Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/pftools/pftools_3.2.11-2+b1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/pftools-3.2.11-2+b10m8j_hx0/pftools_3.2.11-2+b1_amd64.buildinfo Get source package info: pftools=3.2.11-2 Source URL: http://snapshot.notset.fr/mr/package/pftools/3.2.11-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6 binutils=2.37.90.20220123-2 binutils-common=2.37.90.20220123-2 binutils-x86-64-linux-gnu=2.37.90.20220123-2 bsdextrautils=2.37.3-1 bsdutils=1:2.37.3-1 build-essential=12.9 bzip2=1.0.8-5 cmake=3.22.1-1+b1 cmake-data=3.22.1-1 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-14 dash=0.5.11+git20210903+057cd650a4ed-3 debconf=1.5.79 debhelper=13.6 debianutils=5.7-0.1 dh-autoreconf=20 dh-elpa-helper=2.0.10 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.1 dpkg-dev=1.21.1 dwz=0.14-1 emacsen-common=3.0.4 file=1:5.41-2 findutils=4.8.0-1 g++=4:11.2.0-2 g++-11=11.2.0-14 gcc=4:11.2.0-2 gcc-11=11.2.0-14 gcc-11-base=11.2.0-14 gettext=0.21-4 gettext-base=0.21-4 gfortran=4:11.2.0-2 gfortran-11=11.2.0-14 grep=3.7-1 groff-base=1.22.4-8 gzip=1.10-4 hostname=3.23 init-system-helpers=1.61 intltool-debian=0.35.0+20060710.5 libacl1=2.3.1-1 libarchive-zip-perl=1.68-1 libarchive13=3.5.2-1 libasan6=11.2.0-14 libatomic1=11.2.0-14 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1+b1 libbinutils=2.37.90.20220123-2 libblkid1=2.37.3-1 libbrotli1=1.0.9-2+b3 libbz2-1.0=1.0.8-5 libbz2-dev=1.0.8-5 libc-bin=2.33-4 libc-dev-bin=2.33-4 libc6=2.33-4 libc6-dev=2.33-4 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-14 libcom-err2=1.46.5-2 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.37.90.20220123-2 libctf0=2.37.90.20220123-2 libcurl4=7.81.0-1 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.6 libdpkg-perl=1.21.1 libelf1=0.186-1 libexpat1=2.4.3-2+b1 libffi8=3.4.2-4 libfile-slurp-perl=9999.32-1 libfile-stripnondeterminism-perl=1.13.0-1 libgcc-11-dev=11.2.0-14 libgcc-s1=11.2.0-14 libgcrypt20=1.9.4-5 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran-11-dev=11.2.0-14 libgfortran5=11.2.0-14 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.3-4 libgomp1=11.2.0-14 libgpg-error0=1.43-3 libgssapi-krb5-2=1.18.3-7 libhogweed6=3.7.3-1 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=11.2.0-14 libjsoncpp25=1.9.5-2 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-14 liblz4-1=1.9.3-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.41-2 libmagic1=1:5.41-2 libmount1=2.37.3-1 libmpc3=1.2.1-1 libmpfr6=4.1.0-3 libncurses-dev=6.3-2 libncurses6=6.3-2 libncursesw6=6.3-2 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.0-6 libpam-modules=1.4.0-11 libpam-modules-bin=1.4.0-11 libpam-runtime=1.4.0-11 libpam0g=1.4.0-11 libpcre2-8-0=10.39-3 libpcre3=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.5-1 libprocps8=2:3.3.17-6 libpsl5=0.21.0-1.2 libquadmath0=11.2.0-14 libreadline-dev=8.1.2-1 libreadline8=8.1.2-1 librhash0=1.4.2-1 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-3 libsasl2-modules-db=2.1.27+dfsg2-3 libseccomp2=2.5.3-2 libselinux1=3.3-1+b1 libsigsegv2=2.13-1 libsmartcols1=2.37.3-1 libssh2-1=1.10.0-2 libssl1.1=1.1.1m-1 libstdc++-11-dev=11.2.0-14 libstdc++6=11.2.0-14 libsub-override-perl=0.09-2 libsystemd0=250.3-1 libtasn1-6=4.18.0-4 libtinfo6=6.3-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtool=2.4.6-15 libtsan0=11.2.0-14 libubsan1=11.2.0-14 libuchardet0=0.0.7-1 libudev1=250.3-1 libunistring2=0.9.10-6 libuuid1=2.37.3-1 libuv1=1.43.0-1 libxml2=2.9.12+dfsg-5+b1 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.15.15-1 login=1:4.8.1-2 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-4 mawk=1.3.4.20200120-3 ncurses-base=6.3-2 ncurses-bin=6.3-2 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 po-debconf=1.0.21+nmu1 procps=2:3.3.17-6 readline-common=8.1.2-1 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.01-1 tar=1.34+dfsg-1 util-linux=2.37.3-1 xz-utils=5.2.5-2 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220129T025638Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220129T025638Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220127T153620Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220126T152836Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d pftools=3.2.11-2 && mkdir -p /build/pftools-EIybem && dpkg-source --no-check -x /*.dsc /build/pftools-EIybem/pftools-3.2.11 && cd /build/pftools-EIybem/pftools-3.2.11 && { printf '%s' 'pftools (3.2.11-2+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for #1004272 -- all / amd64 / i386 Build Daemon (x86-conova-01) Wed, 26 Jan 2022 21:08:11 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/pftools-EIybem" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pftools-EIybem/pftools-3.2.11 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1643231291" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/pftools-EIybem /tmp/pftools-3.2.11-2+b10m8j_hx0 bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220126T152836Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.ecaS5ZRnBm as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.ecaS5ZRnBm Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.3-1). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 136 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220126T152836Z unstable/main amd64 libfakeroot amd64 1.27-1 [48.5 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220126T152836Z unstable/main amd64 fakeroot amd64 1.27-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 136 kB in 0s (1035 kB/s) Selecting previously unselected package libfakeroot:amd64. (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 ... 