Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/b/bamtools/bamtools_2.5.1+dfsg-9_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/bamtools-2.5.1+dfsg-90b5kju80/bamtools_2.5.1+dfsg-9_all.buildinfo Get source package info: bamtools=2.5.1+dfsg-9 Source URL: http://snapshot.notset.fr/mr/package/bamtools/2.5.1+dfsg-9/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=adduser=3.118 apt=2.2.3 autoconf=2.69-14 automake=1:1.16.3-2 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=11.1 base-passwd=3.5.49 bash=5.1-2+b1 binutils=2.35.2-2 binutils-common=2.35.2-2 binutils-x86-64-linux-gnu=2.35.2-2 bsdextrautils=2.36.1-7 bsdutils=1:2.36.1-7 build-essential=12.9 bzip2=1.0.8-4 cmake=3.18.4-2 cmake-data=3.18.4-2 coreutils=8.32-4+b1 cpp=4:10.2.1-1 cpp-10=10.2.1-6 d-shlibs=0.98 dash=0.5.11+git20210120+802ebd4-1 debconf=1.5.76 debhelper=13.3.4 debian-archive-keyring=2021.1.1 debianutils=4.11.2 dh-autoreconf=20 dh-strip-nondeterminism=1.11.0-1 diffutils=1:3.7-5 doxygen=1.9.1-2 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 file=1:5.39-3 findutils=4.8.0-1 g++=4:10.2.1-1 g++-10=10.2.1-6 gcc=4:10.2.1-1 gcc-10=10.2.1-6 gcc-10-base=10.2.1-6 gettext=0.21-4 gettext-base=0.21-4 gpgv=2.2.27-1 grep=3.6-1 groff-base=1.22.4-6 gzip=1.10-4 help2man=1.48.3 hostname=3.23 init-system-helpers=1.60 intltool-debian=0.35.0+20060710.5 libacl1=2.2.53-10 libapt-pkg6.0=2.2.3 libarchive-zip-perl=1.68-1 libarchive13=3.4.3-2+b1 libasan6=10.2.1-6 libatomic1=10.2.1-6 libattr1=1:2.4.48-6 libaudit-common=1:3.0-2 libaudit1=1:3.0-2 libbinutils=2.35.2-2 libblkid1=2.36.1-7 libbrotli1=1.0.9-2+b2 libbsd0=0.11.3-1 libbz2-1.0=1.0.8-4 libc-bin=2.31-11 libc-dev-bin=2.31-11 libc6=2.31-11 libc6-dev=2.31-11 libcap-ng0=0.7.9-2.2+b1 libcc1-0=10.2.1-6 libclang-cpp11=1:11.0.1-2 libclang1-11=1:11.0.1-2 libcom-err2=1.46.2-1 libcrypt-dev=1:4.4.18-2 libcrypt1=1:4.4.18-2 libctf-nobfd0=2.35.2-2 libctf0=2.35.2-2 libcurl4=7.74.0-1.2 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.257 libdebhelper-perl=13.3.4 libdpkg-perl=1.20.9 libedit2=3.1-20191231-2+b1 libelf1=0.183-3 libexpat1=2.2.10-2 libffi7=3.3-6 libfile-stripnondeterminism-perl=1.11.0-1 libgcc-10-dev=10.2.1-6 libgcc-s1=10.2.1-6 libgcrypt20=1.8.7-3 libgdbm-compat4=1.19-2 libgdbm6=1.19-2 libgmp10=2:6.2.1+dfsg-1 libgnutls30=3.7.1-3 libgomp1=10.2.1-6 libgpg-error0=1.38-2 libgssapi-krb5-2=1.18.3-5 libhogweed6=3.7.2-3 libicu67=67.1-6 libidn2-0=2.3.0-5 libisl23=0.23-1 libitm1=10.2.1-6 libjsoncpp-dev=1.9.4-4 libjsoncpp24=1.9.4-4 libk5crypto3=1.18.3-5 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-5 libkrb5support0=1.18.3-5 libldap-2.4-2=2.4.57+dfsg-2 libllvm11=1:11.0.1-2 liblocale-gettext-perl=1.07-4+b1 liblsan0=10.2.1-6 liblz4-1=1.9.3-1 liblzma5=5.2.5-2 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmd0=1.0.3-3 libmount1=2.36.1-7 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libncurses6=6.2+20201114-2 libncursesw6=6.2+20201114-2 libnettle8=3.7.2-3 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.23.22-1 libpam-modules=1.4.0-7 libpam-modules-bin=1.4.0-7 libpam-runtime=1.4.0-7 libpam0g=1.4.0-7 libpcre2-8-0=10.36-2 libpcre3=2:8.39-13 libperl5.32=5.32.1-3 libpipeline1=1.5.3-1 libprocps8=2:3.3.17-5 libpsl5=0.21.0-1.2 libquadmath0=10.2.1-6 librhash0=1.4.1-2 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2.1 libsasl2-modules-db=2.1.27+dfsg-2.1 libseccomp2=2.5.1-1 libselinux1=3.1-3 libsemanage-common=3.1-1 libsemanage1=3.1-1+b2 libsepol1=3.1-1 libsigsegv2=2.13-1 libsmartcols1=2.36.1-7 libssh2-1=1.9.0-3 libssl1.1=1.1.1k-1 libstdc++-10-dev=10.2.1-6 libstdc++6=10.2.1-6 libsub-override-perl=0.09-2 libsystemd0=247.3-5 libtasn1-6=4.16.0-2 libtinfo6=6.2+20201114-2 libtirpc-common=1.3.1-1 libtirpc-dev=1.3.1-1 libtirpc3=1.3.1-1 libtool=2.4.6-15 libtsan0=10.2.1-6 libubsan1=10.2.1-6 libuchardet0=0.0.7-1 libudev1=247.3-5 libunistring2=0.9.10-4 libuuid1=2.36.1-7 libuv1=1.40.0-1 libxapian30=1.4.18-3 libxml2=2.9.10+dfsg-6.3+b1 libxxhash0=0.8.0-2 libz3-4=4.8.10-1 libzstd1=1.4.8+dfsg-2.1 linux-libc-dev=5.10.28-1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-2 mawk=1.3.4.20200120-2 ncurses-base=6.2+20201114-2 ncurses-bin=6.2+20201114-2 passwd=1:4.8.1-1 patch=2.7.6-7 perl=5.32.1-3 perl-base=5.32.1-3 perl-modules-5.32=5.32.1-3 po-debconf=1.0.21+nmu1 procps=2:3.3.17-5 sed=4.7-1 sensible-utils=0.0.14 sysvinit-utils=2.96-6 tar=1.34+dfsg-1 util-linux=2.36.1-7 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/20210814T212851Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20210814T212851Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20210417T032148Z/ 