build.make CMakeFiles/vcfdistance.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 89%] Building CXX object CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcfdistance.cpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 89%] Built target vcfgenotypes make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflength.dir/DependInfo.cmake --color= Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflength.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcflength.dir/depend.internal". 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Scanning dependencies of target vcflength make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make -f CMakeFiles/vcflength.dir/build.make CMakeFiles/vcflength.dir/build make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 89%] Building CXX object CMakeFiles/vcflength.dir/src/vcflength.cpp.o /usr/bin/c++ -DVCFLIB_VERSION=\"1.0.2\" -DVERSION=\"1.0.2\" -I/build/libvcflib-1.0.2+dfsg/include -I/build/libvcflib-1.0.2+dfsg/intervaltree -I/build/libvcflib-1.0.2+dfsg/multichoose -I/build/libvcflib-1.0.2+dfsg/filevercmp -isystem /usr/include/smithwaterman -isystem /usr/include/fastahack -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -o CMakeFiles/vcflength.dir/src/vcflength.cpp.o -c /build/libvcflib-1.0.2+dfsg/src/vcflength.cpp [ 89%] Linking CXX executable vcfcleancomplex /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfcleancomplex.dir/link.txt --verbose=1 [ 90%] Linking CXX executable vcfafpath /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfafpath.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfcleancomplex.dir/src/vcfcleancomplex.cpp.o -o vcfcleancomplex -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfafpath.dir/src/vcfafpath.cpp.o -o vcfafpath -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 91%] Linking CXX executable vcfflatten /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfflatten.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfflatten.dir/src/vcfflatten.cpp.o -o vcfflatten -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 91%] Built target vcfcleancomplex make -f CMakeFiles/vcfglxgt.dir/build.make CMakeFiles/vcfglxgt.dir/depend make[4]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' cd /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglxgt.dir/DependInfo.cmake --color= [ 91%] Built target vcfafpath Dependee "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglxgt.dir/DependInfo.cmake" is newer than depender "/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles/vcfglxgt.dir/depend.internal". 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cmake_link_script CMakeFiles/vcfaddinfo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfaddinfo.dir/src/vcfaddinfo.cpp.o -o vcfaddinfo -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target vcfflatten make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 93%] Built target vcfaddinfo [ 94%] Linking CXX executable vcfgenotypecompare /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenotypecompare.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenotypecompare.dir/src/vcfgenotypecompare.cpp.o -o vcfgenotypecompare -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 94%] Linking CXX executable iHS /usr/bin/cmake -E cmake_link_script CMakeFiles/iHS.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/iHS.dir/src/iHS.cpp.o -o iHS -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 94%] Linking CXX executable vcfkeepinfo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepinfo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepinfo.dir/src/vcfkeepinfo.cpp.o -o vcfkeepinfo -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target vcfgenotypecompare [ 94%] Built target iHS make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target vcfkeepinfo [ 94%] Linking CXX executable vcfkeepgeno /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfkeepgeno.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfkeepgeno.dir/src/vcfkeepgeno.cpp.o -o vcfkeepgeno -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 94%] Built target vcfkeepgeno [ 95%] Linking CXX executable vcfdistance /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfdistance.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfdistance.dir/src/vcfdistance.cpp.o -o vcfdistance -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp [ 96%] Linking CXX executable vcflength /usr/bin/cmake -E cmake_link_script CMakeFiles/vcflength.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcflength.dir/src/vcflength.cpp.o -o vcflength -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target vcfdistance make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 96%] Built target vcflength [ 97%] Linking CXX executable vcfstats /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfstats.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfstats.dir/src/vcfstats.cpp.o -o vcfstats -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 97%] Built target vcfstats [ 98%] Linking CXX executable vcfgenosummarize [ 98%] Linking CXX executable vcfgeno2haplo /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgenosummarize.dir/link.txt --verbose=1 /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfgeno2haplo.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgeno2haplo.dir/src/vcfgeno2haplo.cpp.o -o vcfgeno2haplo -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfgenosummarize.dir/src/vcfgenosummarize.cpp.o -o vcfgenosummarize -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target vcfgenosummarize make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target vcfgeno2haplo [ 98%] Linking CXX executable vcfglxgt /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfglxgt.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfglxgt.dir/src/vcfglxgt.cpp.o -o vcfglxgt -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 98%] Built target vcfglxgt [ 99%] Linking CXX executable vcfoverlay /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfoverlay.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfoverlay.dir/src/vcfoverlay.cpp.o -o vcfoverlay -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vcfoverlay [ 99%] Linking CXX executable vcfannotate /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfannotate.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfannotate.dir/src/vcfannotate.cpp.o -o vcfannotate -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [ 99%] Built target vcfannotate [100%] Linking CXX executable vcfintersect /usr/bin/cmake -E cmake_link_script CMakeFiles/vcfintersect.dir/link.txt --verbose=1 /usr/bin/c++ -g -O2 -fdebug-prefix-map=/build/libvcflib-1.