Mon Nov 11 12:21:04 UTC 2024 I: starting to build snpeff/trixie/amd64 on jenkins on '2024-11-11 12:20' Mon Nov 11 12:21:04 UTC 2024 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_20/35606/console.log Mon Nov 11 12:21:04 UTC 2024 I: Downloading source for trixie/snpeff=5.2.e+dfsg-1 --2024-11-11 12:21:04-- http://deb.debian.org/debian/pool/main/s/snpeff/snpeff_5.2.e%2bdfsg-1.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2569 (2.5K) [text/prs.lines.tag] Saving to: ‘snpeff_5.2.e+dfsg-1.dsc’ 0K .. 100% 356M=0s 2024-11-11 12:21:04 (356 MB/s) - ‘snpeff_5.2.e+dfsg-1.dsc’ saved [2569/2569] Mon Nov 11 12:21:04 UTC 2024 I: snpeff_5.2.e+dfsg-1.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: snpeff Binary: libsnpeff-java, snpeff, libsnpeff-java-doc Architecture: all Version: 5.2.e+dfsg-1 Maintainer: Debian Med Packaging Team Uploaders: Andreas Tille , Pierre Gruet Homepage: https://pcingola.github.io/SnpEff/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/med-team/snpeff Vcs-Git: https://salsa.debian.org/med-team/snpeff.git Testsuite: autopkgtest Testsuite-Triggers: default-jdk-headless, junit5, quilt Build-Depends: debhelper-compat (= 13), javahelper, default-jdk, default-jdk-doc, maven-debian-helper, libmaven-assembly-plugin-java, libtrove3-java, libhtsjdk-java, libbiojava6-java, junit5, libcommons-codec-java, libcommons-io-java, libcommons-cli-java, libcommons-math3-java, libfreemarker-java, libjaxb-api-java, libmaven-javadoc-plugin-java, libbiojava6-java-doc, libtrove3-java-doc, libcharts4j-java, libapfloat-java, libdistlib-java Package-List: libsnpeff-java deb java optional arch=all libsnpeff-java-doc deb doc optional arch=all snpeff deb java optional arch=all Checksums-Sha1: 6dbcf5b97936bc51cc02aa7a1014a0ec3540c633 154908804 snpeff_5.2.e+dfsg.orig.tar.xz 7a5c9068c417beb66599edc40a3f436c737ea682 14208 snpeff_5.2.e+dfsg-1.debian.tar.xz Checksums-Sha256: 5f8b813711a867fd455fd5019593268cbfdab23268fb8a2c03f4957066bb0df7 154908804 snpeff_5.2.e+dfsg.orig.tar.xz 4103f573f83c604e0ddc132a4531a6eb8ad72f6770fb6fde497066ebd3a5a3d7 14208 snpeff_5.2.e+dfsg-1.debian.tar.xz Files: 5881f26c0692e8fd2b4acdc716f42355 154908804 snpeff_5.2.e+dfsg.orig.tar.xz e4d6f7abf6f67562cc810f03a4ffce2d 14208 snpeff_5.2.e+dfsg-1.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmcBtRwACgkQYAMWptwn dHY94Q//XPnEFxlef/2ryMn+rn+DSYb1iOsp2iUtR5nHNJpLT4vFZDE0MJY/QzYt 1cBDwjwvrS8cGHp4PT+p/epVAHqlT3mgHzhIk8j/atOQjRJ8cksGR6tfLHIsQSn9 R4YgT1ykwimHAAI9jLOArmgPkbDyPm0rI7BneUNI/CilZpO1EWjLr/5PV2VaHAp8 prq23GTNoMbN/25xLOpWvBDp0hiElFnGqvsRMyoDMrpvWCpYmUr0AP3XdvGkDAHn 1f51KXlZ7uLcGxFA+V2etu8ZuurON2GtBW4f1vEx0DqLiMpLyH6Z0V0+/wK7Hf/K CInl7cGrt/8bar8jum0Qi1xcGQR7EAnyKuTy9z1RdukxORHWwAtMInfoqRQFK8mM yq0i9MV+Sju/3rRW5ebr62BLeL9X4u0DVfq5PKcKOTFUkPYO6mYlt4vwbLic3f3k IxFMsnnp2yjHD4PezOtTrc78P4Voy1SaXf/CC/dAuN//iDjFYSt6ns68PxBSK4qb hnMI01k6f0iUVY+K0rB+k+NaNHpdhKMYZ4K4opnwDKHX1/re1az3R62zn8hMUlZP DYYvPOglaMx9OqXWCr3QvGUmyU+vfggC35MzTF0nBrxojVjVFGawynjLD3Wm5op+ /509WV/gXtUI0Hkf+SP52flMFgOipoeF0c9jhDQUHdGQHe+8hoQ= =cRVZ -----END PGP SIGNATURE----- Mon Nov 11 12:21:04 UTC 2024 I: Checking whether the package is not for us Mon Nov 11 12:21:04 UTC 2024 I: Starting 1st build on remote node ionos15-amd64.debian.net. Mon Nov 11 12:21:04 UTC 2024 I: Preparing to do remote build '1' on ionos15-amd64.debian.net. Mon Nov 11 12:36:41 UTC 2024 I: Deleting $TMPDIR on ionos15-amd64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Sun Dec 14 06:44:10 -12 2025 I: pbuilder-time-stamp: 1765737850 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [snpeff_5.2.e+dfsg-1.dsc] I: copying [./snpeff_5.2.e+dfsg.orig.tar.xz] I: copying [./snpeff_5.2.e+dfsg-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Oct 5 21:52:28 2024 gpgv: using RSA key 33CB284313E90BD27DCB4523600316A6DC277476 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./snpeff_5.2.e+dfsg-1.dsc: no acceptable signature found dpkg-source: info: extracting snpeff in snpeff-5.2.e+dfsg dpkg-source: info: unpacking snpeff_5.2.e+dfsg.orig.tar.xz dpkg-source: info: unpacking snpeff_5.2.e+dfsg-1.