Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/h/htsjdk/htsjdk_2.23.0+dfsg-2_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/htsjdk-2.23.0+dfsg-2r1y1qnzn/htsjdk_2.23.0+dfsg-2_all.buildinfo Get source package info: htsjdk=2.23.0+dfsg-2 Source URL: http://snapshot.notset.fr/mr/package/htsjdk/2.23.0+dfsg-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=adduser=3.118 ant=1.10.8-1 ant-optional=1.10.8-1 antlr=2.7.7+dfsg-10 autoconf=2.69-11.1 automake=1:1.16.2-4 autopoint=0.19.8.1-10 autotools-dev=20180224.1 base-files=11 base-passwd=3.5.47 bash=5.0-7 binutils=2.35-3 binutils-common=2.35-3 binutils-x86-64-linux-gnu=2.35-3 bnd=5.0.1-2 bsdextrautils=2.36-3 bsdutils=1:2.36-3 build-essential=12.8 bzip2=1.0.8-4 ca-certificates=20200601 ca-certificates-java=20190909 coreutils=8.32-3 cpp=4:10.2.0-1 cpp-10=10.2.0-9 dash=0.5.10.2-7 dctrl-tools=2.24-3+b1 debconf=1.5.74 debhelper=13.2.1 debianutils=4.11.1 default-jdk=2:1.11-72 default-jdk-doc=2:1.11-72 default-jdk-headless=2:1.11-72 default-jre=2:1.11-72 default-jre-headless=2:1.11-72 devscripts=2.20.4 dh-autoreconf=19 dh-strip-nondeterminism=1.9.0-1 diffutils=1:3.7-3 dirmngr=2.2.20-1 dpkg=1.20.5 dpkg-dev=1.20.5 dwz=0.13-5 fakeroot=1.24-1 file=1:5.38-5 findutils=4.7.0-1 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 g++=4:10.2.0-1 g++-10=10.2.0-9 gcc=4:10.2.0-1 gcc-10=10.2.0-9 gcc-10-base=10.2.0-9 gettext=0.19.8.1-10 gettext-base=0.19.8.1-10 gnupg=2.2.20-1 gnupg-l10n=2.2.20-1 gnupg-utils=2.2.20-1 gpg=2.2.20-1 gpg-agent=2.2.20-1 gpg-wks-client=2.2.20-1 gpg-wks-server=2.2.20-1 gpgconf=2.2.20-1 gpgsm=2.2.20-1 gpgv=2.2.20-1 gradle=4.4.1-12 gradle-debian-helper=2.1 grep=3.4-1 groff-base=1.22.4-5 groovy=2.4.20-1 gzip=1.10-2 hostname=3.23 init-system-helpers=1.58 intltool-debian=0.35.0+20060710.5 ivy=2.4.0-5 java-common=0.72 java-wrappers=0.3 javahelper=0.77 junit4=4.12-8 libacl1=2.2.53-8 libactivation-java=1.2.0-2 libantlr-java=2.7.7+dfsg-10 libaopalliance-java=20070526-6 libapache-pom-java=18-1 libarchive-zip-perl=1.68-1 libargs4j-java=2.33-1 libasan6=10.2.0-9 libasm-java=7.3.1-1 libasound2=1.2.3.2-1 libasound2-data=1.2.3.2-1 libassuan0=2.5.3-7.1 libatinject-jsr330-api-java=1.0+ds1-5 libatomic1=10.2.0-9 libattr1=1:2.4.48-5 libaudit-common=1:2.8.5-3 libaudit1=1:2.8.5-3+b1 libavahi-client3=0.8-3 libavahi-common-data=0.8-3 libavahi-common3=0.8-3 libb-hooks-op-check-perl=0.22-1+b2 libbcel-java=6.5.0-1 libbcpg-java=1.65-1 libbcprov-java=1.65-1 libbinutils=2.35-3 libblkid1=2.36-3 libbrotli1=1.0.9-2 libbsd0=0.10.0-1 libbsf-java=1:2.4.0-8 libbsh-java=2.0b4-20 libbz2-1.0=1.0.8-4 libc-bin=2.31-3 libc-dev-bin=2.31-3 libc6=2.31-3 libc6-dev=2.31-3 libcap-ng0=0.7.9-2.2 libcc1-0=10.2.0-9 libcdi-api-java=1.2-2 libclass-method-modifiers-perl=2.13-1 libcodemodel-java=2.6+jaxb2.3.0.1-9 libcom-err2=1.45.6-1 libcommons-cli-java=1.4-1 libcommons-codec-java=1.14-1 libcommons-collections3-java=3.2.2-2 libcommons-compress-java=1.20-1 libcommons-io-java=2.6-2 libcommons-jexl2-java=2.1.1-4 libcommons-lang-java=2.6-9 libcommons-lang3-java=3.11-1 libcommons-logging-java=1.2-2 libcommons-parent-java=43-1 libcroco3=0.6.13-1 libcrypt-dev=1:4.4.17-1 libcrypt1=1:4.4.17-1 libctf-nobfd0=2.35-3 libctf0=2.35-3 libcups2=2.3.3-3 libdb5.3=5.3.28+dfsg1-0.6 libdbus-1-3=1.12.20-1 libdd-plist-java=1.20-1 libdebconfclient0=0.254 libdebhelper-perl=13.2.1 libdevel-callchecker-perl=0.008-1+b1 libdom4j-java=2.1.3-1 libdpkg-perl=1.20.5 libdrm-amdgpu1=2.4.102-1 libdrm-common=2.4.102-1 libdrm-intel1=2.4.102-1 libdrm-nouveau2=2.4.102-1 libdrm-radeon1=2.4.102-1 libdrm2=2.4.102-1 libdtd-parser-java=1.2~svn20110404-1 libdynaloader-functions-perl=0.003-1 libedit2=3.1-20191231-1 libel-api-java=3.0.0-3 libelf1=0.181-1 libencode-locale-perl=1.05-1 libexpat1=2.2.9-1 libfakeroot=1.24-1 libfastinfoset-java=1.2.12-3 libfelix-framework-java=4.6.1-2 libfelix-gogo-runtime-java=0.16.2-1 libfelix-resolver-java=1.16.0-1 libffi7=3.3-4 libfile-homedir-perl=1.004-1 libfile-listing-perl=6.04-1 libfile-stripnondeterminism-perl=1.9.0-1 libfile-which-perl=1.23-1 libfindbugs-java=3.1.0~preview2-3 libfontconfig1=2.13.1-4.2 libfreetype6=2.10.2+dfsg-3 libgcc-10-dev=10.2.0-9 libgcc-s1=10.2.0-9 libgcrypt20=1.8.6-2 libgdbm-compat4=1.18.1-5.1 libgdbm6=1.18.1-5.1 libgeronimo-annotation-1.3-spec-java=1.0-1 libgeronimo-interceptor-3.0-spec-java=1.0.1-4 libgif7=5.1.9-1 libgl1=1.3.2-1 libgl1-mesa-dri=20.1.8-1 libglapi-mesa=20.1.8-1 libglib2.0-0=2.66.0-2 libglvnd0=1.3.2-1 libglx-mesa0=20.1.8-1 libglx0=1.3.2-1 libgmp10=2:6.2.0+dfsg-6 libgnutls30=3.6.15-4 libgomp1=10.2.0-9 libgoogle-gson-java=2.8.6-1 libgpg-error0=1.38-2 libgradle-core-java=4.4.1-12 libgradle-plugins-java=4.4.1-12 libgssapi-krb5-2=1.17-10 libguava-java=29.0-5 libguice-java=4.2.3-1 libhamcrest-java=1.3-9 libhawtjni-runtime-java=1.17-1 libhogweed6=3.6-2 libhtml-parser-perl=3.75-1 libhtml-tagset-perl=3.20-4 libhtml-tree-perl=5.07-2 libhttp-cookies-perl=6.08-1 libhttp-date-perl=6.05-1 libhttp-message-perl=6.26-1 libhttp-negotiate-perl=6.01-1 libhttpclient-java=4.5.12-1 libhttpcore-java=4.4.13-1 libicu67=67.1-4 libidn2-0=2.3.0-1 libimport-into-perl=1.002005-1 libio-html-perl=1.001-1 libio-pty-perl=1:1.12-1 libio-socket-ssl-perl=2.068-1 libipc-run-perl=20200505.0-1 libisl22=0.22.1-1 libistack-commons-java=3.0.6-4 libitm1=10.2.0-9 libjansi-java=1.18-1 libjansi-native-java=1.8-1 libjarjar-java=1.4+svn142-10 libjatl-java=0.2.3-1 libjavaewah-java=0.7.9-1 libjaxb-api-java=2.3.1-1 libjaxb-java=2.3.0.1-9 libjaxen-java=1.1.6-4 libjcifs-java=1.3.19-2 libjcip-annotations-java=20060626-5 libjcommander-java=1.71-3 libjformatstring-java=0.10~20131207-2 libjgit-java=3.7.1-6 libjimfs-java=1.1-6 libjline2-java=2.14.6-3 libjna-java=5.5.0-1.1 libjna-jni=5.5.0-1.1 libjpeg62-turbo=1:2.0.5-1.1 libjs-jquery=3.5.1+dfsg-4 libjsch-java=0.1.55-1 libjsoup-java=1.10.2-2 libjsp-api-java=2.3.4-3 libjsr305-java=0.1~+svn49-11 libjzlib-java=1.1.3-2 libk5crypto3=1.17-10 libkeyutils1=1.6.1-2 libkrb5-3=1.17-10 libkrb5support0=1.17-10 libkryo-java=2.20-6 libksba8=1.4.0-2 liblcms2-2=2.9-4+b1 libldap-2.4-2=2.4.53+dfsg-1 libllvm10=1:10.0.1-5 liblogback-java=1:1.2.3-5 liblsan0=10.2.0-9 liblwp-mediatypes-perl=6.04-1 liblwp-protocol-https-perl=6.09-1 liblz4-1=1.9.2-2 liblzma5=5.2.4-1+b1 libmagic-mgc=1:5.38-5 libmagic1=1:5.38-5 libmaven-file-management-java=3.0.0-1 libmaven-parent-java=31-2 libmaven-resolver-java=1.4.2-1 libmaven-shared-io-java=3.0.0-3 libmaven-shared-utils-java=3.3.0-1 libmaven3-core-java=3.6.3-1 libminlog-java=1.3.0-1 libmodule-runtime-perl=0.016-1 