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -std=c++0x -D_FILE_OFFSET_BITS=64 -Isrc -O3 -fopenmp -Wl,-z,relro -Wl,-z,now -rdynamic CMakeFiles/vcfintersect.dir/src/vcfintersect.cpp.o -o vcfintersect -Wl,-rpath,/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu: libvcflib.so.1 -ltabixpp -DGIT_VERSION=0.9.0 -lhts -lpthread -lz -llzma -lbz2 -lsmithwaterman -ldisorder -lfastahack -lssw -ltabixpp make[4]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' [100%] Built target vcfintersect make[3]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/CMakeFiles 0 make[2]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' markdown README.md > README.html make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' debian/rules override_dh_auto_test make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' export LD_LIBRARY_PATH=/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu/:$LD_LIBRARY_PATH && cd test && /usr/bin/make make[2]: Entering directory '/build/libvcflib-1.0.2+dfsg/test' g++ -Wall -std=c++0x -I../src -I../googletest/googletest/include/ -I../fastahack -I../smithwaterman/ -I../multichoose/ -I../filevercmp/ -I../googletest/googletest/make/ tests/mainTest.cpp -o tests/main -lvcflib -lgtest_main -lgtest -L../obj-x86_64-linux-gnu/ -L../googletest/googletest/make/ -lm -ltabixpp -lhts -lpthread ./tests/main [==========] Running 5 tests from 2 test suites. [----------] Global test environment set-up. [----------] 1 test from Variant [ RUN ] Variant.correctGenotype [ OK ] Variant.correctGenotype (3114 ms) [----------] 1 test from Variant (3114 ms total) [----------] 4 tests from VariantCallFile [ RUN ] VariantCallFile.open [ OK ] VariantCallFile.open (1 ms) [ RUN ] VariantCallFile.recordCountUncompressed [ OK ] VariantCallFile.recordCountUncompressed (0 ms) [ RUN ] VariantCallFile.recordCountCompressed [ OK ] VariantCallFile.recordCountCompressed (5 ms) [ RUN ] VariantCallFile.sampleNamesCompressed [ OK ] VariantCallFile.sampleNamesCompressed (2 ms) [----------] 4 tests from VariantCallFile (8 ms total) [----------] Global test environment tear-down [==========] 5 tests from 2 test suites ran. (3123 ms total) [ PASSED ] 5 tests. make[2]: Leaving directory '/build/libvcflib-1.0.2+dfsg/test' make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=cmake dh_prep -O--buildsystem=cmake dh_auto_install -O--buildsystem=cmake cd obj-x86_64-linux-gnu && make -j16 install DESTDIR=/build/libvcflib-1.0.2\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/libvcflib-1.0.2+dfsg -B/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[2]: Entering directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' make[2]: Nothing to be done for 'preinstall'. make[2]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: "None" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfecho -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfecho" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/dumpContigsFromHeader -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/dumpContigsFromHeader" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/bFst -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/bFst" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/pVst -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/pVst" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/hapLrt -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/hapLrt" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/popStats -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/popStats" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/wcFst -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/wcFst" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/iHS -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/iHS" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/segmentFst -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/segmentFst" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/segmentIhs -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/segmentIhs" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/genotypeSummary -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/genotypeSummary" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/sequenceDiversity -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/sequenceDiversity" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/pFst -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/pFst" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/smoother -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/smoother" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfld -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfld" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/plotHaps -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/plotHaps" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/abba-baba -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/abba-baba" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/permuteGPAT++ -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/permuteGPAT++" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/permuteSmooth -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/permuteSmooth" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/normalize-iHS -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/normalize-iHS" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/meltEHH -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/meltEHH" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfaltcount -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfaltcount" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfhetcount -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfhetcount" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfhethomratio -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfhethomratio" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcffilter -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcffilter" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2tsv -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2tsv" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenotypes -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenotypes" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfannotategenotypes -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfannotategenotypes" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcommonsamples -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcommonsamples" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremovesamples -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremovesamples" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepsamples -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepsamples" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsamplenames -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsamplenames" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenotypecompare -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenotypecompare" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcffixup -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcffixup" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfclassify -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfclassify" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsamplediff -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsamplediff" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremoveaberrantgenotypes -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremoveaberrantgenotypes" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfrandom -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfrandom" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfparsealts -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfparsealts" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfstats -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfstats" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfflatten -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfflatten" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfprimers -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfprimers" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfnumalt -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfnumalt" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcleancomplex -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcleancomplex" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfintersect -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfintersect" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfannotate -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfannotate" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfallelicprimitives -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfallelicprimitives" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfoverlay -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfoverlay" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfaddinfo -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfaddinfo" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepinfo -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepinfo" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepgeno -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfkeepgeno" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfafpath -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfafpath" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcountalleles -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcountalleles" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcflength -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcflength" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfdistance -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfdistance" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfrandomsample -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfrandomsample" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfentropy -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfentropy" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfglxgt -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfglxgt" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfroc -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfroc" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcheck -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcheck" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfstreamsort -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfstreamsort" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfuniq -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfuniq" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfuniqalleles -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfuniqalleles" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremap -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfremap" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2fasta -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2fasta" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsitesummarize -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsitesummarize" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfbreakmulti -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfbreakmulti" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcreatemulti -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcreatemulti" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfevenregions -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfevenregions" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcat -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcat" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenosummarize -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenosummarize" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenosamplenames -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgenosamplenames" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgeno2haplo -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgeno2haplo" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfleftalign -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfleftalign" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcombine -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfcombine" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgeno2alleles -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfgeno2alleles" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfindex -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfindex" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2dag -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcf2dag" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsample2info -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfsample2info" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfqual2info -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfqual2info" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfinfo2qual -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfinfo2qual" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfglbound -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfglbound" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfinfosummarize -- Set runtime path of "/build/libvcflib-1.0.2+dfsg/debian/tmp/usr/bin/vcfinfosummarize" to "" -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libvcflib.so.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/lib/x86_64-linux-gnu/libvcflib.so -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/filevercmp.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/IntervalTree.