Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/pirs/pirs_2.0.2+dfsg-9_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/pirs-2.0.2+dfsg-9ud6a1ifw/pirs_2.0.2+dfsg-9_amd64.buildinfo Get source package info: pirs=2.0.2+dfsg-9 Source URL: http://snapshot.notset.fr/mr/package/pirs/2.0.2+dfsg-9/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.69-11.1 automake=1:1.16.3-1 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.48 bash=5.1~rc3-1 binutils=2.35.1-3 binutils-common=2.35.1-3 binutils-x86-64-linux-gnu=2.35.1-3 bsdextrautils=2.36.1-2 bsdutils=1:2.36.1-2 build-essential=12.8 bzip2=1.0.8-4 coreutils=8.32-4+b1 cpp=4:10.2.0-1 cpp-10=10.2.0-19 dash=0.5.11+git20200708+dd9ef66-2 debconf=1.5.74 debhelper=13.2.1 debianutils=4.11.2 dh-autoreconf=19 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13-5 file=1:5.39-3 findutils=4.7.0+git20201010-2 g++=4:10.2.0-1 g++-10=10.2.0-19 gcc=4:10.2.0-1 gcc-10=10.2.0-19 gcc-10-base=10.2.0-19 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 grep=3.6-1 groff-base=1.22.4-5 gzip=1.10-2 hostname=3.23 init-system-helpers=1.59 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-8 libarchive-zip-perl=1.68-1 libasan6=10.2.0-19 libatomic1=10.2.0-19 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3.1 libaudit1=1:2.8.5-3.1 libbinutils=2.35.1-3 libblkid1=2.36.1-2 libboost-dev=1.71.0.3 libboost1.71-dev=1.71.0-7+b1 libbz2-1.0=1.0.8-4 libc-bin=2.31-5 libc-dev-bin=2.31-5 libc6=2.31-5 libc6-dev=2.31-5 libcap-ng0=0.7.9-2.2+b1 libcc1-0=10.2.0-19 libcom-err2=1.45.6-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35.1-3 libctf0=2.35.1-3 libdb5.3=5.3.28+dfsg1-0.6 libdebconfclient0=0.255 libdebhelper-perl=13.2.1 libdpkg-perl=1.20.5 libelf1=0.182-1 libffi7=3.3-5 libfile-stripnondeterminism-perl=1.9.0-1 libgcc-10-dev=10.2.0-19 libgcc-s1=10.2.0-19 libgcrypt20=1.8.7-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libglib2.0-0=2.66.3-2 libgmp10=2:6.2.1+dfsg-1 libgomp1=10.2.0-19 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-4 libgzstream-dev=1.5+dfsg-5 libgzstream0=1.5+dfsg-5 libicu67=67.1-4 libisl23=0.23-1 libitm1=10.2.0-19 libk5crypto3=1.18.3-4 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-4 libkrb5support0=1.18.3-4 liblsan0=10.2.0-19 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmount1=2.36.1-2 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libpcre2-8-0=10.34-7 libpcre3=2:8.39-13 libperl5.32=5.32.0-5 libpipeline1=1.5.3-1 libquadmath0=10.2.0-19 libseccomp2=2.5.0-3 libselinux1=3.1-2+b1 libsigsegv2=2.12-2 libsmartcols1=2.36.1-2 libssl1.1=1.1.1h-1 libstdc++-10-dev=10.2.0-19 libstdc++6=10.2.0-19 libsub-override-perl=0.09-2 libsystemd0=246.6-5 libtinfo6=6.2+20201114-1 libtirpc-common=1.2.6-3 libtirpc-dev=1.2.6-3 libtirpc3=1.2.6-3 libtool=2.4.6-14 libtsan0=10.2.0-19 libubsan1=10.2.0-19 libuchardet0=0.0.7-1 libudev1=246.6-5 libunistring2=0.9.10-4 libuuid1=2.36.1-2 libxml2=2.9.10+dfsg-6.3 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.9.11-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-4 make=4.3-4 man-db=2.9.3-2 mawk=1.3.4.20200120-2 ncurses-base=6.2+20201114-1 ncurses-bin=6.2+20201114-1 patch=2.7.6-6 perl=5.32.0-5 perl-base=5.32.0-5 perl-modules-5.32=5.32.0-5 po-debconf=1.0.21 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-5 tar=1.32+dfsg-1 util-linux=2.36.1-2 xz-utils=5.2.4-1+b1 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201202T205335Z/ 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 pirs=2.0.2+dfsg-9 && mkdir -p /build/pirs-uwxOr7 && dpkg-source --no-check -x /*.dsc /build/pirs-uwxOr7/pirs-2.0.2+dfsg && chown -R builduser:builduser /build/pirs-uwxOr7" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pirs-uwxOr7/pirs-2.0.2+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607166082" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/pirs-uwxOr7 /tmp/pirs-2.0.2+dfsg-9ud6a1ifw bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20201202T205335Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap.WwQ3A_oQOC 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.WwQ3A_oQOC Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-2). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20201202T205335Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20201202T205335Z unstable/main amd64 fakeroot amd64 1.25.3-1.1 [87.0 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (932 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 ... 4614 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.25.3-1.1_amd64.deb ... Unpacking libfakeroot:amd64 (1.25.3-1.1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.25.3-1.1_amd64.deb ... Unpacking fakeroot (1.25.3-1.1) ... Setting up libfakeroot:amd64 (1.25.3-1.1) ... Setting up fakeroot (1.25.3-1.1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-5) ... 