libmoo-perl=2.004000-1 libmount1=2.36-3 libmpc3=1.2.0-1 libmpfr6=4.1.0-3 libnative-platform-java=0.14-5 libnative-platform-jni=0.14-5 libncurses6=6.2+20200918-1 libncursesw6=6.2+20200918-1 libnekohtml-java=1.9.22-1 libnet-http-perl=6.19-1 libnet-ssleay-perl=1.88-3 libnettle8=3.6-2 libngs-java=2.10.5-1 libngs-sdk-dev=2.10.5-1 libngs-sdk2=2.10.5-1 libnpth0=1.6-2 libnspr4=2:4.28-1 libnss3=2:3.56-1 libobjenesis-java=3.1-1 libosgi-annotation-java=7.0.0-1 libosgi-compendium-java=7.0.0-1 libosgi-core-java=7.0.0-2 libp11-kit0=0.23.21-2 libpam-modules=1.3.1-5 libpam-modules-bin=1.3.1-5 libpam-runtime=1.3.1-5 libpam0g=1.3.1-5 libparams-classify-perl=0.015-1+b2 libpciaccess0=0.16-1 libpcre2-8-0=10.34-7 libpcre3=2:8.39-13 libpcsclite1=1.9.0-1 libperl5.30=5.30.3-4 libpipeline1=1.5.3-1 libplexus-archiver-java=3.6.0-2 libplexus-cipher-java=1.7-3 libplexus-classworlds-java=2.6.0-1 libplexus-component-annotations-java=2.1.0-1 libplexus-container-default-java=2.1.0-1 libplexus-container-default1.5-java=2.1.0-1 libplexus-interpolation-java=1.26-1 libplexus-io-java=3.2.0-1 libplexus-sec-dispatcher-java=1.4-4 libplexus-utils2-java=3.3.0-1 libpng16-16=1.6.37-3 libpolyglot-maven-java=0.8~tobrien+git20120905-10 libpython3-stdlib=3.8.2-3 libpython3.8-minimal=3.8.6~rc1-2 libpython3.8-stdlib=3.8.6~rc1-2 libqdox-java=1.12.1-3 libquadmath0=10.2.0-9 libreadline8=8.0-4 libreflectasm-java=1.05-4 librelaxng-datatype-java=1.0+ds1-3 librhino-java=1.7.7.2-1 librngom-java=2.3.0.1-9 librole-tiny-perl=2.001004-1 libsasl2-2=2.1.27+dfsg-2 libsasl2-modules-db=2.1.27+dfsg-2 libseccomp2=2.4.4-1 libselinux1=3.1-2 libsemanage-common=3.1-1 libsemanage1=3.1-1 libsensors-config=1:3.6.0-2 libsensors5=1:3.6.0-2 libsepol1=3.1-1 libservlet-api-java=4.0.1-2 libservlet3.1-java=1:4.0.1-2 libsigsegv2=2.12-2 libsimple-http-java=4.1.21-1 libsisu-guice-java=4.2.0-1 libsisu-inject-java=0.3.3-1 libsisu-ioc-java=2.3.0-11 libsisu-plexus-java=0.3.3-3 libslf4j-java=1.7.25-3 libsmartcols1=2.36-3 libsnappy-java=1.1.7.7-1 libsnappy-jni=1.1.7.7-1 libsnappy1v5=1.1.8-1 libsqlite3-0=3.33.0-1 libssl1.1=1.1.1g-1 libstax-ex-java=1.7.8-3 libstdc++-10-dev=10.2.0-9 libstdc++6=10.2.0-9 libstreambuffer-java=1.5.4-1 libstrictures-perl=2.000006-1 libsub-override-perl=0.09-2 libsub-quote-perl=2.006006-1 libsystemd0=246.5-1 libtasn1-6=4.16.0-2 libtimedate-perl=2.3300-1 libtinfo6=6.2+20200918-1 libtool=2.4.6-14 libtry-tiny-perl=0.30-1 libtsan0=10.2.0-9 libtxw2-java=2.3.0.1-9 libubsan1=10.2.0-9 libuchardet0=0.0.7-1 libudev1=246.5-1 libunistring2=0.9.10-4 liburi-perl=1.76-2 libuuid1=2.36-3 libvulkan1=1.2.148.1-1 libwagon-file-java=3.3.4-1 libwagon-http-java=3.3.4-1 libwagon-provider-api-java=3.3.4-1 libwebsocket-api-java=1.1-2 libwww-perl=6.47-1 libwww-robotrules-perl=6.02-1 libx11-6=2:1.6.12-1 libx11-data=2:1.6.12-1 libx11-xcb1=2:1.6.12-1 libxau6=1:1.0.8-1+b2 libxbean-reflect-java=4.5-8 libxcb-dri2-0=1.14-2 libxcb-dri3-0=1.14-2 libxcb-glx0=1.14-2 libxcb-present0=1.14-2 libxcb-sync1=1.14-2 libxcb1=1.14-2 libxdamage1=1:1.1.5-2 libxdmcp6=1:1.1.2-3 libxerces2-java=2.12.1-1 libxext6=2:1.3.3-1+b2 libxfixes3=1:5.0.3-2 libxi6=2:1.7.10-1 libxml-commons-external-java=1.4.01-5 libxml-commons-resolver1.1-java=1.2-10 libxml2=2.9.10+dfsg-6 libxpp3-java=1.1.4c-3 libxrender1=1:0.9.10-1 libxshmfence1=1.3-1 libxsom-java=2.3.0.1-9 libxstream-java=1.4.11.1-2 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libxz-java=1.8-2 libyaml-snake-java=1.26+ds-1 libz3-4=4.8.9-1 libzstd1=1.4.5+dfsg-4 linux-libc-dev=5.8.10-1 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 maven-repo-helper=1.9.4 mawk=1.3.4.20200120-2 mime-support=3.64 ncurses-base=6.2+20200918-1 ncurses-bin=6.2+20200918-1 netbase=6.1 node-jquery=3.5.1+dfsg-4 openjdk-11-doc=11.0.8+10-1 openjdk-11-jdk=11.0.8+10-1 openjdk-11-jdk-headless=11.0.8+10-1 openjdk-11-jre=11.0.8+10-1 openjdk-11-jre-headless=11.0.8+10-1 openssl=1.1.1g-1 passwd=1:4.8.1-1 patch=2.7.6-6 patchutils=0.4.2-1 perl=5.30.3-4 perl-base=5.30.3-4 perl-modules-5.30=5.30.3-4 perl-openssl-defaults=5 pinentry-curses=1.1.0-4 po-debconf=1.0.21 python3=3.8.2-3 python3-minimal=3.8.2-3 python3.8=3.8.6~rc1-2 python3.8-minimal=3.8.6~rc1-2 readline-common=8.0-4 scala-library=2.11.12-4 sed=4.7-1 sensible-utils=0.0.12+nmu1 sysvinit-utils=2.96-5 tar=1.30+dfsg-7 testng=6.9.12-4 ucf=3.0043 unzip=6.0-25 util-linux=2.36-3 wdiff=1.2.2-2+b1 x11-common=1:7.7+20 xz-utils=5.2.4-1+b1 zlib1g=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/20210129T152007Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20200921T085333Z/ 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 htsjdk=2.23.0+dfsg-2 && mkdir -p /build/htsjdk-YbBuY3 && dpkg-source --no-check -x /*.dsc /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg && chown -R builduser:builduser /build/htsjdk-YbBuY3" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1600780451" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/htsjdk-YbBuY3 /tmp/htsjdk-2.23.0+dfsg-2r1y1qnzn bullseye /dev/null deb http://snapshot.notset.fr/archive/debian/20200921T085333Z 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.QCk1_ynoYj 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.QCk1_ynoYj Reading package lists... Building dependency tree... util-linux is already the newest version (2.36-3). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 132 kB of archives. After this operation, 393 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20200921T085333Z unstable/main amd64 libfakeroot amd64 1.24-1 [45.7 kB] Get:2 http://snapshot.notset.fr/archive/debian/20200921T085333Z unstable/main amd64 fakeroot amd64 1.24-1 [85.9 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 132 kB in 0s (758 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 ... 4575 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.24-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.24-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.24-1_amd64.deb ... Unpacking fakeroot (1.24-1) ... Setting up libfakeroot:amd64 (1.24-1) ... Setting up fakeroot (1.24-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.31-3) ... 