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 bamtools=2.5.1+dfsg-9 && mkdir -p /build/bamtools-FyezqN && dpkg-source --no-check -x /*.dsc /build/bamtools-FyezqN/bamtools-2.5.1+dfsg && chown -R builduser:builduser /build/bamtools-FyezqN" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/bamtools-FyezqN/bamtools-2.5.1+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1618514916" dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/bamtools-FyezqN /tmp/bamtools-2.5.1+dfsg-90b5kju80 bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20210417T032148Z 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.qG7gm1S7Cz 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.qG7gm1S7Cz Reading package lists... Building dependency tree... util-linux is already the newest version (2.36.1-7). 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/20210417T032148Z unstable/main amd64 libfakeroot amd64 1.25.3-1.1 [47.0 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210417T032148Z 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 (803 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 ... 4668 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 (2.31-11) ... 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/20210417T032148Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.qG7gm1S7Cz Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20210417T032148Z 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 19s (1177 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.qG7gm1S7Cz I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d bamtools=2.5.1+dfsg-9 && mkdir -p /build/bamtools-FyezqN && dpkg-source --no-check -x /*.dsc /build/bamtools-FyezqN/bamtools-2.5.1+dfsg && chown -R builduser:builduser /build/bamtools-FyezqN"' exec /tmp/mmdebstrap.qG7gm1S7Cz Reading package lists... NOTICE: 'bamtools' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/bamtools.git Please use: git clone https://salsa.debian.org/med-team/bamtools.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 211 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main bamtools 2.5.1+dfsg-9 (dsc) [2388 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main bamtools 2.5.1+dfsg-9 (tar) [197 kB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main bamtools 2.5.1+dfsg-9 (diff) [11.8 kB] Fetched 211 kB in 0s (1260 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'bamtools_2.5.1+dfsg-9.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting bamtools in /build/bamtools-FyezqN/bamtools-2.5.1+dfsg dpkg-source: info: unpacking bamtools_2.5.1+dfsg.orig.tar.gz dpkg-source: info: unpacking bamtools_2.5.1+dfsg-9.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying doxygen-tweak dpkg-source: info: applying 0001-ignore-thirdparty-and-fix-jsoncpp.patch dpkg-source: info: applying 0003-remove-custom-ExportHeader-function-use-install-inst.patch dpkg-source: info: applying 0006-Doxygen-reproducibility dpkg-source: info: applying 0008_Cmake_Test.patch dpkg-source: info: applying spelling dpkg-source: info: applying tiddit.patch dpkg-source: info: applying shared_and_static.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/bamtools-FyezqN/bamtools-2.5.1+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1618514916" dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.qG7gm1S7Cz dpkg-buildpackage: info: source package bamtools dpkg-buildpackage: info: source version 2.5.1+dfsg-9 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Andreas Tille dpkg-source --before-build . debian/rules clean dh clean dh_clean debian/rules binary-indep dh binary-indep dh_update_autotools_config -i dh_autoreconf -i dh_auto_configure -i cd obj-x86_64-linux-gnu && cmake -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles" -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu .. -- The CXX compiler identification is GNU 10.2.