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying alter_pom_for_debian_packaging.patch dpkg-source: info: applying update_launching_script_and_config_file_for_Debian.patch dpkg-source: info: applying use_fastq_from_biojava6.patch dpkg-source: info: applying omit_unused_junit_classes_and_integration_tests.patch dpkg-source: info: applying exclude_tests_with_missing_data.patch dpkg-source: info: applying lowering_heap_allocation.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/921916/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='amd64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 ' DISTRIBUTION='trixie' HOME='/root' HOST_ARCH='amd64' IFS=' ' INVOCATION_ID='246a166bc96e4f538ad2674b0003c607' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='921916' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/pbuilderrc_OhJ6 --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/b1 --logfile b1/build.log snpeff_5.2.e+dfsg-1.dsc' SUDO_GID='111' SUDO_UID='106' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://213.165.73.152:3128' I: uname -a Linux ionos15-amd64 6.10.11+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.10.11-1~bpo12+1 (2024-10-03) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 2024 /bin -> usr/bin I: user script /srv/workspace/pbuilder/921916/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: amd64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), javahelper, default-jdk, default-jdk-doc, maven-debian-helper, libmaven-assembly-plugin-java, libtrove3-java, libhtsjdk-java, libbiojava6-java, junit5, libcommons-codec-java, libcommons-io-java, libcommons-cli-java, libcommons-math3-java, libfreemarker-java, libjaxb-api-java, libmaven-javadoc-plugin-java, libbiojava6-java-doc, libtrove3-java-doc, libcharts4j-java, libapfloat-java, libdistlib-java dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19971 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on javahelper; however: Package javahelper is not installed. pbuilder-satisfydepends-dummy depends on default-jdk; however: Package default-jdk is not installed. pbuilder-satisfydepends-dummy depends on default-jdk-doc; however: Package default-jdk-doc is not installed. pbuilder-satisfydepends-dummy depends on maven-debian-helper; however: Package maven-debian-helper is not installed. pbuilder-satisfydepends-dummy depends on libmaven-assembly-plugin-java; however: Package libmaven-assembly-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libtrove3-java; however: Package libtrove3-java is not installed. pbuilder-satisfydepends-dummy depends on libhtsjdk-java; however: Package libhtsjdk-java is not installed. pbuilder-satisfydepends-dummy depends on libbiojava6-java; however: Package libbiojava6-java is not installed. pbuilder-satisfydepends-dummy depends on junit5; however: Package junit5 is not installed. pbuilder-satisfydepends-dummy depends on libcommons-codec-java; however: Package libcommons-codec-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-io-java; however: Package libcommons-io-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-cli-java; however: Package libcommons-cli-java is not installed. pbuilder-satisfydepends-dummy depends on libcommons-math3-java; however: Package