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/20210129T152007Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20200921T085333Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.QCk1_ynoYj Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm InRelease [81.6 kB] Get:2 http://snapshot.notset.fr/archive/debian/20210129T152007Z unstable InRelease [153 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20200921T085333Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main Sources [11.4 MB] Get:5 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main amd64 Packages [11.1 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20210129T152007Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210129T152007Z unstable/main amd64 Packages Ign:6 http://snapshot.notset.fr/archive/debian/20210129T152007Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20210129T152007Z unstable/main amd64 Packages [11.7 MB] Fetched 34.4 MB in 28s (1212 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.QCk1_ynoYj I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d htsjdk=2.23.0+dfsg-2 && mkdir -p /build/htsjdk-YbBuY3 && dpkg-source --no-check -x /*.dsc /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg && chown -R builduser:builduser /build/htsjdk-YbBuY3"' exec /tmp/mmdebstrap.QCk1_ynoYj Reading package lists... NOTICE: 'htsjdk' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/htsjdk.git Please use: git clone https://salsa.debian.org/med-team/htsjdk.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 44.3 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htsjdk 2.23.0+dfsg-2 (dsc) [2457 B] Get:2 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htsjdk 2.23.0+dfsg-2 (tar) [44.3 MB] Get:3 http://snapshot.notset.fr/archive/debian/20210814T212851Z bookworm/main htsjdk 2.23.0+dfsg-2 (diff) [30.7 kB] Fetched 44.3 MB in 35s (1252 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'htsjdk_2.23.0+dfsg-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting htsjdk in /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg dpkg-source: info: unpacking htsjdk_2.23.0+dfsg.orig.tar.xz dpkg-source: info: unpacking htsjdk_2.23.0+dfsg-2.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying 10-build.xml.patch dpkg-source: info: applying 13-skip_network_tests dpkg-source: info: applying 20-fix-version.patch dpkg-source: info: applying 30-disable-scalatest.patch dpkg-source: info: applying 40-fix-java9 dpkg-source: info: applying 60-enable-tests dpkg-source: info: applying 70-removesometests-testng.patch dpkg-source: info: applying 80-2to3.patch dpkg-source: info: applying 90-disable-testftp.patch dpkg-source: info: applying 92-disable-testhttp.patch dpkg-source: info: applying 100-fix-java11 dpkg-source: info: applying 110-debian-lib-version.patch dpkg-source: info: applying disable-network-tests.diff dpkg-source: info: applying 120-fix-build.patch I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" SOURCE_DATE_EPOCH="1600780451" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.QCk1_ynoYj dpkg-buildpackage: info: source package htsjdk dpkg-buildpackage: info: source version 2.23.0+dfsg-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Olivier Sallou dpkg-source --before-build . debian/rules clean dh clean --buildsystem=gradle --with javahelper,jh_maven_repo_helper dh_auto_clean -O--buildsystem=gradle install -d /build/htsjdk-YbBuY3/htsjdk-2.23.0\+dfsg/debian/.debhelper/generated/_source/home sh -c "find . -wholename .*build/tmp | xargs echo | sed -e 's^build/tmp^build^g' | xargs rm -Rf" sh -c "find . -wholename .*build/debian | xargs echo | sed -e 's^build/tmp^build^g' | xargs rm -Rf" rm -Rf /build/htsjdk-YbBuY3/htsjdk-2.23.0\+dfsg/.gradle /build/htsjdk-YbBuY3/htsjdk-2.23.0\+dfsg/buildSrc/.gradle .m2 dh_autoreconf_clean -O--buildsystem=gradle jh_clean -O--buildsystem=gradle rm -fr debian/_jh_manifest* debian/_jh_build* rm -fr debian/.eclipse-build rm -f debian/orbitdeps.debhelper mh_clean -O--buildsystem=gradle dh_clean -O--buildsystem=gradle rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/libhtsjdk-java.substvars debian/libhtsjdk-java-doc.substvars debian/files rm -fr -- debian/libhtsjdk-java/ debian/tmp/ debian/libhtsjdk-java-doc/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary-indep dh binary-indep --buildsystem=gradle --with javahelper,jh_maven_repo_helper dh_update_autotools_config -i -O--buildsystem=gradle dh_autoreconf -i -O--buildsystem=gradle dh_auto_configure -i -O--buildsystem=gradle install -d /build/htsjdk-YbBuY3/htsjdk-2.23.0\+dfsg/debian/.debhelper/generated/_source/home jh_linkjars -i -O--buildsystem=gradle debian/rules override_dh_auto_build make[1]: Entering directory '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' dh_auto_build -- jar javadoc mkdir -p .gradle/init.d cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/ gradle --info --console plain --offline --stacktrace --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. -Duser.name=debian -Ddebian.package=htsjdk -Dfile.encoding=UTF-8 --parallel --max-workers=10 jar javadoc Initialized native services in: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/native Using 10 worker leases. Creating new cache for fileHashes, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@9bd0fa6 Creating new cache for resourceHashesCache, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@9bd0fa6 Creating new cache for fileHashes, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/4.4.1/fileHashes/fileHashes.bin, access org.gradle.cache.internal.DefaultCacheAccess@52350abb WARNING: An illegal reflective access operation has occurred WARNING: Illegal reflective access using Lookup on org.gradle.internal.reflect.JavaMethod (file:/usr/share/gradle/lib/gradle-base-services-4.4.1.jar) to class java.lang.ClassLoader WARNING: Please consider reporting this to the maintainers of org.gradle.internal.reflect.JavaMethod WARNING: Use --illegal-access=warn to enable warnings of further illegal reflective access operations WARNING: All illegal access operations will be denied in a future release Starting Build Compiling initialization script '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/init.d/init.gradle' using SubsetScriptTransformer. Creating new cache for metadata-1.1/results, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/caches/transforms-1/metadata-1.1/results.bin, access org.gradle.cache.internal.DefaultCacheAccess@7e9f2c32 Compiling initialization script '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/init.d/init.gradle' using BuildScriptTransformer. Compiling settings file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/settings.gradle' using SubsetScriptTransformer. Compiling settings file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/settings.gradle' using BuildScriptTransformer. Settings evaluated using settings