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/c++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done CMake Deprecation Warning at CMakeLists.txt:22 (cmake_policy): The OLD behavior for policy CMP0042 will be removed from a future version of CMake. The cmake-policies(7) manual explains that the OLD behaviors of all policies are deprecated and that a policy should be set to OLD only under specific short-term circumstances. Projects should be ported to the NEW behavior and not rely on setting a policy to OLD. -- Could NOT find PkgConfig (missing: PKG_CONFIG_EXECUTABLE) -- Checking for one of the modules 'jsoncpp>=1' Did NOT find system JsonCpp, instead using bundled version -- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.11") -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_EXPORT_NO_PACKAGE_REGISTRY -- Build files have been written to: /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/obj-x86_64-linux-gnu debian/rules override_dh_auto_build-indep make[1]: Entering directory '/build/bamtools-FyezqN/bamtools-2.5.1+dfsg' doxygen -u docs/Doxyfile warning: Tag 'SYMBOL_CACHE_SIZE' at line 300 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'SHOW_DIRECTORIES' at line 500 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'COLS_IN_ALPHA_INDEX' at line 801 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'HTML_ALIGN_MEMBERS' at line 862 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'USE_INLINE_TREES' at line 1032 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'XML_SCHEMA' at line 1244 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'XML_DTD' at line 1250 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'PERL_PATH' at line 1411 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. warning: Tag 'MSCGEN_PATH' at line 1433 of file 'docs/Doxyfile' has become obsolete. This tag has been removed. Configuration file 'docs/Doxyfile' updated. doxygen docs/Doxyfile warning: argument 'a4wide' for option PAPER_TYPE is not a valid enum value Using the default: a4! Doxygen version used: 1.9.1 Searching for include files... Searching for example files... Searching for images... Searching for dot files... Searching for msc files... Searching for dia files... Searching for files to exclude Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/bam Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/index Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/io Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/sam Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/utils Searching INPUT for files to process... Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/algorithms Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/bam Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/index Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/io Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/sam Searching for files in directory /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/internal/utils Reading and parsing tag files Parsing files Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/algorithms/Sort.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/algorithms/Sort.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/api_global.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/api_global.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlgorithms.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlgorithms.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAux.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAux.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamConstants.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamConstants.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamIndex.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamIndex.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamMultiReader.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamMultiReader.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamReader.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamReader.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamReader.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamReader.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamWriter.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamWriter.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamWriter.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/IBamIODevice.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/IBam/build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamMultiReader.cpp:25: warning: Documentation for undefined enum 'MergeOrder' found. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:188: warning: documented symbol 'bool BamTools::AddTag' was not declared or defined. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:304: warning: documented symbol 'template< typename T > bool BamTools::AddTag' was not declared or defined. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:369: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:395: warning: documented symbol 'template< typename T > bool BamTools::EditTag' was not declared or defined. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:418: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/BamAlignment.h:543: warning: documented symbol 'template< typename T > bool BamTools::GetTag' was not declared or defined. IODevice.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamConstants.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamConstants.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamHeader.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamHeader.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamHeader.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgram.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgram.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgram.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgramChain.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgramChain.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamProgramChain.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroup.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroup.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroup.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamReadGroupDictionary.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequence.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequence.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequence.h... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.cpp... Preprocessing /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.h... Parsing file /build/bamtools-FyezqN/bamtools-2.5.1+dfsg/src/api/SamSequenceDictionary.h... Building macro definition list... Building group list... Building directory list... Building namespace list... Building file list... Building class list... Computing nesting relations for classes... Associating documentation with classes... Building example list... Searching for enumerations... Searching for documented typedefs... Searching for members imported via using declarations... Searching for included using directives... Searching for documented variables... Building interface member list... Building member list... Searching for friends... Searching for documented defines... Computing class inheritance relations... Computing class usage relations... Flushing cached template relations that have become invalid... Computing class relations... Add enum values to enums... Searching for member function documentation... Creating members for template instances... Building page list... Search for main page... Computing page relations... Determining the scope of groups... Sorting lists... Determining which enums are documented Computing member relations... Building full member lists recursively... Adding members to member groups. Computing member references... Inheriting documentation... Generating disk names... Adding source references... Adding xrefitems... Sorting member lists... Setting anonymous enum type... Computing dependencies between directories... Generating citations page... Counting members... Counting data structures... Resolving user defined references... Finding anchors and sections in the documentation... Transferring function references... Combining using relations... Adding members to index pages... Correcting members for VHDL... Computing tooltip texts... Generating style sheet... Generating search indices... Generating example documentation... Generating file sources... Generating code for file api_global.h... Generating code for file BamAlgorithms.h... Generating code for file BamAlignment.h... Generating code for file BamAux.h... Generating code for file BamConstants.h... Generating code for file BamIndex.h... Generating code for file BamMultiReader.h... Generating code for file BamReader.h... Generating code for file BamWriter.h... Generating code for file IBamIODevice.h... Generating code for file SamConstants.h... Generating code for file SamHeader.h... Generating code for file SamProgram.h... Generating code for file SamProgramChain.h... Generating code for file SamReadGroup.h... Generating code for file SamReadGroupDictionary.h... Generating code for file SamSequence.h... Generating code for file SamSequenceDictionary.h... Generating code for file Sort.h... Generating file documentation... Generating docs for file api_global.h... Generating docs for file BamAlgorithms.h... Generating docs for file BamAlignment.cpp... Generating docs for file BamAlignment.h... Generating docs for file