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/catch.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/multichoose.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/multipermute.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/BedReader.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/Variant.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/cdflib.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/convert.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/gpatInfo.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/join.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/makeUnique.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/mt19937ar.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/pdflib.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/rnglib.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/split.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/var.hpp -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/vec128int.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/include/veclib_types.h -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfuniq.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcflib.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/popStats.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/segmentFst.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfsitesummarize.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfkeepsamples.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/permuteGPAT++.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfecho.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfentropy.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfinfo2qual.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfleftalign.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfaddinfo.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfoverlay.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcombine.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfclassify.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgenosamplenames.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/plotHaps.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfremovesamples.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfremap.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/dumpContigsFromHeader.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfprimers.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfannotategenotypes.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/pFst.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfhetcount.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcheck.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcreatemulti.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfsamplediff.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/hapLrt.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/segmentIhs.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcf2dag.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfindex.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/normalize-iHS.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcleancomplex.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcffixup.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/permuteSmooth.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfallelicprimitives.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfintersect.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcountalleles.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcat.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcf2tsv.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/sequenceDiversity.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfglxgt.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfroc.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfuniqalleles.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfsamplenames.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfstreamsort.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/wcFst.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfnumalt.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/iHS.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfrandom.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfstats.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfcommonsamples.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfdistance.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgenosummarize.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcffilter.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfkeepinfo.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfparsealts.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfsample2info.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfafpath.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfinfosummarize.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfaltcount.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfkeepgeno.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcf2fasta.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfglbound.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/bFst.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfhethomratio.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/genotypeSummary.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgeno2alleles.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcflength.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfqual2info.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/pVst.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/smoother.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgeno2haplo.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfannotate.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfrandomsample.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfevenregions.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/meltEHH.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfflatten.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfremoveaberrantgenotypes.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgenotypes.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfbreakmulti.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfld.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/vcfgenotypecompare.1 -- Installing: /build/libvcflib-1.0.2+dfsg/debian/tmp/usr/man/man1/man/abba-baba.1 make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg/obj-x86_64-linux-gnu' debian/rules override_dh_install make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_install find debian -name filevercmp.h -delete cp -a filevercmp/filevercmp.h debian/libvcflib-dev/usr/include/vcflib/ mkdir -p debian/libvcflib-dev/usr/include/intervaltree mv debian/libvcflib-dev/usr/include/vcflib/IntervalTree.h debian/libvcflib-dev/usr/include/intervaltree # install pkg-config file mkdir -p /build/libvcflib-1.0.2+dfsg/debian/libvcflib-dev/usr/lib/x86_64-linux-gnu/pkgconfig mv libvcflib.pc /build/libvcflib-1.0.2+dfsg/debian/libvcflib-dev/usr/lib/x86_64-linux-gnu/pkgconfig rm -rf debian/*/usr/lib/vcflib/bin/*.R for pl in `grep -Rl '#!