file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/settings.gradle'. Projects loaded. Root project using build file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build.gradle'. Included projects: [root project 'htsjdk'] Keep-alive timer started Adding Debian repository to project 'htsjdk' Parallel execution is an incubating feature. Evaluating root project 'htsjdk' using build file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build.gradle'. Compiling build file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build.gradle' using SubsetScriptTransformer. Compiling build file '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build.gradle' using BuildScriptTransformer. Starting process 'command 'dpkg-parsechangelog''. Working directory: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg Command: dpkg-parsechangelog -S Version Successfully started process 'command 'dpkg-parsechangelog'' build for version:2.23.0 Adding Maven pom generation to project 'htsjdk' Linking the generated javadoc to the system JDK API documentation All projects evaluated. Selected primary task 'jar' from project : Creating new cache for annotation-processors, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/4.4.1/fileContent/annotation-processors.bin, access org.gradle.cache.internal.DefaultCacheAccess@4544ab46 Selected primary task 'javadoc' from project : Tasks to be executed: [task ':compileJava', task ':processResources', task ':classes', task ':debianMavenPom', task ':jar', task ':javadoc'] Creating new cache for resourceHashesCache, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/4.4.1/fileHashes/resourceHashesCache.bin, access org.gradle.cache.internal.DefaultCacheAccess@52350abb Creating new cache for taskHistory, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/4.4.1/taskHistory/taskHistory.bin, access org.gradle.cache.internal.DefaultCacheAccess@32298473 Creating new cache for outputFiles, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/buildOutputCleanup/outputFiles.bin, access org.gradle.cache.internal.DefaultCacheAccess@75f65d54 :compileJava (Thread[Task worker for ':' Thread 2,5,main]) started. :compileJava executing task ':compileJava' ... Putting task artifact state for task ':compileJava' into context took 0.009 secs. Creating new cache for metadata-2.36/module-metadata, path /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/.gradle/caches/modules-2/metadata-2.36/module-metadata.bin, access org.gradle.cache.internal.DefaultCacheAccess@37f02039 Loading the Maven rules... Replacing org.apache.commons:commons-jexl:jar:2.1.1 -> org.apache.commons:commons-jexl:jar:debian Passing through org.apache.commons:commons-parent:jar:debian Passing through org.apache:apache:jar:debian Replacing commons-logging:commons-logging:jar:1.1.1 -> commons-logging:commons-logging:jar:debian Replacing org.xerial.snappy:snappy-java:jar:1.1.7.3 -> org.xerial.snappy:snappy-java:jar:debian Replacing org.apache.commons:commons-compress:jar:1.19 -> org.apache.commons:commons-compress:jar:debian Replacing org.tukaani:xz:jar:1.8 -> org.tukaani:xz:jar:debian Replacing gov.nih.nlm.ncbi:ngs-java:jar:2.9.0 -> gov.nih.nlm.ncbi:ngs-java:jar:debian Passing through javax.xml.bind:jaxb-api:jar:debian Passing through javax.xml.bind:jaxb-api-parent:jar:debian Passing through javax.activation:javax.activation-api:jar:debian javax.activation:javax.activation-api:debian is relocated to com.sun.activation:javax.activation:debian. Please update your dependencies. Passing through com.sun.activation:javax.activation:jar:debian Passing through com.sun.activation:all:jar:debian Up-to-date check for task ':compileJava' took 2.266 secs. It is not up-to-date because: No history is available. All input files are considered out-of-date for incremental task ':compileJava'. Compiling with JDK Java compiler API. Note: Some input files use or override a deprecated API. Note: Recompile with -Xlint:deprecation for details. Note: Some input files use unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. :compileJava (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 15.831 secs. :processResources (Thread[Task worker for ':' Thread 2,5,main]) started. :processResources executing task ':processResources' ... Putting task artifact state for task ':processResources' into context took 0.0 secs. file or directory '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/resources', not found Skipping task ':processResources' as it has no source files and no previous output files. :processResources NO-SOURCE :processResources (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.01 secs. :classes (Thread[Task worker for ':' Thread 2,5,main]) started. :classes executing task ':classes' ... Skipping task ':classes' as it has no actions. :classes (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.002 secs. :debianMavenPom (Thread[Task worker for ':' Thread 2,5,main]) started. :debianMavenPom executing task ':debianMavenPom' ... Putting task artifact state for task ':debianMavenPom' into context took 0.0 secs. Up-to-date check for task ':debianMavenPom' took 0.002 secs. It is not up-to-date because: No history is available. Generating pom file /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build/debian/htsjdk.pom :debianMavenPom (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.229 secs. :jar (Thread[Task worker for ':' Thread 2,5,main]) started. :jar executing task ':jar' ... Putting task artifact state for task ':jar' into context took 0.0 secs. Up-to-date check for task ':jar' took 0.046 secs. It is not up-to-date because: No history is available. :jar (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 0.82 secs. :javadoc (Thread[Task worker for ':' Thread 2,5,main]) started. :javadoc executing task ':javadoc' ... Putting task artifact state for task ':javadoc' into context took 0.0 secs. Up-to-date check for task ':javadoc' took 0.225 secs. It is not up-to-date because: No history is available. Starting process 'command '/usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc''. Working directory: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg Command: /usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc @/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/build/tmp/javadoc/javadoc.options Successfully started process 'command '/usr/lib/jvm/java-11-openjdk-amd64/bin/javadoc'' /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/build/ContainerFactory.java:54: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/filter/IntervalFilter.java:53: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/filter/IntervalKeepPairFilter.java:59: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/index/DynamicIndexCreator.java:171: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/io/ITF8.java:17: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/io/ITF8.java:31: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/index/linear/LinearIndex.java:165: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/index/linear/LinearIndex.java:166: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/readers/LongLineBufferedReader.java:75: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/readers/LongLineBufferedReader.java:453: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/readers/Positional.java:45: warning - invalid usage of tag > javadoc: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:56: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:464: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:478: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/reference/FastaReferenceWriter.java:494: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/Bin.java:108: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/Bin.java:108: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/CoordinateSortedPairInfoMap.java:194: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/DuplicateScoringStrategy.java:125: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/DuplicateScoringStrategy.java:150: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/GenomicIndexUtil.java:106: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/GenomicIndexUtil.java:124: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/QueryInterval.java:18: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMFileWriterImpl.java:35: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMLineParser.java:221: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:53: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:159: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:159: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecord.java:770: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordComparator.java:37: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:39: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:39: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:40: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordCoordinateComparator.java:85: warning - invalid usage of tag < javadoc: warning - invalid usage of tag < javadoc: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMRecordQueryNameComparator.java:77: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMSortOrderChecker.java:42: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:657: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:657: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:643: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:644: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:644: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:657: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:657: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:658: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:1127: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMUtils.java:1127: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMValidationError.java:84: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SAMValidationError.java:84: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:63: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:63: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:64: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/SQTagUtil.java:95: warning - invalid usage of tag > javadoc: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/CompressionHeader.java:87: warning - Tag @return cannot be used in constructor documentation. It can only be used in the following types of documentation: method. /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/ContainerHeader.java:131: warning - Tag @return cannot be used in constructor documentation. It can only be used in the following types of documentation: method. /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMCompressionRecord.java:376: warning - Tag @link: reference not found: Slice#normalizeCRAMRecords(List, CRAMReferenceRegion, SubstitutionMatrix) /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:70: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:90: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/CRAMEncodingStrategy.java:114: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/cram/structure/Slice.java:171: warning - Tag @return cannot be used in constructor documentation. It can only be used in the following types of documentation: method. /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/FeatureCodecHeader.java:31: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/tribble/FeatureCodecHeader.java:71: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/AbstractLocusIterator.java:210: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:144: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:144: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:152: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:152: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:162: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:162: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:171: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:171: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:64: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockCompressedOutputStream.java:64: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/BlockGunzipper.java:104: warning - Parameter "compressedBlock" is documented more than once. /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/CloserUtil.java:57: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/CloserUtil.java:57: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/CollectionUtil.java:108: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/CollectionUtil.java:108: warning - invalid usage of tag > /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/FormatUtil.java:97: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/FormatUtil.java:97: warning - invalid usage of tag & /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:344: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:520: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:344: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/Histogram.java:520: warning - invalid usage of tag < /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/IntervalList.java:242: warning - invalid usage of tag {@link #uniqued()#getIntervals() /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/IntervalList.java:303: warning - invalid usage of tag {@link #uniqued(boolean)#getIntervals() /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/IntervalList.java:242: warning - invalid usage of tag {@link #uniqued()#getIntervals() /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/IntervalList.java:303: warning - invalid usage of tag {@link #uniqued(boolean)#getIntervals() /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/src/main/java/htsjdk/samtools/util/IntervalList.java:322: warning - invalid usage of tag > 100 warnings :javadoc (Thread[Task worker for ':' Thread 2,5,main]) completed. Took 11.183 secs. BUILD SUCCESSFUL in 33s 4 actionable tasks: 4 executed make[1]: Leaving directory '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' jh_build -i -O--buildsystem=gradle create-stamp debian/debhelper-build-stamp dh_testroot -i -O--buildsystem=gradle dh_prep -i -O--buildsystem=gradle rm -f -- debian/libhtsjdk-java.substvars debian/libhtsjdk-java-doc.substvars rm -fr -- debian/.debhelper/generated/libhtsjdk-java/ debian/libhtsjdk-java/ debian/tmp/ debian/.debhelper/generated/libhtsjdk-java-doc/ debian/libhtsjdk-java-doc/ dh_auto_install -i -O--buildsystem=gradle install -d /build/htsjdk-YbBuY3/htsjdk-2.23.0\+dfsg/debian/tmp dh_install -i -O--buildsystem=gradle install -d debian/libhtsjdk-java/usr/share/libhtsjdk-java cp --reflink=auto -a ./scripts/explain_sam_flags.py debian/libhtsjdk-java/usr/share/libhtsjdk-java/ install -d debian/.debhelper/generated/libhtsjdk-java install -d debian/.debhelper/generated/libhtsjdk-java-doc jh_installjavadoc -i -O--buildsystem=gradle Installing javadoc from build/docs/javadoc into package libhtsjdk-java-doc install -d debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc cp -r build/docs/javadoc debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/ cat > debian/libhtsjdk-java-doc.doc-base.javadoc dh_installdocs -i -O--buildsystem=gradle install -d debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java install -p -m0644 debian/libhtsjdk-java.README.Debian debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/README.Debian install -p -m0644 debian/copyright debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/copyright install -p -m0644 debian/copyright debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/copyright install -d debian/libhtsjdk-java-doc/usr/share/doc-base/ install -p -m0644 debian/libhtsjdk-java-doc.doc-base.javadoc debian/libhtsjdk-java-doc/usr/share/doc-base/libhtsjdk-java-doc dh_installchangelogs -i -O--buildsystem=gradle install -p -m0644 debian/changelog debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/changelog.Debian install -p -m0644 debian/changelog debian/libhtsjdk-java/usr/share/doc/libhtsjdk-java/changelog.Debian dh_installsystemduser -i -O--buildsystem=gradle dh_perl -i -O--buildsystem=gradle dh_link -i -O--buildsystem=gradle rm -f debian/libhtsjdk-java-doc.debhelper.log debian/libhtsjdk-java.debhelper.log debian/rules override_jh_installlibs make[1]: Entering directory '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' jh_installlibs --version-strip='[+]dfsg[.0-9]*' install -d debian/libhtsjdk-java/usr/share/java install -p -m0644 ./build/libs/htsjdk-2.23.0.jar debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar ln -s htsjdk-2.23.0.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar make[1]: Leaving directory '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' jh_classpath -i -O--buildsystem=gradle jh_manifest -plibhtsjdk-java "--classpath=/usr/share/java/commons-jexl2.jar /usr/share/java/commons-logging.jar /usr/share/java/snappy-java.jar /usr/share/java/commons-compress.jar /usr/share/java/xz.jar /usr/share/java/ngs-java.jar /usr/share/java/libjaxb-api.jar /usr/share/java/jaxb-impl.jar" debian/libhtsjdk-java/usr/share/java/htsjdk.jar Updating symlinked /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar (via debian/libhtsjdk-java/usr/share/java/htsjdk.jar) Reading manifest from /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar Updating manifest in /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar jh_manifest -i -O--buildsystem=gradle find debian/libhtsjdk-java -name '*.jar' Found symlink usr/share/java/htsjdk.jar Found usr/share/java/htsjdk-2.23.0.jar Reading manifest from debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar No update of debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar required. find debian/libhtsjdk-java-doc -name '*.jar' jh_exec -i -O--buildsystem=gradle jh_depends -i -O--buildsystem=gradle Searching /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java for libhtsjdk-java Searching /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar Found Jars: /usr/share/java/commons-compress.jar /usr/share/java/commons-jexl2.jar /usr/share/java/commons-logging.jar /usr/share/java/jaxb-impl.jar /usr/share/java/libjaxb-api.jar /usr/share/java/ngs-java.jar /usr/share/java/snappy-java.jar /usr/share/java/xz.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/commons-compress.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/commons-compress.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/commons-jexl2.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/commons-jexl2.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/commons-logging-1.2.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/commons-logging-1.2.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/jaxb-runtime.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/jaxb-runtime.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/libjaxb-api.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/libjaxb-api.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/ngs-java-2.10.5.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/ngs-java-2.10.5.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/snappy-java.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/snappy-java.