BamAux.h... Generating docs for file BamConstants.h... Generating docs for file BamIndex.h... Generating docs for file BamMultiReader.cpp... Generating docs for file BamMultiReader.h... Generating docs for file BamReader.cpp... Generating docs for file BamReader.h... Generating docs for file BamWriter.cpp... Generating docs for file BamWriter.h... Generating docs for file IBamIODevice.h... Generating docs for file SamConstants.h... Generating docs for file SamHeader.cpp... Generating docs for file SamHeader.h... Generating docs for file SamProgram.cpp... Generating docs for file SamProgram.h... Generating docs for file SamProgramChain.cpp... Generating docs for file SamProgramChain.h... Generating docs for file SamReadGroup.cpp... Generating docs for file SamReadGroup.h... Generating docs for file SamReadGroupDictionary.cpp... Generating docs for file SamReadGroupDictionary.h... Generating docs for file SamSequence.cpp... Generating docs for file SamSequence.h... Generating docs for file SamSequenceDictionary.cpp... Generating docs for file SamSequenceDictionary.h... Generating docs for file Sort.h... Generating page documentation... Generating group documentation... Generating class documentation... Generating namespace index... Generating docs for namespace BamTools Generating docs for compound BamTools::BamAlignment... Generating docs for compound BamTools::CigarOp... Generating docs for compound BamTools::RefData... Generating docs for compound BamTools::BamRegion... Generating docs for compound BamTools::CustomHeaderTag... Generating docs for compound BamTools::BamIndex... Generating docs for compound BamTools::BamMultiReader... Generating docs for compound BamTools::BamReader... Generating docs for compound BamTools::BamWriter... Generating docs for compound BamTools::IBamIODevice... Generating docs for compound BamTools::SamHeader... Generating docs for compound BamTools::SamProgram... Generating docs for compound BamTools::SamProgramChain... Generating docs for compound BamTools::SamReadGroup... Generating docs for compound BamTools::SamReadGroupDictionary... Generating docs for compound BamTools::SamSequence... Generating docs for compound BamTools::SamSequenceDictionary... Generating docs for namespace BamTools::Algorithms Generating docs for compound BamTools::Algorithms::Sort... Generating docs for nested compound BamTools::Algorithms::Sort::ByName... Generating docs for nested compound BamTools::Algorithms::Sort::ByPosition... Generating docs for nested compound BamTools::Algorithms::Sort::ByTag... Generating docs for nested compound BamTools::Algorithms::Sort::Unsorted... Generating docs for namespace BamTools::Constants Generating graph info page... Generating directory documentation... Generating index page... Generating page index... Generating module index... Generating namespace index... Generating namespace member index... Generating annotated compound index... Generating alphabetical compound index... Generating hierarchical class index... Generating member index... Generating file index... Generating file member index... Generating example index... finalizing index lists... writing tag file... Running plantuml with JAVA... lookup cache used 1173/65536 hits=4513 misses=1214 finished... mv docs/Doxyfile.bak docs/Doxyfile make[1]: Leaving directory '/build/bamtools-FyezqN/bamtools-2.5.1+dfsg' create-stamp debian/debhelper-build-stamp dh_prep -i debian/rules override_dh_install-indep make[1]: Entering directory '/build/bamtools-FyezqN/bamtools-2.5.1+dfsg' dh_install --indep rm -f debian/libbamtools-doc/usr/share/doc/libbamtools-dev/html/jquery.js ln -s /usr/share/javascript/jquery/jquery.js debian/libbamtools-doc/usr/share/doc/libbamtools-dev/html/jquery.js make[1]: Leaving directory '/build/bamtools-FyezqN/bamtools-2.5.1+dfsg' dh_installdocs -i dh_installchangelogs -i dh_installman -i dh_perl -i dh_link -i dh_strip_nondeterminism -i dh_compress -i dh_fixperms -i dh_missing -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'libbamtools-doc' in '../libbamtools-doc_2.5.1+dfsg-9_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../bamtools_2.5.1+dfsg-9_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/bamtools-FyezqN /tmp/bamtools-2.5.1+dfsg-90b5kju80 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap.qG7gm1S7Cz... I: success in 307.8850 seconds md5: libbamtools-doc_2.5.1+dfsg-9_all.deb: OK sha1: libbamtools-doc_2.5.1+dfsg-9_all.deb: OK sha256: libbamtools-doc_2.5.1+dfsg-9_all.deb: OK Checksums: OK