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20201202T205335Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.WwQ3A_oQOC Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20201202T205335Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Fetched 22.6 MB in 20s (1102 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.WwQ3A_oQOC I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d pirs=2.0.2+dfsg-9 && mkdir -p /build/pirs-uwxOr7 && dpkg-source --no-check -x /*.dsc /build/pirs-uwxOr7/pirs-2.0.2+dfsg && chown -R builduser:builduser /build/pirs-uwxOr7"' exec /tmp/mmdebstrap.WwQ3A_oQOC Reading package lists... NOTICE: 'pirs' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pirs.git Please use: git clone https://salsa.debian.org/med-team/pirs.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 6038 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pirs 2.0.2+dfsg-9 (dsc) [2119 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pirs 2.0.2+dfsg-9 (tar) [6029 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main pirs 2.0.2+dfsg-9 (diff) [7040 B] Fetched 6038 kB in 5s (1232 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'pirs_2.0.2+dfsg-9.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting pirs in /build/pirs-uwxOr7/pirs-2.0.2+dfsg dpkg-source: info: unpacking pirs_2.0.2+dfsg.orig.tar.xz dpkg-source: info: unpacking pirs_2.0.2+dfsg-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying use_debian_packaged_libgzstream.patch dpkg-source: info: applying Fix-spelling-of-sse2-option.patch dpkg-source: info: applying do_not_seek_for_arial.ttf.patch dpkg-source: info: applying Remove-mtune-compiler-flag.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pirs-uwxOr7/pirs-2.0.2+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1607166082" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.WwQ3A_oQOC dpkg-buildpackage: info: source package pirs dpkg-buildpackage: info: source version 2.0.2+dfsg-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --sourcedirectory=src debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_auto_clean cd src && ./srclean.sh >/dev/null 2>/dev/null || true make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_autoreconf_clean -O--sourcedirectory=src dh_clean -O--sourcedirectory=src debian/rules binary-arch dh binary-arch --sourcedirectory=src dh_update_autotools_config -a -O--sourcedirectory=src debian/rules override_dh_autoreconf make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' cd src && \ mv INSTALL INSTALL.save && \ autoreconf --install && \ mv INSTALL.save INSTALL && \ cd /build/pirs-uwxOr7/pirs-2.0.2+dfsg configure.ac:9: installing './compile' configure.ac:3: installing './install-sh' configure.ac:3: installing './missing' Makefile.am: installing './INSTALL' pirs/Makefile.am:28: warning: source file 'SFMT-src-1.4/SFMT.c' is in a subdirectory, pirs/Makefile.am:28: but option 'subdir-objects' is disabled automake: warning: possible forward-incompatibility. automake: At least a source file is in a subdirectory, but the 'subdir-objects' automake: automake option hasn't been enabled. For now, the corresponding output automake: object file(s) will be placed in the top-level directory. However, automake: this behaviour will change in future Automake versions: they will automake: unconditionally cause object files to be placed in the same subdirectory automake: of the corresponding sources. automake: You are advised to start using 'subdir-objects' option throughout your automake: project, to avoid future incompatibilities. pirs/Makefile.am: installing './depcomp' make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' debian/rules override_dh_auto_configure make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_auto_configure -- --enable-pirs-diploid --disable-sse2 cd src && ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-pirs-diploid --disable-sse2 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking for g++... g++ checking whether the C++ compiler works... yes checking for C++ compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking whether make supports the include directive... yes (GNU style) checking dependency style of g++... none checking for gcc... gcc checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking whether gcc understands -c and -o together... yes checking dependency style of gcc... none checking for gzopen in -lz... yes checking Whether to include support for 'pirs diploid' command... yes checking Whether to include support for 'pirs simulate' command... yes checking Whether to include support for multiple threads... yes checking for g++ option to support OpenMP... -fopenmp checking Whether to include support for SSE2 instructions... no checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating Makefile config.status: creating pirs/Makefile config.status: creating config.h config.status: executing depfiles commands make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' debian/rules override_dh_auto_build make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_auto_build cd src && make -j4 make[2]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' (CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/missing' autoheader) rm -f stamp-h1 touch config.h.in cd . && /bin/bash ./config.status config.h config.status: creating config.h config.status: config.h is unchanged make all-recursive make[3]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' Making all in pirs make[4]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/pirs' g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InputStream.o InputStream.