4689 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.27-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.27-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.27-1_amd64.deb ... Unpacking fakeroot (1.27-1) ... Setting up libfakeroot:amd64 (1.27-1) ... Setting up fakeroot (1.27-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-4) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220129T025638Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20220129T025638Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20220127T153620Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220126T152836Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.ecaS5ZRnBm Get:1 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm InRelease [129 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220127T153620Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20220126T152836Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main Sources [11.8 MB] Get:5 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main amd64 Packages [11.2 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20220127T153620Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20220127T153620Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20220127T153620Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20220127T153620Z unstable/main amd64 Packages [12.1 MB] Fetched 35.3 MB in 29s (1208 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.ecaS5ZRnBm I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d pftools=3.2.11-2 && mkdir -p /build/pftools-EIybem && dpkg-source --no-check -x /*.dsc /build/pftools-EIybem/pftools-3.2.11 && cd /build/pftools-EIybem/pftools-3.2.11 && { printf '%s' 'pftools (3.2.11-2+b1) sid; urgency=low, binary-only=yes * Binary-only non-maintainer upload for amd64; no source changes. * Rebuild for #1004272 -- all / amd64 / i386 Build Daemon (x86-conova-01) Wed, 26 Jan 2022 21:08:11 +0000 '; cat debian/changelog; } > debian/changelog.debrebuild && mv debian/changelog.debrebuild debian/changelog && chown -R builduser:builduser /build/pftools-EIybem"' exec /tmp/mmdebstrap.ecaS5ZRnBm Reading package lists... NOTICE: 'pftools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pftools.git Please use: git clone https://salsa.debian.org/med-team/pftools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 44.1 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main pftools 3.2.11-2 (dsc) [2054 B] Get:2 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main pftools 3.2.11-2 (tar) [44.0 MB] Get:3 http://snapshot.notset.fr/archive/debian/20220129T025638Z bookworm/main pftools 3.2.11-2 (diff) [7120 B] Fetched 44.1 MB in 34s (1281 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'pftools_3.2.11-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting pftools in /build/pftools-EIybem/pftools-3.2.11 dpkg-source: info: unpacking pftools_3.2.11.orig.tar.gz dpkg-source: info: unpacking pftools_3.2.11-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying spelling.patch dpkg-source: info: applying fix_perl_interpreter.patch dpkg-source: info: applying destdir_for_examples.patch dpkg-source: info: applying hardening.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pftools-EIybem/pftools-3.2.11 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1643231291" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.ecaS5ZRnBm dpkg-buildpackage: info: source package pftools dpkg-buildpackage: info: source version 3.2.11-2+b1 dpkg-buildpackage: info: source distribution sid dpkg-buildpackage: info: source changed by all / amd64 / i386 Build Daemon (x86-conova-01) dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11' dh_auto_clean rm -rf data/test.* make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11' dh_clean debian/rules binary-arch dh binary-arch dh_update_autotools_config -a dh_autoreconf -a debian/rules override_dh_auto_configure make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11' if [ ! -e src/C/config.h.cmake ] ; then cp -a debian/missing-sources/config.h.cmake src/C/ ; fi dh_auto_configure -- -DUSE_PCRE=OFF 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_USE_PACKAGE_REGISTRY=OFF -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 -DUSE_PCRE=OFF .. -- +--------------------------------------------------------------------+ -- | PfTools v3.2.11 | -- +--------------------------------------------------------------------+ -- | (C) Copyright SIB Swiss Institute of Bioinformatics | -- | Thierry Schuepbach (projects@vital-it.ch) | -- | | -- | PfTools is available from | -- | https://github.com/sib-swiss/pftools3 | -- | under the GPL v2. See LICENSE. | -- | | -- +--------------------------------------------------------------------+ -- The Fortran compiler identification is GNU 11.2.0 -- The C compiler identification is GNU 11.2.0 -- Detecting Fortran compiler ABI info -- Detecting Fortran compiler ABI info - done -- Check for working Fortran compiler: /usr/bin/f95 - skipped -- 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 -- Compilation on architecture x86_64. -- Performing Test HANDLE_SSE -- Performing Test HANDLE_SSE - Success -- Performing Test HANDLE_SSE2 -- Performing Test HANDLE_SSE2 - Success -- testing flag -msse4.1... -- Performing Test HANDLE_SSE41 -- Performing Test HANDLE_SSE41 - Success -- Performing Test HANDLE_C99 -- Performing Test HANDLE_C99 - Success -- Add -std=c99 to C compiler options -- Add SSE2 to C compiler options -- Performing Test MS_EXTENSION -- Performing Test MS_EXTENSION - Success -- 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 -- Found Perl: /usr/bin/perl (found version "5.32.1") -- Perl found - full test suite usable -- Looking for include file emmintrin.h -- Looking for include file emmintrin.h - found -- Looking for include file smmintrin.h -- Looking for include file smmintrin.h - found -- Looking for include file mm_malloc.h -- Looking for include file mm_malloc.h - found -- Looking for include file alloca.h -- Looking for include file alloca.h - found -- Check Perl script syntax compare_2_profiles.pl - syntax OK fasta_to_fastq.pl - syntax OK make_iupac_cmp.pl - syntax OK ps_scan.pl - syntax OK scramble_fasta.pl - syntax OK sort_fasta.pl - syntax OK split_profile_file.pl - syntax OK -- -- PfTools Software Suite configuration summary: -- -- System name ......................: Linux -- Build type .......................: None -- -- Integer format ...................: 16 bits -- -- Install prefix .................. : /usr -- C compiler ...................... : /usr/bin/cc -- Fortran compiler ................ : /usr/bin/f95 -- C compiler flags ................ : -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -- C compiler SSE2 flag. ........... : -msse2 -- C compiler SSE 4.1 flag.......... : -msse4.1 -- Fortran compiler flags .......... : -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -- -- Use file memory mapping ..........: ON -- Use thread affinity setting ......: ON -- -- Build shared libs ............... : OFF -- Build static libs ............... : OFF -- Build static executables......... : OFF -- -- -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY CMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY CMAKE_INSTALL_LIBDIR CMAKE_INSTALL_LOCALSTATEDIR CMAKE_INSTALL_RUNSTATEDIR CMAKE_INSTALL_SYSCONFDIR -- Build files have been written to: /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11' dh_auto_build -a cd obj-x86_64-linux-gnu && make -j10 "INSTALL=install --strip-program=true" VERBOSE=1 make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/pftools-EIybem/pftools-3.2.11 -B/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 /usr/bin/cmake -E cmake_progress_start 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'/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/PROFILES.dir/DependInfo.cmake --color= make -f src/C/utils/CMakeFiles/SEQUENCES.dir/build.make src/C/utils/CMakeFiles/SEQUENCES.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu 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'/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/quantile.dir/DependInfo.cmake --color= make -f src/C/CMakeFiles/pfpam.dir/build.make src/C/CMakeFiles/pfpam.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu 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/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/SYSTEM.dir/system.c.o -MF CMakeFiles/SYSTEM.dir/system.c.o.d -o CMakeFiles/SYSTEM.dir/system.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/system.c [ 10%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 11%] Building C object src/C/utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -MD -MT src/C/sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o -MF CMakeFiles/SSE41.dir/heuristic_sse41.c.o.d -o CMakeFiles/SSE41.dir/heuristic_sse41.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse41/heuristic_sse41.c make -f src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/build.make src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/build cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o -MF CMakeFiles/SEQUENCES.dir/ReadSequence.c.o.d -o CMakeFiles/SEQUENCES.dir/ReadSequence.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/ReadSequence.c make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 13%] Building C object src/C/CMakeFiles/pfpam.dir/utils/pam.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfpam.dir/utils/pam.c.o -MF CMakeFiles/pfpam.dir/utils/pam.c.o.d -o CMakeFiles/pfpam.dir/utils/pam.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/pam.c [ 14%] Building C object src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o -MF CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o.d -o CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/pam.c In file included from /build/pftools-EIybem/pftools-3.2.11/src/C/utils/pfregexp.c:21: /build/pftools-EIybem/pftools-3.2.11/src/C/utils/../include/pfRegexp.h:18: warning: "_POSIX_C_SOURCE" redefined 18 | # define _POSIX_C_SOURCE | In file included from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33, from /usr/include/math.h:27, from /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/config.h:29, from /build/pftools-EIybem/pftools-3.2.11/src/C/utils/pfregexp.c:9: /usr/include/features.h:281: note: this is the location of the previous definition 281 | # define _POSIX_C_SOURCE 200809L | [ 16%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -MD -MT src/C/sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o -MF CMakeFiles/SSE41.dir/xali1_sse41.c.o.d -o CMakeFiles/SSE41.dir/xali1_sse41.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse41/xali1_sse41.c [ 17%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -MD -MT src/C/sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o -MF CMakeFiles/SSE2.dir/xali1_sse2.c.o.d -o CMakeFiles/SSE2.dir/xali1_sse2.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse2/xali1_sse2.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 17%] Built target quantile [ 19%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -MD -MT src/C/sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o -MF CMakeFiles/SSE41.dir/xalip_sse41.c.o.d -o CMakeFiles/SSE41.dir/xalip_sse41.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse41/xalip_sse41.c [ 20%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -MD -MT src/C/sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o -MF CMakeFiles/SSE2.dir/xalip_sse2.c.o.d -o CMakeFiles/SSE2.dir/xalip_sse2.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse2/xalip_sse2.c [ 22%] Building C object src/C/CMakeFiles/pfpam.dir/utils/io.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfpam.dir/utils/io.c.o -MF CMakeFiles/pfpam.dir/utils/io.c.o.d -o CMakeFiles/pfpam.dir/utils/io.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/io.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 22%] Built target REGEXP [ 23%] Building C object src/C/sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse2 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse2 -MD -MT src/C/sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o -MF CMakeFiles/SSE2.dir/xalit_sse2.c.o.d -o CMakeFiles/SSE2.dir/xalit_sse2.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse2/xalit_sse2.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 23%] Built target SEQUENCES_EXTRA make -f src/C/CMakeFiles/pfsplit.dir/build.make src/C/CMakeFiles/pfsplit.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsplit.dir/DependInfo.cmake --color= [ 23%] Built target SEQUENCES make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/gtop.dir/build.make src/Fortran/CMakeFiles/gtop.dir/depend make -f src/C/CMakeFiles/pfsplit.dir/build.make src/C/CMakeFiles/pfsplit.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 25%] Building C object src/C/CMakeFiles/pfsplit.dir/prg/split.c.o Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/gtop.dir/depend.internal". cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfsplit.dir/prg/split.c.o -MF CMakeFiles/pfsplit.dir/prg/split.c.o.d -o CMakeFiles/pfsplit.dir/prg/split.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/prg/split.c Scanning dependencies of target gtop make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/gtop.dir/build.make src/Fortran/CMakeFiles/gtop.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 26%] Building C object src/C/sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/sse41 && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -msse4.1 -MD -MT src/C/sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o -MF CMakeFiles/SSE41.dir/xalit_sse41.c.o.d -o CMakeFiles/SSE41.dir/xalit_sse41.