libcommons-math3-java is not installed. pbuilder-satisfydepends-dummy depends on libfreemarker-java; however: Package libfreemarker-java is not installed. pbuilder-satisfydepends-dummy depends on libjaxb-api-java; however: Package libjaxb-api-java is not installed. pbuilder-satisfydepends-dummy depends on libmaven-javadoc-plugin-java; however: Package libmaven-javadoc-plugin-java is not installed. pbuilder-satisfydepends-dummy depends on libbiojava6-java-doc; however: Package libbiojava6-java-doc is not installed. pbuilder-satisfydepends-dummy depends on libtrove3-java-doc; however: Package libtrove3-java-doc is not installed. pbuilder-satisfydepends-dummy depends on libcharts4j-java; however: Package libcharts4j-java is not installed. pbuilder-satisfydepends-dummy depends on libapfloat-java; however: Package libapfloat-java is not installed. pbuilder-satisfydepends-dummy depends on libdistlib-java; however: Package libdistlib-java is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: adwaita-icon-theme{a} ant{a} ant-optional{a} at-spi2-common{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} binfmt-support{a} bsdextrautils{a} ca-certificates{a} ca-certificates-java{a} dbus{a} dbus-bin{a} dbus-daemon{a} dbus-session-bus-common{a} dbus-system-bus-common{a} dbus-user-session{a} dconf-gsettings-backend{a} dconf-service{a} dctrl-tools{a} debhelper{a} default-jdk{a} default-jdk-doc{a} default-jdk-headless{a} default-jre{a} default-jre-headless{a} devscripts{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dirmngr{a} dwz{a} fastjar{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} gnupg{a} gnupg-l10n{a} gpg{a} gpg-agent{a} gpgconf{a} gpgsm{a} groff-base{a} gtk-update-icon-cache{a} hicolor-icon-theme{a} intltool-debian{a} jarwrapper{a} java-common{a} javahelper{a} junit4{a} junit5{a} libactivation-java{a} libantlr4-runtime-java{a} libaopalliance-java{a} libapache-pom-java{a} libapfloat-java{a} libapiguardian-java{a} libapparmor1{a} libarchive-zip-perl{a} libargs4j-java{a} libasm-java{a} libasound2-data{a} libasound2t64{a} libassuan9{a} libatinject-jsr330-api-java{a} libatk-bridge2.0-0t64{a} libatk1.0-0t64{a} libatspi2.0-0t64{a} libavahi-client3{a} libavahi-common-data{a} libavahi-common3{a} libb-hooks-op-check-perl{a} libbiojava6-java{a} libbiojava6-java-doc{a} libbrotli1{a} libbsh-java{a} libcairo-gobject2{a} libcairo2{a} libcdi-api-java{a} libcharts4j-java{a} libciftools-java{a} libclass-method-modifiers-perl{a} libclass-xsaccessor-perl{a} libclone-perl{a} libcloudproviders0{a} libcodemodel-java{a} libcolord2{a} libcom-err2{a} libcommons-beanutils-java{a} libcommons-cli-java{a} libcommons-codec-java{a} libcommons-collections3-java{a} libcommons-compress-java{a} libcommons-digester-java{a} libcommons-exec-java{a} libcommons-io-java{a} libcommons-jexl2-java{a} libcommons-lang-java{a} libcommons-lang3-java{a} libcommons-logging-java{a} libcommons-math-java{a} libcommons-math3-java{a} libcommons-parent-java{a} libcommons-text-java{a} libcommons-validator-java{a} libcups2t64{a} libdatrie1{a} libdbus-1-3{a} libdconf1{a} libdebhelper-perl{a} libdeflate0{a} libdevel-callchecker-perl{a} libdistlib-java{a} libdom4j-java{a} libdoxia-core-java{a} libdoxia-java{a} libdoxia-sitetools-java{a} libdrm-amdgpu1{a} libdrm-common{a} libdrm-intel1{a} libdrm-radeon1{a} libdrm2{a} libdtd-parser-java{a} libdynaloader-functions-perl{a} libedit2{a} libel-api-java{a} libelf1t64{a} libencode-locale-perl{a} libepoxy0{a} liberror-prone-java{a} libexec-maven-plugin-java{a} libexpat1{a} libfastinfoset-java{a} libfastutil-java{a} libfile-dirlist-perl{a} libfile-homedir-perl{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfile-touch-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreemarker-java{a} libfreetype6{a} libfribidi0{a} libgbm1{a} libgdk-pixbuf-2.0-0{a} libgdk-pixbuf2.0-common{a} libgeronimo-annotation-1.3-spec-java{a} libgeronimo-interceptor-3.0-spec-java{a} libgif7{a} libgl1{a} libgl1-mesa-dri{a} libglapi-mesa{a} libglib2.0-0t64{a} libglvnd0{a} libglx-mesa0{a} libglx0{a} libgoogle-gson-java{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgtk-3-0t64{a} libgtk-3-common{a} libguava-java{a} libguice-java{a} libhamcrest-java{a} libharfbuzz0b{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhtsjdk-java{a} libhttp-cookies-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libhttpclient-java{a} libhttpcore-java{a} libicu72{a} libimport-into-perl{a} libinchi1.07{a} libio-html-perl{a} libio-pty-perl{a} libio-socket-ssl-perl{a} libipc-run-perl{a} libistack-commons-java{a} libitext5-java{a} libjackson2-annotations-java{a} libjackson2-core-java{a} libjackson2-databind-java{a} libjansi-java{a} libjaxb-api-java{a} libjaxb-java{a} libjaxen-java{a} libjbig0{a} libjetty9-java{a} libjgrapht-java{a} libjgraphx-java{a} libjheaps-java{a} libjmol-java{a} libjni-inchi-java{a} libjni-inchi-jni{a} libjpeg62-turbo{a} libjs-jquery{a} libjs-jquery-ui{a} libjs-jquery-ui-theme-base{a} libjson-simple-java{a} libjsoup-java{a} libjsp-api-java{a} libjsr305-java{a} libjtidy-java{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libksba8{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} libllvm19{a} liblog4j1.2-java{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1t64{a} libmaven-archiver-java{a} libmaven-artifact-transfer-java{a} libmaven-assembly-plugin-java{a} libmaven-clean-plugin-java{a} libmaven-common-artifact-filters-java{a} libmaven-compiler-plugin-java{a} libmaven-file-management-java{a} libmaven-filtering-java{a} libmaven-invoker-java{a} libmaven-jar-plugin-java{a} libmaven-javadoc-plugin-java{a} libmaven-parent-java{a} libmaven-plugin-tools-java{a} libmaven-reporting-api-java{a} libmaven-reporting-exec-java{a} libmaven-resolver-java{a} libmaven-resources-plugin-java{a} libmaven-shared-incremental-java{a} libmaven-shared-io-java{a} libmaven-shared-utils-java{a} libmaven-site-plugin-java{a} libmaven3-core-java{a} libmbedcrypto7t64{a} libmbedtls14t64{a} libmbedx509-1t64{a} libmjson-java{a} libmmtf-java{a} libmodule-runtime-perl{a} libmoo-perl{a} libmsgpack-java{a} libnaga-java{a} libncbi-ngs3{a} libncbi-vdb3{a} libnet-http-perl{a} libnet-ssleay-perl{a} libngs-java{a} libngs-jni{a} libnpth0t64{a} libnsl2{a} libnspr4{a} libnss3{a} libopentest4j-java{a} libopentest4j-reporting-java{a} liboro-java{a} libpam-systemd{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libparams-classify-perl{a} libpciaccess0{a} libpcsclite1{a} libpicocli-java{a} libpipeline1{a} libpixman-1-0{a} libplexus-ant-factory-java{a} libplexus-archiver-java{a} libplexus-bsh-factory-java{a} libplexus-build-api-java{a} libplexus-cipher-java{a} libplexus-classworlds-java{a} libplexus-compiler-java{a} libplexus-component-annotations-java{a} libplexus-container-default-java{a} libplexus-container-default1.5-java{a} libplexus-i18n-java{a} libplexus-interactivity-api-java{a} libplexus-interpolation-java{a} libplexus-io-java{a} libplexus-languages-java{a} libplexus-sec-dispatcher-java{a} libplexus-utils2-java{a} libplexus-velocity-java{a} libplexus-xml-java{a} libpng16-16t64{a} libproc2-0{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libqdox2-java{a} libreadline8t64{a} librelaxng-datatype-java{a} librhino-java{a} librngom-java{a} librole-tiny-perl{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libservlet-api-java{a} libsharpyuv0{a} libsisu-inject-java{a} libsisu-plexus-java{a} libslf4j-java{a} libsnappy-java{a} libsnappy-jni{a} libsnappy1v5{a} libstax-ex-java{a} libstreambuffer-java{a} libsub-quote-perl{a} libsurefire-java{a} libsystemd-shared{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc3t64{a} libtool{a} libtrove3-java{a} libtrove3-java-doc{a} libtry-tiny-perl{a} libtxw2-java{a} libuchardet0{a} libunivocity-parsers-java{a} liburi-perl{a} libvecmath-java{a} libvelocity-tools-java{a} libvulkan1{a} libwagon-file-java{a} libwagon-http-java{a} libwagon-http-shaded-java{a} libwagon-provider-api-java{a} libwayland-client0{a} libwayland-cursor0{a} libwayland-egl1{a} libwayland-server0{a} libwebp7{a} libwebsocket-api-java{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libx11-xcb1{a} libxau6{a} libxbean-reflect-java{a} libxcb-dri2-0{a} libxcb-dri3-0{a} libxcb-glx0{a} libxcb-present0{a} libxcb-randr0{a} libxcb-render0{a} libxcb-shm0{a} libxcb-sync1{a} libxcb-xfixes0{a} libxcb1{a} libxcomposite1{a} libxcursor1{a} libxdamage1{a} libxdmcp6{a} libxerces2-java{a} libxext6{a} libxfixes3{a} libxi6{a} libxinerama1{a} libxkbcommon0{a} libxml-commons-external-java{a} libxml-commons-resolver1.1-java{a} libxml2{a} libxml2-utils{a} libxrandr2{a} libxrender1{a} libxshmfence1{a} libxsom-java{a} libxtst6{a} libxxf86vm1{a} libxz-java{a} libz3-4{a} m4{a} man-db{a} maven{a} maven-debian-helper{a} maven-repo-helper{a} media-types{a} mesa-libgallium{a} ncbi-vdb-data{a} netbase{a} openjdk-21-doc{a} openjdk-21-jdk{a} openjdk-21-jdk-headless{a} openjdk-21-jre{a} openjdk-21-jre-headless{a} openssl{a} patchutils{a} perl-openssl-defaults{a} pinentry-curses{a} po-debconf{a} procps{a} python3{a} python3-minimal{a} python3.12{a} python3.12-minimal{a} readline-common{a} sensible-utils{a} sgml-base{a} shared-mime-info{a} systemd{a} systemd-sysv{a} tzdata{a} unzip{a} velocity{a} wdiff{a} x11-common{a} xkb-data{a} The following packages are RECOMMENDED but will NOT be installed: alsa-topology-conf alsa-ucm-conf at-spi2-core chrony curl debian-keyring dput dput-ng dupload equivs fonts-dejavu-extra gnupg-utils gpg-wks-client javascript-common krb5-locales libarchive-cpio-perl libatk-wrapper-java-jni libdata-dump-perl libdistro-info-perl libgdk-pixbuf2.0-bin libgit-wrapper-perl libgitlab-api-v4-perl libglib2.0-data libgtk-3-bin libhtml-form-perl libhtml-format-perl libhttp-daemon-perl libio-compress-brotli-perl libjline3-java libjson-perl libkmod2 libldap-common liblist-compare-perl libltdl-dev libmail-sendmail-perl libmailtools-perl libnamespace-clean-perl libnss-systemd librsvg2-common libsasl2-modules libsoap-lite-perl libstring-shellquote-perl libxstring-perl libxt-dev licensecheck lintian linux-sysctl-defaults lynx mesa-vulkan-drivers ntpsec openntpd pristine-tar psmisc python3-apt python3-debian python3-magic python3-requests python3-unidiff python3-xdg strace systemd-cryptsetup systemd-timesyncd wget xdg-user-dirs 0 packages upgraded, 430 newly installed, 0 to remove and 0 not upgraded. Need to get 357 MB of archives. After unpacking 1288 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian trixie/main amd64 libapparmor1 amd64 3.1.7-1+b2 [42.1 kB] Get: 2 http://deb.debian.org/debian trixie/main amd64 libsystemd-shared amd64 256.7-3 [2068 kB] Get: 3 http://deb.debian.org/debian trixie/main amd64 systemd amd64 256.7-3 [3492 kB] Get: 4 http://deb.debian.org/debian trixie/main amd64 systemd-sysv amd64 256.7-3 [58.7 kB] Get: 5 http://deb.debian.org/debian trixie/main amd64 libdbus-1-3 amd64 1.14.10-6 [203 kB] Get: 6 http://deb.debian.org/debian trixie/main amd64 dbus-bin amd64 1.14.10-6 [106 kB] Get: 7 http://deb.debian.org/debian trixie/main