/usr/bin/env' debian/*/usr/*` ; do \ sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done grep: debian/libvcflib-dev/usr/lib/x86_64-linux-gnu/libvcflib.so: No such file or directory make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' dh_installdocs -O--buildsystem=cmake dh_installchangelogs -O--buildsystem=cmake dh_installman -O--buildsystem=cmake dh_installsystemduser -O--buildsystem=cmake dh_lintian -O--buildsystem=cmake dh_perl -O--buildsystem=cmake dh_link -O--buildsystem=cmake dh_strip_nondeterminism -O--buildsystem=cmake dh_compress -O--buildsystem=cmake debian/rules override_dh_fixperms make[1]: Entering directory '/build/libvcflib-1.0.2+dfsg' dh_fixperms chmod -x debian/*/usr/lib/R/site-library/*/*.R make[1]: Leaving directory '/build/libvcflib-1.0.2+dfsg' dh_missing -O--buildsystem=cmake dh_dwz -a -O--buildsystem=cmake dh_strip -a -O--buildsystem=cmake dh_makeshlibs -a -O--buildsystem=cmake dh_shlibdeps -a -O--buildsystem=cmake dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/libvcflib1/usr/lib/x86_64-linux-gnu/libvcflib.so.1 was not linked against libdisorder.so.0 (it uses none of the library's symbols) dh_installdeb -O--buildsystem=cmake dh_gencontrol -O--buildsystem=cmake dh_md5sums -O--buildsystem=cmake dh_builddeb -O--buildsystem=cmake dpkg-deb: building package 'libvcflib1' in '../libvcflib1_1.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'libvcflib-dev' in '../libvcflib-dev_1.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'libvcflib1-dbgsym' in '../libvcflib1-dbgsym_1.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'libvcflib-tools' in '../libvcflib-tools_1.0.2+dfsg-2_amd64.deb'. dpkg-deb: building package 'libvcflib-tools-dbgsym' in '../libvcflib-tools-dbgsym_1.0.2+dfsg-2_amd64.deb'. dpkg-genbuildinfo --build=binary dpkg-genchanges --build=binary >../libvcflib_1.0.2+dfsg-2_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/3605696 and its subdirectories I: Current time: Tue Jan 31 11:11:05 -12 2023 I: pbuilder-time-stamp: 1675206665 Wed Dec 29 16:48:05 UTC 2021 I: 1st build successful. Starting 2nd build on remote node ionos11-amd64.debian.net. Wed Dec 29 16:48:05 UTC 2021 I: Preparing to do remote build '2' on ionos11-amd64.debian.net. Wed Dec 29 16:50:11 UTC 2021 I: Deleting $TMPDIR on ionos11-amd64.debian.net. Wed Dec 29 16:50:11 UTC 2021 I: libvcflib_1.0.2+dfsg-2_amd64.changes: Format: 1.8 Date: Thu, 28 Jan 2021 13:03:40 +0100 Source: libvcflib Binary: libvcflib-dev libvcflib-tools libvcflib-tools-dbgsym libvcflib1 libvcflib1-dbgsym Architecture: amd64 Version: 1.0.2+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Michael R. Crusoe Description: libvcflib-dev - C++ library for parsing and manipulating VCF files (development) libvcflib-tools - C++ library for parsing and manipulating VCF files (tools) libvcflib1 - C++ library for parsing and manipulating VCF files Changes: libvcflib (1.0.2+dfsg-2) unstable; urgency=medium . * Team upload. * debian/rules: unit tests: Use DEB_HOST_GNU_TYPE instead of DEB_HOST_MULTIARCH for finding the build directory Checksums-Sha1: ba88b1981b0227ad74006a18c0333f6fb5fccb3a 84928 libvcflib-dev_1.0.2+dfsg-2_amd64.deb e8816ea373d46281d0a0e1d31d3af79bb4509721 16197552 libvcflib-tools-dbgsym_1.0.2+dfsg-2_amd64.deb ef552de43bc2e20c6da532581452790b99d83d3c 721132 libvcflib-tools_1.0.2+dfsg-2_amd64.deb a826f2f0ad16060cf1eb11fc011eff7561d72c15 1558044 libvcflib1-dbgsym_1.0.2+dfsg-2_amd64.deb f7341401b0f6ce6b475f24a0b3e8e62d4422e243 151784 libvcflib1_1.0.2+dfsg-2_amd64.deb 3aa87645b527f4efd2bfa44722e058a569bd1b36 7571 libvcflib_1.0.2+dfsg-2_amd64.buildinfo Checksums-Sha256: 39125151d2888bf7250cdc0fcecd4627892f33e1228f047ee0f5c956f2598c4a 84928 libvcflib-dev_1.0.2+dfsg-2_amd64.deb 47ede47c67c0e77e293c24528ad7803f47a5c028d5ddb5d058fe4a00774aa2c8 16197552 libvcflib-tools-dbgsym_1.0.2+dfsg-2_amd64.deb 5ec3024f5d5a96b2a607e596b57a8295d5fe990cb289dd6b1b6a653ea62c8945 721132 libvcflib-tools_1.0.2+dfsg-2_amd64.deb 826444c2981e0899308f59bb0e8ab9aff2540258a075e83a0295940ba4f9938a 1558044 libvcflib1-dbgsym_1.0.2+dfsg-2_amd64.deb 16978ea0a8354902c965c156b6bc31867065e854e568911444f715a8a2c6683f 151784 libvcflib1_1.0.2+dfsg-2_amd64.deb e9976eb70beeec26090875e13cd432226d9376572b1b154df0ef0d0367e82856 7571 libvcflib_1.0.2+dfsg-2_amd64.buildinfo Files: 33eacf0218d0ea73d2a468b22bfe0659 84928 libdevel optional libvcflib-dev_1.0.2+dfsg-2_amd64.deb 9431c1d345b2ef319c304dc991433e2a 16197552 debug optional libvcflib-tools-dbgsym_1.0.2+dfsg-2_amd64.deb 4ee9f7812832145dfe2ad6ed1bdd9e4b 721132 science optional libvcflib-tools_1.0.2+dfsg-2_amd64.deb ec7601749f3ca2dba2066d67994f4a82 1558044 debug optional libvcflib1-dbgsym_1.0.2+dfsg-2_amd64.deb 98a5c9500a9d18f45b7af6135ca63412 151784 libs optional libvcflib1_1.0.2+dfsg-2_amd64.deb fb4384f54fe8bef459f8069d69240233 7571 science optional libvcflib_1.0.2+dfsg-2_amd64.buildinfo Wed Dec 29 16:50:12 UTC 2021 I: will be used to compare the two builds: # Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/libvcflib_1.0.2+dfsg-2.diffoscope.html --text /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/libvcflib_1.0.2+dfsg-2.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/libvcflib_1.0.2+dfsg-2.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/b1/libvcflib_1.0.2+dfsg-2_amd64.changes /srv/reproducible-results/rbuild-debian/tmp.xd6uW2oBOf/b2/libvcflib_1.0.2+dfsg-2_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.510s) 0.510s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.241s) 0.240s 10 calls diffoscope.comparators.binary.FilesystemFile 0.000s 8 calls abc.DotChangesFile Wed Dec 29 16:50:13 UTC 2021 I: found no differences in the changes files, and a .buildinfo file also exists. Wed Dec 29 16:50:14 UTC 2021 I: libvcflib from bullseye built successfully and reproducibly on amd64. Wed Dec 29 16:50:17 UTC 2021 I: Submitting .buildinfo files to external archives: Wed Dec 29 16:50:17 UTC 2021 I: Submitting 12K b1/libvcflib_1.0.2+dfsg-2_amd64.buildinfo.asc Wed Dec 29 16:50:18 UTC 2021 I: Submitting 12K b2/libvcflib_1.0.2+dfsg-2_amd64.buildinfo.asc Wed Dec 29 16:50:18 UTC 2021 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Wed Dec 29 16:50:18 UTC 2021 I: Done submitting .buildinfo files. Wed Dec 29 16:50:18 UTC 2021 I: Removing signed libvcflib_1.0.2+dfsg-2_amd64.buildinfo.asc files: removed './b1/libvcflib_1.0.2+dfsg-2_amd64.buildinfo.asc' removed './b2/libvcflib_1.0.2+dfsg-2_amd64.buildinfo.asc'