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o OutputStream.o OutputStream.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.o util.cpp main.cpp:18:19: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 18 | "Compile Date: " __DATE__ " time: " __TIME__ "\n" | ^~~~~~~~ main.cpp:18:38: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 18 | "Compile Date: " __DATE__ " time: " __TIME__ "\n" | ^~~~~~~~ In file included from InputStream.cpp:1: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from OutputStream.cpp:1: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ In file included from util.cpp:18: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mt19937-64.o mt19937-64.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_diploid.o pirs_diploid.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o BaseCallingProfile.o BaseCallingProfile.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GCBiasProfile.o GCBiasProfile.cpp pirs_diploid.cpp:639:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:639:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:639:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:641:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:641:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:641:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n", | ^ pirs_diploid.cpp:643:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 643 | info(" %#"PRIx64"]\n", het_type_tab[6]); | ^ In file included from pirs_diploid.cpp:11: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from pirs_diploid.cpp:12: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o IndelProfile.o IndelProfile.cpp In file included from SimulationParameters.h:6, from GCBiasProfile.h:5, from GCBiasProfile.cpp:5: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from SimulationParameters.h:7, from GCBiasProfile.h:5, from GCBiasProfile.cpp:5: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ In file included from SimulationParameters.h:6, from BaseCallingProfile.h:7, from BaseCallingProfile.cpp:5: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from SimulationParameters.h:7, from BaseCallingProfile.h:7, from BaseCallingProfile.cpp:5: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MaskQvalsByEamss.o MaskQvalsByEamss.cpp In file included from SimulationParameters.h:6, from IndelProfile.cpp:2: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from SimulationParameters.h:7, from IndelProfile.cpp:2: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Profile.o Profile.cpp g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_simulate.o pirs_simulate.cpp pirs_simulate.cpp:168:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 168 | " "DEFAULT_BASE_CALLING_PROFILE"\n" | ^ pirs_simulate.cpp:174:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 174 | " "DEFAULT_INDEL_PROFILE"\n" | ^ pirs_simulate.cpp:180:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 180 | " "DEFAULT_GC_BIAS_PROFILE_100",\n" | ^ pirs_simulate.cpp:181:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 181 | " "DEFAULT_GC_BIAS_PROFILE_150",\n" | ^ pirs_simulate.cpp:182:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 182 | " "DEFAULT_GC_BIAS_PROFILE_200",\n" | ^ pirs_simulate.cpp:672:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 672 | out_file.printf("%cread_%d_%"PRIu64"/%d\n", | ^ pirs_simulate.cpp:700:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 700 | info_log_file.printf("read_%d_%"PRIu64"/%d\t%s\t%s\t%zu\t%c\t%d\t%d\t", | ^ pirs_simulate.cpp:1235:10: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1235 | info("Simulated %"PRIu64" of %"PRIu64" read pairs\n", | ^ pirs_simulate.cpp:1235:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1235 | info("Simulated %"PRIu64" of %"PRIu64" read pairs\n", | ^ pirs_simulate.cpp:1540:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1540 | insert_log.printf("%d\t%"PRIu64"\n", it->first, it->second); | ^ pirs_simulate.cpp:1557:2: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1557 | "# The total number of read pairs that were simulated was %"PRIu64".