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/sse41/xalit_sse41.c [ 28%] Building Fortran object src/Fortran/CMakeFiles/gtop.dir/gtop.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/gtop.f -o CMakeFiles/gtop.dir/gtop.f.o [ 29%] Linking C executable pfsplit cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsplit.dir/link.txt --verbose=1 make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfsplit.dir/prg/split.c.o -o pfsplit make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 29%] Built target OUTPUT_FORMAT make -f src/Fortran/CMakeFiles/htop.dir/build.make src/Fortran/CMakeFiles/htop.dir/depend make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/DependInfo.cmake --color= Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/htop.dir/depend.internal". Scanning dependencies of target htop [ 29%] Built target SYSTEM make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/htop.dir/build.make src/Fortran/CMakeFiles/htop.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 29%] Built target pfsplit make -f src/Fortran/CMakeFiles/ptoh.dir/build.make src/Fortran/CMakeFiles/ptoh.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/DependInfo.cmake --color= [ 31%] Building Fortran object src/Fortran/CMakeFiles/htop.dir/htop.f.o [ 32%] Building C object src/C/CMakeFiles/pfpam.dir/utils/random.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFPAM -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfpam.dir/utils/random.c.o -MF CMakeFiles/pfpam.dir/utils/random.c.o.d -o CMakeFiles/pfpam.dir/utils/random.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/random.c cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/htop.f -o CMakeFiles/htop.dir/htop.f.o Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptoh.dir/depend.internal". Scanning dependencies of target ptoh make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/ptoh.dir/build.make src/Fortran/CMakeFiles/ptoh.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 34%] Building Fortran object src/Fortran/CMakeFiles/ptoh.dir/ptoh.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/ptoh.f -o CMakeFiles/ptoh.dir/ptoh.f.o rhmmer2.f:265:17: Warning: Array reference at (1) out of bounds (47 > 46) in loop beginning at (2) rhmmer2.f:265:29: Warning: Array reference at (1) out of bounds (47 > 46) in loop beginning at (2) rhmmer2.f:274:17: Warning: Array reference at (1) out of bounds (47 > 27) in loop beginning at (2) rhmmer2.f:274:29: Warning: Array reference at (1) out of bounds (47 > 27) in loop beginning at (2) [ 35%] Building C object src/Fortran/CMakeFiles/gtop.dir/io.c.o make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -MD -MT src/Fortran/CMakeFiles/gtop.dir/io.c.o -MF CMakeFiles/gtop.dir/io.c.o.d -o CMakeFiles/gtop.dir/io.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/io.c [ 37%] Building C object src/C/utils/CMakeFiles/PROFILES.dir/profile.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/PROFILES.dir/profile.c.o -MF CMakeFiles/PROFILES.dir/profile.c.o.d -o CMakeFiles/PROFILES.dir/profile.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/profile.c [ 37%] Built target SSE41 make -f src/Fortran/CMakeFiles/ptof.dir/build.make src/Fortran/CMakeFiles/ptof.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/DependInfo.cmake --color= [ 38%] Building C object src/C/utils/CMakeFiles/PROFILES.dir/Normalization.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/PROFILES.dir/Normalization.c.o -MF CMakeFiles/PROFILES.dir/Normalization.c.o.d -o CMakeFiles/PROFILES.dir/Normalization.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/Normalization.c Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/ptof.dir/depend.internal". Scanning dependencies of target ptof make -f src/Fortran/CMakeFiles/pfw.dir/build.make src/Fortran/CMakeFiles/pfw.dir/depend make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/ptof.dir/build.make src/Fortran/CMakeFiles/ptof.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/DependInfo.cmake --color= make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfw.dir/depend.internal". Scanning dependencies of target pfw make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfw.dir/build.make src/Fortran/CMakeFiles/pfw.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 40%] Building Fortran object src/Fortran/CMakeFiles/ptof.dir/ptof.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/ptof.f -o CMakeFiles/ptof.dir/ptof.f.o [ 41%] Building C object src/Fortran/CMakeFiles/pfw.dir/io.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -MD -MT src/Fortran/CMakeFiles/pfw.dir/io.c.o -MF CMakeFiles/pfw.dir/io.c.o.d -o CMakeFiles/pfw.dir/io.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/io.c make -f src/Fortran/CMakeFiles/2ft.dir/build.make src/Fortran/CMakeFiles/2ft.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/DependInfo.cmake --color= Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/2ft.dir/depend.internal". Scanning dependencies of target 2ft make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/2ft.dir/build.make src/Fortran/CMakeFiles/2ft.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 43%] Building Fortran object src/Fortran/CMakeFiles/pfw.dir/pfw.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfw.f -o CMakeFiles/pfw.dir/pfw.f.o [ 44%] Building Fortran object src/Fortran/CMakeFiles/2ft.dir/2ft.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/2ft.f -o CMakeFiles/2ft.dir/2ft.f.o /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfw.f:530:72: 530 | IF(J.GT.97.OR.J.LT.1) PAUSE | 1 Warning: Deleted feature: PAUSE statement at (1) make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 44%] Built target SSE2 make -f src/Fortran/CMakeFiles/6ft.dir/build.make src/Fortran/CMakeFiles/6ft.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/DependInfo.cmake --color= Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/6ft.dir/depend.internal". Scanning dependencies of target 6ft make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/6ft.dir/build.make src/Fortran/CMakeFiles/6ft.