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java/usr/share/java/xz-1.8.jar Checking: /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc/usr/share/java/xz-1.8.jar Found Debs: libcommons-compress-java libcommons-jexl2-java libcommons-logging-java libjaxb-java libngs-java libsnappy-java libxz-java Adding substvars: java:Depends=libcommons-compress-java, libcommons-jexl2-java, libcommons-logging-java, libjaxb-java, libngs-java, libsnappy-java, libxz-java java:Recommends= Searching /build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg/debian/libhtsjdk-java-doc for libhtsjdk-java-doc Searching Found Jars: Found Debs: Adding substvars: java:Depends= java:Recommends= mh_installpoms -i -O--buildsystem=gradle mh_installpom --package=libhtsjdk-java --has-package-version --usj-name=htsjdk debian/htsjdk.pom mh_cleanpom --package=libhtsjdk-java --has-package-version --rules=debian/maven.rules debian/htsjdk.pom debian/.mh/pom.xml debian/.mh/pom.properties mv debian/.mh/pom.xml debian/.mh/htsjdk-debian.pom install -m 644 -D debian/.mh/htsjdk-2.14.3.pom debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.pom install -m 644 -D debian/.mh/htsjdk-debian.pom debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.pom mh_linkjars --skip-clean-poms -i -O--buildsystem=gradle mh_linkjar --has-package-version --package=libhtsjdk-java --skip-clean-pom debian/htsjdk.pom /usr/share/java/htsjdk.jar dh_link -plibhtsjdk-java /usr/share/javahtsjdk.jar usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.jar rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar ln -s htsjdk-2.23.0.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.jar ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.jar dh_link -plibhtsjdk-java /usr/share/javahtsjdk.jar usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.jar ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/2.14.3/htsjdk-2.14.3.jar rm -f debian/libhtsjdk-java/usr/share/java/htsjdk.jar ln -s htsjdk-2.23.0.jar debian/libhtsjdk-java/usr/share/java/htsjdk.jar rm -f debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar ln -s ../../../../../../java/htsjdk.jar debian/libhtsjdk-java/usr/share/maven-repo/com/github/samtools/htsjdk/debian/htsjdk-debian.jar dh_strip_nondeterminism -i -O--buildsystem=gradle Using 1600780451 as canonical time Normalizing debian/libhtsjdk-java/usr/share/java/htsjdk-2.23.0.jar using File::StripNondeterminism::handlers::jar Using 1600780451 as canonical time Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/RANS.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/RANS.ORDER.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/compression/rans/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/EncodingFactory.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/ByteArrayLenEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/CRAMCodec.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/CRAMEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/BetaIntegerCodec.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/BetaIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CanonicalHuffmanByteEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CanonicalHuffmanIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/CoreCodec.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/GammaIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/SubexponentialIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombLongEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/GolombRiceIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/experimental/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanBitCode.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanCanoncialCodeGenerator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanParams.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/HuffmanParamsCalculator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/core/huffmanUtils/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/CramRecordWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/DataSeriesWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/writer/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ByteArrayStopEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteArrayCodec.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteArrayEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalByteEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalIntegerEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/ExternalLongEncoding.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/encoding/external/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-jav Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeLikelihoods.GenotypeLikelihoodsAllelePair.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypesContext.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/GenotypeType.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/JexlMissingValueTreatment.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.LazyData.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/LazyGenotypesContext.LazyParser.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/StructuralVariantType.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.Type.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContext.Validation.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextBuilder.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextComparator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextUtils.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/VariantContextUtils.JexlVCMatchExp.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/CompoundFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/FilteringIterator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/FilteringVariantContextIterator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/GenotypeQualityFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/HeterozygosityFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/JavascriptVariantFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/PassingVariantFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/SnpFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/VariantContextFilter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/filter/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/AsyncVariantContextWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing 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using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/Interval.