amd64 dbus-session-bus-common all 1.14.10-6 [79.2 kB] Get: 8 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.3-2 [105 kB] Get: 9 http://deb.debian.org/debian trixie/main amd64 dbus-daemon amd64 1.14.10-6 [185 kB] Get: 10 http://deb.debian.org/debian trixie/main amd64 dbus-system-bus-common all 1.14.10-6 [80.2 kB] Get: 11 http://deb.debian.org/debian trixie/main amd64 dbus amd64 1.14.10-6 [98.5 kB] Get: 12 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB] Get: 13 http://deb.debian.org/debian trixie/main amd64 binfmt-support amd64 2.2.2-7 [64.3 kB] Get: 14 http://deb.debian.org/debian trixie/main amd64 libpython3.12-minimal amd64 3.12.7-3 [815 kB] Get: 15 http://deb.debian.org/debian trixie/main amd64 python3.12-minimal amd64 3.12.7-3 [2162 kB] Get: 16 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.12.6-1 [26.7 kB] Get: 17 http://deb.debian.org/debian trixie/main amd64 media-types all 10.1.0 [26.9 kB] Get: 18 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB] Get: 19 http://deb.debian.org/debian trixie/main amd64 tzdata all 2024b-3 [255 kB] Get: 20 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-3 [32.5 kB] Get: 21 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.1-1+b1 [23.2 kB] Get: 22 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-3 [79.9 kB] Get: 23 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B] Get: 24 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-3 [324 kB] Get: 25 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-3 [136 kB] Get: 26 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB] Get: 27 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB] Get: 28 http://deb.debian.org/debian trixie/main amd64 libnsl2 amd64 1.3.0-3+b3 [40.6 kB] Get: 29 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-5 [69.3 kB] Get: 30 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-5 [169 kB] Get: 31 http://deb.debian.org/debian trixie/main amd64 libpython3.12-stdlib amd64 3.12.7-3 [1966 kB] Get: 32 http://deb.debian.org/debian trixie/main amd64 python3.12 amd64 3.12.7-3 [671 kB] Get: 33 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.12.6-1 [9692 B] Get: 34 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.12.6-1 [27.8 kB] Get: 35 http://deb.debian.org/debian trixie/main amd64 sgml-base all 1.31 [15.4 kB] Get: 36 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-6 [64.8 kB] Get: 37 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-6 [879 kB] Get: 38 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB] Get: 39 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.3.2-2 [1382 kB] Get: 40 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20240203 [158 kB] Get: 41 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB] Get: 42 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB] Get: 43 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB] Get: 44 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.22.5-2 [200 kB] Get: 45 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB] Get: 46 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-5 [1181 kB] Get: 47 http://deb.debian.org/debian trixie/main amd64 libpam-systemd amd64 256.7-3 [280 kB] Get: 48 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.2-9 [97.2 kB] Get: 49 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB] Get: 50 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf2.0-common all 2.42.12+dfsg-1 [311 kB] Get: 51 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.82.2-2 [1501 kB] Get: 52 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-5+b1 [9423 kB] Get: 53 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.1 [699 kB] Get: 54 