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/psa2msa.dir/build.make src/Fortran/CMakeFiles/psa2msa.dir/depend [ 46%] Building Fortran object src/Fortran/CMakeFiles/6ft.dir/6ft.f.o make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/DependInfo.cmake --color= cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/6ft.f -o CMakeFiles/6ft.dir/6ft.f.o make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/psa2msa.dir/depend.internal". Scanning dependencies of target psa2msa make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/psa2msa.dir/build.make src/Fortran/CMakeFiles/psa2msa.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 46%] Built target PROFILES make -f src/Fortran/CMakeFiles/pfscan.dir/build.make src/Fortran/CMakeFiles/pfscan.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/DependInfo.cmake --color= [ 47%] Building C object src/Fortran/CMakeFiles/psa2msa.dir/io.c.o Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscan.dir/depend.internal". cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -MD -MT src/Fortran/CMakeFiles/psa2msa.dir/io.c.o -MF CMakeFiles/psa2msa.dir/io.c.o.d -o CMakeFiles/psa2msa.dir/io.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/io.c Scanning dependencies of target pfscan make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfscan.dir/build.make src/Fortran/CMakeFiles/pfscan.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 49%] Building Fortran object src/Fortran/CMakeFiles/pfscan.dir/pfscan.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfscan.f -o CMakeFiles/pfscan.dir/pfscan.f.o [ 50%] Building Fortran object src/Fortran/CMakeFiles/psa2msa.dir/psa2msa.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/psa2msa.f -o CMakeFiles/psa2msa.dir/psa2msa.f.o [ 52%] Linking C executable pfpam cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfpam.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfpam.dir/utils/pam.c.o CMakeFiles/pfpam.dir/utils/io.c.o CMakeFiles/pfpam.dir/utils/random.c.o -o pfpam make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 53%] Linking Fortran executable pfw cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfw.dir/link.txt --verbose=1 [ 55%] Linking Fortran executable 2ft cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/2ft.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/pfw.dir/io.c.o CMakeFiles/pfw.dir/pfw.f.o -o pfw /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/2ft.dir/2ft.f.o -o 2ft [ 55%] Built target pfpam make -f src/Fortran/CMakeFiles/pfmake.dir/build.make src/Fortran/CMakeFiles/pfmake.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfmake.dir/depend.internal". Scanning dependencies of target pfmake [ 55%] Built target 2ft make -f src/Fortran/CMakeFiles/pfscale.dir/build.make src/Fortran/CMakeFiles/pfscale.dir/depend make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/DependInfo.cmake --color= make -f src/Fortran/CMakeFiles/pfmake.dir/build.make src/Fortran/CMakeFiles/pfmake.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfscale.dir/depend.internal". Scanning dependencies of target pfscale make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfscale.dir/build.make src/Fortran/CMakeFiles/pfscale.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 55%] Built target pfw make -f src/Fortran/CMakeFiles/pfsearch.dir/build.make src/Fortran/CMakeFiles/pfsearch.dir/depend [ 56%] Building Fortran object src/Fortran/CMakeFiles/pfmake.dir/pfmake.f.o make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/DependInfo.cmake --color= cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfmake.f -o CMakeFiles/pfmake.dir/pfmake.f.o Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/DependInfo.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/depend.internal". Dependee "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/CMakeDirectoryInformation.cmake" is newer than depender "/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran/CMakeFiles/pfsearch.dir/depend.internal". Scanning dependencies of target pfsearch make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/Fortran/CMakeFiles/pfsearch.dir/build.make src/Fortran/CMakeFiles/pfsearch.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 58%] Building Fortran object src/Fortran/CMakeFiles/pfscale.dir/pfscale.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfscale.f -o CMakeFiles/pfscale.dir/pfscale.f.o [ 59%] Building Fortran object src/Fortran/CMakeFiles/pfsearch.dir/pfsearch.f.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/f95 -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -fno-automatic -c /build/pftools-EIybem/pftools-3.2.11/src/Fortran/pfsearch.f -o CMakeFiles/pfsearch.dir/pfsearch.f.o [ 61%] Linking Fortran executable psa2msa cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/psa2msa.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/psa2msa.dir/io.c.o CMakeFiles/psa2msa.dir/psa2msa.f.o -o psa2msa make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 62%] Linking Fortran executable 6ft cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/6ft.dir/link.txt --verbose=1 [ 62%] Built target psa2msa make -f src/C/CMakeFiles/pfsearchV3.dir/build.make src/C/CMakeFiles/pfsearchV3.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfsearchV3.dir/DependInfo.cmake --color= /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/6ft.dir/6ft.f.o -o 6ft make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfsearchV3.dir/build.make src/C/CMakeFiles/pfsearchV3.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 64%] Building C object src/C/CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D__USE_AFFINITY__ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o -MF CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o.d -o CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 64%] Built target 6ft make -f src/C/CMakeFiles/pfscanV3.dir/build.make src/C/CMakeFiles/pfscanV3.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfscanV3.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfscanV3.dir/build.make src/C/CMakeFiles/pfscanV3.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 65%] Building C object src/C/CMakeFiles/pfscanV3.dir/prg/pfscan.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D__USE_AFFINITY__ -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfscanV3.dir/prg/pfscan.c.o -MF CMakeFiles/pfscanV3.dir/prg/pfscan.c.o.d -o CMakeFiles/pfscanV3.dir/prg/pfscan.