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalIndexCreator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/tribble/index/interval/IntervalTree.html using File::StripNondeterminism::handlers::javadoc Normalizing 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using File::StripNondeterminism::handlers::png Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_cd0a0a_256x240.png using File::StripNondeterminism::handlers::png Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_55_fbf9ee_1x400.png using File::StripNondeterminism::handlers::png Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-icons_222222_256x240.png using File::StripNondeterminism::handlers::png Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/jquery/images/ui-bg_glass_75_e6e6e6_1x400.png using File::StripNondeterminism::handlers::png m::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/variantcontext/writer/BCF2FieldWriter.SiteWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing 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File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFContigHeaderLine.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFEncoder.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFileReader.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFilterHeaderLine.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFFormatHeaderLine.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeader.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeader.HEADER_FIELDS.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLine.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineCount.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineTranslator.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/variant/vcf/VCFHeaderLineType.html using File::StripNondeterminism::handlers::javadoc Normalizing 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hare/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/LTF8.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/io/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CompressionHeaderFactory.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/ContainerFactory.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/cram/build/CramContainerHeaderIterator.html using File::StripNondeterminism::handlers::javadoc 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debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/ExampleSamUsage.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/PrintReadsExample.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/package-summary.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/example/package-tree.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/AsyncFastqWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/BasicFastqWriter.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqConstants.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqConstants.FastqExtensions.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqEncoder.html using File::StripNondeterminism::handlers::javadoc Normalizing debian/libhtsjdk-java-doc/usr/share/doc/libhtsjdk-java-doc/api/htsjdk/samtools/fastq/FastqReader.html using File::StripNondeterminism::handlers::javadoc dh_compress -i -O--buildsystem=gradle cd debian/libhtsjdk-java cd debian/libhtsjdk-java-doc chmod a-x usr/share/doc/libhtsjdk-java/changelog.Debian gzip -9nf usr/share/doc/libhtsjdk-java/changelog.Debian cd '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' chmod a-x usr/share/doc/libhtsjdk-java-doc/changelog.Debian gzip -9nf usr/share/doc/libhtsjdk-java-doc/changelog.Debian cd '/build/htsjdk-YbBuY3/htsjdk-2.23.0+dfsg' dh_fixperms -i -O--buildsystem=gradle find debian/libhtsjdk-java ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libhtsjdk-java-doc ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/libhtsjdk-java/usr/share/doc -type f -a -true -a ! -regex 'debian/libhtsjdk-java/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libhtsjdk-java/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libhtsjdk-java -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libhtsjdk-java-doc/usr/share/doc -type f -a -true -a ! -regex 'debian/libhtsjdk-java-doc/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/libhtsjdk-java-doc/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/libhtsjdk-java-doc -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 dh_missing -i -O--buildsystem=gradle dh_installdeb -i -O--buildsystem=gradle install -d debian/libhtsjdk-java/DEBIAN install -d debian/libhtsjdk-java-doc/DEBIAN dh_gencontrol -i -O--buildsystem=gradle echo misc:Depends= >> debian/libhtsjdk-java.substvars echo misc:Pre-Depends= >> debian/libhtsjdk-java.substvars dpkg-gencontrol -plibhtsjdk-java -ldebian/changelog -Tdebian/libhtsjdk-java.substvars -Pdebian/libhtsjdk-java echo misc:Depends= >> debian/libhtsjdk-java-doc.substvars echo misc:Pre-Depends= >> debian/libhtsjdk-java-doc.substvars dpkg-gencontrol -plibhtsjdk-java-doc -ldebian/changelog -Tdebian/libhtsjdk-java-doc.substvars -Pdebian/libhtsjdk-java-doc chmod 0644 -- debian/libhtsjdk-java/DEBIAN/control chmod 0644 -- debian/libhtsjdk-java-doc/DEBIAN/control dh_md5sums -i -O--buildsystem=gradle cd debian/libhtsjdk-java >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums cd debian/libhtsjdk-java-doc >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/libhtsjdk-java/DEBIAN/md5sums chmod 0644 -- debian/libhtsjdk-java-doc/DEBIAN/md5sums dh_builddeb -i -O--buildsystem=gradle dpkg-deb --root-owner-group --build debian/libhtsjdk-java .. dpkg-deb --root-owner-group --build debian/libhtsjdk-java-doc .. dpkg-deb: building package 'libhtsjdk-java' in '../libhtsjdk-java_2.23.0+dfsg-2_all.deb'. dpkg-deb: building package 'libhtsjdk-java-doc' in '../libhtsjdk-java-doc_2.23.0+dfsg-2_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../htsjdk_2.23.0+dfsg-2_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/htsjdk-YbBuY3 /tmp/htsjdk-2.23.0+dfsg-2r1y1qnzn I: cleaning package lists and apt cache... W: deleting files in /tmp: hsperfdata_root W: deleting files in /tmp: hsperfdata_builduser I: removing tempdir /tmp/mmdebstrap.QCk1_ynoYj... I: success in 906.4653 seconds md5: libhtsjdk-java-doc_2.23.0+dfsg-2_all.deb: OK md5: libhtsjdk-java_2.23.0+dfsg-2_all.deb: OK sha1: libhtsjdk-java-doc_2.23.0+dfsg-2_all.deb: OK sha1: libhtsjdk-java_2.23.0+dfsg-2_all.deb: OK sha256: libhtsjdk-java-doc_2.23.0+dfsg-2_all.deb: OK sha256: libhtsjdk-java_2.23.0+dfsg-2_all.deb: OK Checksums: OK