\n" | ^ pirs_simulate.cpp:1574:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1574 | error_log.printf("%d\t%"PRIu64"\t%g\n", | ^ pirs_simulate.cpp:1579:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1579 | error_log.printf("total\t%"PRIu64"\t%g\n", | ^ pirs_simulate.cpp:1685:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1685 | log_parameter(info_log, "Random seed: %"PRIu64"\n", | ^ pirs_simulate.cpp:1713:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1713 | info("Program: "PROGRAM "\n"); | ^ pirs_simulate.cpp:1714:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1714 | info("Version: "VERSION "\n"); | ^ pirs_simulate.cpp:1715:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1715 | info("Author: "AUTHOR "\n"); | ^ pirs_simulate.cpp:1716:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1716 | info("Contact: "CONTACT "\n"); | ^ pirs_simulate.cpp:1717:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); | ^ pirs_simulate.cpp:1717:25: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time] 1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); | ^~~~~~~~ pirs_simulate.cpp:1717:44: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time] 1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n"); | ^~~~~~~~ pirs_simulate.cpp:1764:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1764 | info("Bases in reference sequences: %"PRIu64"\n", | ^ pirs_simulate.cpp:1766:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1766 | info("Read pairs simulated: %"PRIu64"\n", | ^ pirs_simulate.cpp:1768:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1768 | info("Bases in reads: %"PRIu64"\n", | ^ pirs_simulate.cpp:1773:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1773 | info("Substitution error count: %"PRIu64"\n", | ^ pirs_simulate.cpp:1777:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1777 | info("Insertion count: %"PRIu64"\n", | ^ pirs_simulate.cpp:1779:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1779 | info("Deletion count: %"PRIu64"\n", | ^ pirs_simulate.cpp:1795:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1795 | info("Bases masked by EAMSS algorithm: %"PRIu64"\n", counters.masked_bases); | ^ pirs_simulate.cpp:1856:8: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix] 1856 | info("Note: A random seed (%"PRIu64") was specified on the command line.\n", | ^ In file included from Profile.cpp:2: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from SimulationParameters.h:6, from BaseCallingProfile.h:7, from pirs_simulate.cpp:14: InputStream.h: In constructor ‘InputStream::InputStream()’: InputStream.h:50:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 50 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ InputStream.h: In constructor ‘InputStream::InputStream(const char*)’: InputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class InputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ InputStream.h:25:7: note: ‘class InputStream’ declared here 25 | class InputStream { | ^~~~~~~~~~~ In file included from SimulationParameters.h:7, from BaseCallingProfile.h:7, from pirs_simulate.cpp:14: OutputStream.h: In constructor ‘OutputStream::OutputStream()’: OutputStream.h:54:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 54 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ OutputStream.h: In constructor ‘OutputStream::OutputStream(const char*, OutputType)’: OutputStream.h:58:32: warning: ‘void* memset(void*, int, size_t)’ clearing an object of non-trivial type ‘class OutputStream’; use assignment or value-initialization instead [-Wclass-memaccess] 58 | memset(this, 0, sizeof(*this)); | ^ OutputStream.h:33:7: note: ‘class OutputStream’ declared here 33 | class OutputStream { | ^~~~~~~~~~~~ g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/build/pirs-uwxOr7/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o pirs InputStream.o OutputStream.o main.o util.o mt19937-64.o pirs_diploid.o BaseCallingProfile.o GCBiasProfile.o IndelProfile.o MaskQvalsByEamss.o Profile.o pirs_simulate.o -lz -lz make[4]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/pirs' make[4]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' make[4]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' make[3]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' make[2]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' dh_auto_build --sourcedirectory=src/stator/gcContCvgBias -- CC='$(CXX)' cd src/stator/gcContCvgBias && make -j4 "INSTALL=install --strip-program=true" CC=\$\(CXX\) make[2]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/stator/gcContCvgBias' g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.cpp self_util.h g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal main.cpp g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal stat_soap_coverage.h stat_soap_coverage.cpp self_util.cpp: In function ‘char toUpper(const char&)’: self_util.cpp:182:1: warning: control reaches end of non-void function [-Wreturn-type] 182 | } | ^ self_util.cpp: In function ‘char toLower(const char&)’: self_util.cpp:190:1: warning: control reaches end of non-void function [-Wreturn-type] 190 | } | ^ In file included from /usr/include/boost/config/header_deprecated.hpp:18, from /usr/include/boost/progress.hpp:22, from stat_soap_coverage.cpp:8: /usr/include/boost/progress.hpp:23:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 23 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ /usr/include/boost/timer.hpp:21:1: note: ‘#pragma message: This header is deprecated. Use the facilities in instead.’ 