http://deb.debian.org/debian trixie/main amd64 shared-mime-info amd64 2.4-5+b1 [759 kB] Get: 55 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3+b1 [168 kB] Get: 56 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.44-2 [280 kB] Get: 57 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.22-1 [47.3 kB] Get: 58 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB] Get: 59 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB] Get: 60 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.4.0-0.1+b1 [113 kB] Get: 61 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.4.0-0.1+b1 [313 kB] Get: 62 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB] Get: 63 http://deb.debian.org/debian trixie/main amd64 libgdk-pixbuf-2.0-0 amd64 2.42.12+dfsg-1+b1 [141 kB] Get: 64 http://deb.debian.org/debian trixie/main amd64 gtk-update-icon-cache amd64 4.16.3+ds-2 [50.1 kB] Get: 65 http://deb.debian.org/debian trixie/main amd64 hicolor-icon-theme all 0.18-1 [12.0 kB] Get: 66 http://deb.debian.org/debian trixie/main amd64 adwaita-icon-theme all 47.0-2 [463 kB] Get: 67 http://deb.debian.org/debian trixie/main amd64 ca-certificates-java all 20240118 [11.6 kB] Get: 68 http://deb.debian.org/debian trixie/main amd64 java-common all 0.76 [6776 B] Get: 69 http://deb.debian.org/debian trixie/main amd64 liblcms2-2 amd64 2.16-2 [160 kB] Get: 70 http://deb.debian.org/debian trixie/main amd64 libnspr4 amd64 2:4.35-1.1+b1 [109 kB] Get: 71 http://deb.debian.org/debian trixie/main amd64 libnss3 amd64 2:3.105-2 [1393 kB] Get: 72 http://deb.debian.org/debian trixie/main amd64 libpcsclite1 amd64 2.3.0-3 [55.8 kB] Get: 73 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre-headless amd64 21.0.5+11-1 [41.8 MB] Get: 74 http://deb.debian.org/debian trixie/main amd64 default-jre-headless amd64 2:1.21-76 [3192 B] Get: 75 http://deb.debian.org/debian trixie/main amd64 ant all 1.10.15-1 [2163 kB] Get: 76 http://deb.debian.org/debian trixie/main amd64 ant-optional all 1.10.15-1 [456 kB] Get: 77 http://deb.debian.org/debian trixie/main amd64 at-spi2-common all 2.54.0-1 [170 kB] Get: 78 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-4 [287 kB] Get: 79 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB] Get: 80 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB] Get: 81 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.16.5-1.3 [823 kB] Get: 82 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.22.5-2 [723 kB] Get: 83 http://deb.debian.org/debian trixie/main amd64 dbus-user-session amd64 1.14.10-6 [79.0 kB] Get: 84 http://deb.debian.org/debian trixie/main amd64 libdconf1 amd64 0.40.0-4+b3 [41.9 kB] Get: 85 http://deb.debian.org/debian trixie/main amd64 dconf-service amd64 0.40.0-4+b3 [32.6 kB] Get: 86 http://deb.debian.org/debian trixie/main amd64 dconf-gsettings-backend amd64 0.40.0-4+b3 [28.8 kB] Get: 87 http://deb.debian.org/debian trixie/main amd64 dctrl-tools amd64 2.24-3+b1 [104 kB] Get: 88 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.20 [89.7 kB] Get: 89 http://deb.debian.org/debian trixie/main amd64 libtool all 2.4.7-8 [517 kB] Get: 90 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB] Get: 91 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 92 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.0-1 [19.5 kB] Get: 93 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.0-1 [8448 B] Get: 94 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB] Get: 95 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB] Get: 96 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.22.5-2 [1601 kB] Get: 97 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 98 