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c In file included from /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:36: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/../include/pfRegexp.h:18: warning: "_POSIX_C_SOURCE" redefined 18 | # define _POSIX_C_SOURCE | In file included from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33, from /usr/include/math.h:27, from /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/config.h:29, from /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:9: /usr/include/features.h:281: note: this is the location of the previous definition 281 | # define _POSIX_C_SOURCE 200809L | In file included from /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:28: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/../include/pfRegexp.h:18: warning: "_POSIX_C_SOURCE" redefined 18 | # define _POSIX_C_SOURCE | In file included from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33, from /usr/include/math.h:27, from /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/config.h:29, from /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:9: /usr/include/features.h:281: note: this is the location of the previous definition 281 | # define _POSIX_C_SOURCE 200809L | /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c: In function ‘Usage’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:154:41: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 154 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:154:57: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 154 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c: In function ‘main’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:368:10: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 368 | fputs(HEADER | ^~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:26:30: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 26 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfscan.c:368:10: note: in expansion of macro ‘HEADER’ 368 | fputs(HEADER | ^~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c: In function ‘Usage’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:191:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 191 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", OutputPrintWidth); | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:191:69: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 191 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", OutputPrintWidth); | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c: In function ‘main’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:494:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 494 | fputs(HEADER | ^~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:33:15: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 33 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfsearch.c:494:23: note: in expansion of macro ‘HEADER’ 494 | fputs(HEADER | ^~~~~~ [ 67%] Linking Fortran executable gtop cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/gtop.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/gtop.dir/gtop.f.o CMakeFiles/gtop.dir/io.c.o -o gtop make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 67%] Built target gtop make -f src/C/utils/CMakeFiles/CALIBRATION.dir/build.make src/C/utils/CMakeFiles/CALIBRATION.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils/CMakeFiles/CALIBRATION.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/utils/CMakeFiles/CALIBRATION.dir/build.make src/C/utils/CMakeFiles/CALIBRATION.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 68%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/random.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/CALIBRATION.dir/random.c.o -MF CMakeFiles/CALIBRATION.dir/random.c.o.d -o CMakeFiles/CALIBRATION.dir/random.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/random.c [ 70%] Linking C executable pfscanV3 cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscanV3.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfscanV3.dir/prg/pfscan.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/OUTPUT_FORMAT.dir/output.c.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfscanV3 -lm -lpthread [ 71%] Building C object src/C/utils/CMakeFiles/CALIBRATION.dir/histogram.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/utils && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/utils/CMakeFiles/CALIBRATION.dir/histogram.c.o -MF CMakeFiles/CALIBRATION.dir/histogram.c.o.d -o CMakeFiles/CALIBRATION.dir/histogram.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/histogram.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 71%] Built target pfscanV3 make -f src/C/CMakeFiles/pfindex.dir/build.make src/C/CMakeFiles/pfindex.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfindex.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfindex.dir/build.make src/C/CMakeFiles/pfindex.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 73%] Building C object src/C/CMakeFiles/pfindex.dir/prg/pfindex.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfindex.dir/prg/pfindex.c.o -MF CMakeFiles/pfindex.dir/prg/pfindex.c.o.d -o CMakeFiles/pfindex.dir/prg/pfindex.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfindex.c /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfindex.c: In function ‘Usage’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfindex.c:84:53: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 84 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", stream); | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfindex.c:84:69: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 84 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", stream); | ^~~~~~~~ [ 74%] Linking Fortran executable ptoh cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/ptoh.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 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-D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfdump.dir/utils/io.c.o -MF CMakeFiles/pfdump.dir/utils/io.c.o.d -o CMakeFiles/pfdump.dir/utils/io.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/io.c make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 77%] Built target pfindex make -f src/C/CMakeFiles/pfemit.dir/build.make src/C/CMakeFiles/pfemit.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfemit.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfemit.dir/build.make src/C/CMakeFiles/pfemit.dir/build make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 79%] Building C object src/C/CMakeFiles/pfemit.dir/utils/generatesequences.c.o cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cc -D_PFEMIT -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/ -I /build/pftools-EIybem/pftools-3.2.11/src/C/include/ -MD -MT src/C/CMakeFiles/pfemit.dir/utils/generatesequences.c.o -MF CMakeFiles/pfemit.dir/utils/generatesequences.c.o.d -o CMakeFiles/pfemit.dir/utils/generatesequences.c.o -c /build/pftools-EIybem/pftools-3.2.11/src/C/utils/generatesequences.c In file included from /build/pftools-EIybem/pftools-3.2.11/src/C/utils/io.c:26: /build/pftools-EIybem/pftools-3.2.11/src/C/include/pfRegexp.h:18: warning: "_POSIX_C_SOURCE" redefined 18 | # define _POSIX_C_SOURCE | In file included from /usr/include/x86_64-linux-gnu/bits/libc-header-start.h:33, from /usr/include/math.h:27, from /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/config.h:29, from /build/pftools-EIybem/pftools-3.2.11/src/C/utils/io.c:9: /usr/include/features.h:281: note: this is the location of the previous definition 281 | # define _POSIX_C_SOURCE 200809L | [ 80%] Linking Fortran executable htop cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script 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Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/ptof.dir/ptof.f.o -o ptof [ 88%] Linking C executable pfemit cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfemit.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfemit.dir/utils/generatesequences.c.o CMakeFiles/pfemit.dir/utils/random.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o -o pfemit -lm [ 88%] Built target CALIBRATION make -f src/C/CMakeFiles/pfcalibrateV3.dir/build.make src/C/CMakeFiles/pfcalibrateV3.dir/depend make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu && /usr/bin/cmake -E cmake_depends "Unix Makefiles" /build/pftools-EIybem/pftools-3.2.11 /build/pftools-EIybem/pftools-3.2.11/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C/CMakeFiles/pfcalibrateV3.dir/DependInfo.cmake --color= make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 88%] Built target ptof make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 88%] Built target pfemit make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make -f src/C/CMakeFiles/pfcalibrateV3.dir/build.make 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/build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c:287:77: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 287 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c:287:93: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 287 | " Version " PF_VERSION " built on " __DATE__ " at " __TIME__ ".\n", | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c: In function ‘main’: /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c:963:23: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 963 | fputs(HEADER | ^~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c:49:15: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 49 | "| Built on " __DATE__ " at " __TIME__ ". |\n" | ^~~~~~~~ /build/pftools-EIybem/pftools-3.2.11/src/C/prg/pfcalibrate.c:963:23: note: in expansion of macro ‘HEADER’ 963 | fputs(HEADER | ^~~~~~ [ 91%] Linking C executable pfcalibrateV3 cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfcalibrateV3.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES_EXTRA.dir/pam.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o utils/CMakeFiles/CALIBRATION.dir/random.c.o utils/CMakeFiles/CALIBRATION.dir/histogram.c.o utils/CMakeFiles/CALIBRATION.dir/quantileregression.c.o utils/CMakeFiles/CALIBRATION.dir/generatesequences.c.o ../Fortran/CMakeFiles/quantile.dir/rq0.f.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfcalibrateV3 -lm -lpthread -lgfortran -lm -lquadmath -lm [ 92%] Linking Fortran executable pfmake cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfmake.dir/link.txt --verbose=1 [ 94%] Linking C executable pfdump cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfdump.dir/link.txt --verbose=1 [ 95%] Linking Fortran executable pfscale cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscale.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/pfmake.dir/pfmake.f.o -o pfmake /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfdump.dir/utils/io.c.o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o -o pfdump /usr/bin/ld: CMakeFiles/pfcalibrateV3.dir/prg/pfcalibrate.c.o: in function `main': ./obj-x86_64-linux-gnu/src/C/./src/C/prg/pfcalibrate.c:1383: warning: the use of `tempnam' is dangerous, better use `mkstemp' /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/pfscale.dir/pfscale.f.o -o pfscale make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 95%] Built target pfdump make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 95%] Built target pfmake make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 95%] Built target pfcalibrateV3 make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 95%] Built target pfscale [ 97%] Linking C executable pfsearchV3 cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/C && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsearchV3.dir/link.txt --verbose=1 /usr/bin/cc -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -std=c99 -msse2 -fms-extensions -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now CMakeFiles/pfsearchV3.dir/prg/pfsearch.c.o utils/CMakeFiles/PROFILES.dir/io.c.o utils/CMakeFiles/PROFILES.dir/profile.c.o utils/CMakeFiles/PROFILES.dir/Normalization.c.o utils/CMakeFiles/SEQUENCES.dir/ReadSequence.c.o sse2/CMakeFiles/SSE2.dir/heuristic_sse2.c.o sse2/CMakeFiles/SSE2.dir/xali1_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalip_sse2.c.o sse2/CMakeFiles/SSE2.dir/xalit_sse2.c.o sse41/CMakeFiles/SSE41.dir/heuristic_sse41.c.o sse41/CMakeFiles/SSE41.dir/xali1_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalip_sse41.c.o sse41/CMakeFiles/SSE41.dir/xalit_sse41.c.o utils/CMakeFiles/OUTPUT_FORMAT.dir/output.c.o CMakeFiles/REGEXP.dir/utils/pfregexp.c.o utils/CMakeFiles/SYSTEM.dir/system.c.o -o pfsearchV3 -lm -lpthread make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [ 97%] Built target pfsearchV3 [ 98%] Linking Fortran executable pfscan cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfscan.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/pfscan.dir/pfscan.f.o -o pfscan make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [100%] Linking Fortran executable pfsearch [100%] Built target pfscan cd /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/src/Fortran && /usr/bin/cmake -E cmake_link_script CMakeFiles/pfsearch.dir/link.txt --verbose=1 /usr/bin/f95 -Wl,--enable-new-dtags -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/pftools-EIybem/pftools-3.2.11=. -fstack-protector-strong CMakeFiles/pfsearch.dir/pfsearch.f.o -o pfsearch make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' [100%] Built target pfsearch make[2]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' /usr/bin/cmake -E cmake_progress_start /build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu/CMakeFiles 0 make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' create-stamp debian/debhelper-build-stamp dh_prep -a debian/rules override_dh_auto_install make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11' dh_auto_install cd obj-x86_64-linux-gnu && make -j10 install DESTDIR=/build/pftools-EIybem/pftools-3.2.11/debian/pftools AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true" make[2]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' /usr/bin/cmake -S/build/pftools-EIybem/pftools-3.2.11 -B/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0 make -f CMakeFiles/Makefile2 preinstall make[3]: Entering directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' make[3]: Nothing to be done for 'preinstall'. make[3]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' Install the project... /usr/bin/cmake -P cmake_install.cmake -- Install configuration: 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/build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/standard.random -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_V2.sh.cmake -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_V3.out -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_V3.sh.cmake -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_V3_output.sh.cmake -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_pfsearchV3_iupac.pl.cmake -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/examples/test_scan_search.pl.cmake -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/doc/profile.pdf -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/doc/profile.txt -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/doc/posterPfsearchV3SIBdays2013_v0.3.pdf -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/doc/btt129.pdf -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/2ft.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/6ft.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/gtop.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/htop.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfmake.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfscale.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfscan.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfsearch.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfsearchV2.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/pfw.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/psa2msa.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/ptof.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man1/ptoh.1 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man5/psa.5 -- Installing: /build/pftools-EIybem/pftools-3.2.11/debian/pftools/usr/share/man/man5/xpsa.5 make[2]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11/obj-x86_64-linux-gnu' # Avoid name spacing conflict with htop and consequently also rename gtop mv debian/pftools/usr/bin/gtop debian/pftools/usr/bin/pfgtop mv debian/pftools/usr/bin/htop debian/pftools/usr/bin/pfhtop make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11' dh_installdocs -a dh_installchangelogs -a debian/rules override_dh_installexamples make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11' dh_installexamples cp -a debian/pftools/usr/share/examples/* debian/pftools/usr/share/doc/pftools/examples/ rm -rf debian/pftools/usr/share/data/ debian/pftools/usr/share/examples/ make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11' debian/rules override_dh_installman make[1]: Entering directory '/build/pftools-EIybem/pftools-3.2.11' dh_installman mv debian/pftools/usr/share/man/man1/gtop.1 debian/pftools/usr/share/man/man1/pfgtop.1 mv debian/pftools/usr/share/man/man1/htop.1 debian/pftools/usr/share/man/man1/pfhtop.1 mv debian/pftools/usr/share/doc/*.pdf debian/pftools/usr/share/doc/pftools/ rm -f debian/pftools/usr/share/doc/*.txt debian/pftools/usr/ChangeLog debian/pftools/usr/README* debian/pftools/usr/LICENSE make[1]: Leaving directory '/build/pftools-EIybem/pftools-3.2.11' dh_lintian -a dh_perl -a dh_link -a dh_strip_nondeterminism -a dh_compress -a dh_fixperms -a dh_missing -a dh_dwz -a dwz: debian/pftools/usr/bin/pfhtop: DWARF compression not beneficial - old size 40696 new size 41273 dwz: debian/pftools/usr/bin/pfmake: DWARF compression not beneficial - old size 52431 new size 53628 dwz: debian/pftools/usr/bin/pfscale: DWARF compression not beneficial - old size 42016 new size 42584 dwz: debian/pftools/usr/bin/pfscan: DWARF compression not beneficial - old size 66249 new size 69656 dwz: debian/pftools/usr/bin/pfsearch: DWARF compression not beneficial - old size 68447 new size 72033 dwz: debian/pftools/usr/bin/ptof: DWARF compression not beneficial - old size 40511 new size 40864 dwz: debian/pftools/usr/bin/ptoh: DWARF compression not beneficial - old size 34738 new size 35401 dh_strip -a dh_makeshlibs -a dh_shlibdeps -a dh_installdeb -a dh_gencontrol -a dpkg-gencontrol: warning: package pftools: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package pftools: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'pftools-dbgsym' in '../pftools-dbgsym_3.2.11-2+b1_amd64.deb'. dpkg-deb: building package 'pftools' in '../pftools_3.2.11-2+b1_amd64.deb'. dpkg-genbuildinfo --build=any -O../pftools_3.2.11-2+b1_amd64.buildinfo dpkg-genchanges --build=any -O../pftools_3.2.11-2+b1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/pftools-EIybem /tmp/pftools-3.2.11-2+b10m8j_hx0 I: cleaning package lists and apt cache... I: removing tempdir /tmp/mmdebstrap.ecaS5ZRnBm... I: success in 409.7040 seconds md5: pftools-dbgsym_3.2.11-2+b1_amd64.deb: OK md5: pftools_3.2.11-2+b1_amd64.deb: OK sha1: pftools-dbgsym_3.2.11-2+b1_amd64.deb: OK sha1: pftools_3.2.11-2+b1_amd64.deb: OK sha256: pftools-dbgsym_3.2.11-2+b1_amd64.deb: OK sha256: pftools_3.2.11-2+b1_amd64.deb: OK Checksums: OK