21 | BOOST_HEADER_DEPRECATED( "the facilities in " ) | ^~~~~~~~~~~~~~~~~~~~~~~ g++ -o gc_coverage_bias -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.o main.o stat_soap_coverage.o -Wl,-z,relro -Wl,-z,now -lgzstream -lz make[2]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/stator/gcContCvgBias' make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_auto_test -a -O--sourcedirectory=src cd src && make -j4 check VERBOSE=1 make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' Making check in pirs make[2]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/pirs' make[2]: Nothing to be done for 'check'. make[2]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src/pirs' make[2]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' make[2]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg/src' create-stamp debian/debhelper-build-stamp dh_testroot -a -O--sourcedirectory=src dh_prep -a -O--sourcedirectory=src debian/rules override_dh_auto_install make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_auto_install --sourcedirectory=src/stator/gcContCvgBias make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' debian/rules override_dh_install make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_install mkdir -p debian/pirs/usr/lib/pirs find src -name "*.pl" -exec cp -a \{\} debian/pirs/usr/lib/pirs \; rm -f debian/pirs/usr/lib/pirs/autobam.pl # Fix perl interpreter path for pl in `grep -Rl '#![/usr]*/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \ sed -i '1s?^#![/usr]*/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \ done make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' debian/rules override_dh_installdocs-arch make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_installdocs -a cp -a src/stator/readme.txt debian/pirs/usr/share/doc/pirs/strator_readme.txt make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' debian/rules override_dh_installchangelogs make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_installchangelogs NEWS make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_installsystemduser -a -O--sourcedirectory=src dh_perl -a -O--sourcedirectory=src debian/rules override_dh_link-arch make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_link -a for pl in debian/pirs/usr/lib/pirs/*.pl ; do \ plname=`basename ${pl}` ; \ ln -s ../lib/pirs/${plname} debian/pirs/usr/bin/`basename ${plname} .pl` ; \ done make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_strip_nondeterminism -a -O--sourcedirectory=src dh_compress -a -O--sourcedirectory=src debian/rules override_dh_fixperms make[1]: Entering directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_fixperms find debian/*/usr/lib -name "*.pl" -exec chmod +x \{\} \; make[1]: Leaving directory '/build/pirs-uwxOr7/pirs-2.0.2+dfsg' dh_missing -a -O--sourcedirectory=src dh_dwz -a -a -O--sourcedirectory=src dwz: debian/pirs/usr/bin/gc_coverage_bias: .debug_info section not present dwz: Too few files for multifile optimization dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it. dh_dwz: warning: Common issues include no debug information at all (missing -g) and dh_dwz: warning: compressed debug information (#931891). dh_strip -a -a -O--sourcedirectory=src dh_makeshlibs -a -a -O--sourcedirectory=src dh_shlibdeps -a -a -O--sourcedirectory=src dh_installdeb -a -O--sourcedirectory=src dh_gencontrol -a -O--sourcedirectory=src dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined dh_md5sums -a -O--sourcedirectory=src dh_builddeb -a -O--sourcedirectory=src dpkg-deb: building package 'pirs-dbgsym' in '../pirs-dbgsym_2.0.2+dfsg-9_amd64.deb'. dpkg-deb: building package 'pirs' in '../pirs_2.0.2+dfsg-9_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../pirs_2.0.2+dfsg-9_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/pirs-uwxOr7 /tmp/pirs-2.0.2+dfsg-9ud6a1ifw I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.WwQ3A_oQOC... I: success in 494.1195 seconds md5: pirs-dbgsym_2.0.2+dfsg-9_amd64.deb: OK md5: pirs_2.0.2+dfsg-9_amd64.deb: OK sha1: pirs-dbgsym_2.0.2+dfsg-9_amd64.deb: OK sha1: pirs_2.0.2+dfsg-9_amd64.deb: OK sha256: pirs-dbgsym_2.0.2+dfsg-9_amd64.deb: OK sha256: pirs_2.0.2+dfsg-9_amd64.deb: OK Checksums: OK