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 99 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.20 [915 kB] Get: 100 http://deb.debian.org/debian trixie/main amd64 libatk1.0-0t64 amd64 2.54.0-1 [51.2 kB] Get: 101 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB] Get: 102 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.2-3+b2 [24.4 kB] Get: 103 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB] Get: 104 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB] Get: 105 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB] Get: 106 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b2 [50.5 kB] Get: 107 http://deb.debian.org/debian trixie/main amd64 libxi6 amd64 2:1.8.2-1 [78.9 kB] Get: 108 http://deb.debian.org/debian trixie/main amd64 libatspi2.0-0t64 amd64 2.54.0-1 [76.4 kB] Get: 109 http://deb.debian.org/debian trixie/main amd64 libatk-bridge2.0-0t64 amd64 2.54.0-1 [67.6 kB] Get: 110 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b5 [307 kB] Get: 111 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB] Get: 112 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 113 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 114 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-1.1+b1 [318 kB] Get: 115 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-1.1+b1 [391 kB] Get: 116 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.42.2-1+b1 [556 kB] Get: 117 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB] Get: 118 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB] Get: 119 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b2 [27.8 kB] Get: 120 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB] Get: 121 http://deb.debian.org/debian trixie/main amd64 libcairo-gobject2 amd64 1.18.2-2 [130 kB] Get: 122 http://deb.debian.org/debian trixie/main amd64 libcloudproviders0 amd64 0.3.6-1+b1 [29.2 kB] Get: 123 http://deb.debian.org/debian trixie/main amd64 libcolord2 amd64 1.4.7-1+b2 [140 kB] Get: 124 http://deb.debian.org/debian trixie/main amd64 libavahi-common-data amd64 0.8-13+b3 [112 kB] Get: 125 http://deb.debian.org/debian trixie/main amd64 libavahi-common3 amd64 0.8-13+b3 [43.2 kB] Get: 126 http://deb.debian.org/debian trixie/main amd64 libavahi-client3 amd64 0.8-13+b3 [47.5 kB] Get: 127 http://deb.debian.org/debian trixie/main amd64 libcups2t64 amd64 2.4.10-2 [251 kB] Get: 128 http://deb.debian.org/debian trixie/main amd64 libepoxy0 amd64 1.5.10-2 [193 kB] Get: 129 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.15-1 [71.8 kB] Get: 130 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB] Get: 131 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.0.1-1 [477 kB] Get: 132 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-1.1+b1 [463 kB] Get: 133 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB] Get: 134 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB] Get: 135 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB] Get: 136 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.54.0+ds-3 [223 kB] Get: 137 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.54.0+ds-3 [54.2 kB] Get: 138 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.54.0+ds-3 [35.2 kB] Get: 139 http://deb.debian.org/debian trixie/main amd64 libwayland-client0 amd64 1.23.0-1+b1 [26.6 kB] Get: 140 http://deb.debian.org/debian trixie/main amd64 libwayland-cursor0 amd64 1.23.0-1+b1 [11.7 kB] Get: 141 http://deb.debian.org/debian trixie/main amd64 libwayland-egl1 amd64 1.23.0-1+b1 [5664 B] Get: 142 http://deb.debian.org/debian trixie/main amd64 libxcomposite1 amd64 1:0.4.6-1 [16.3 kB] Get: 143 http://deb.debian.org/debian trixie/main amd64 libxfixes3 amd64 1:6.0.0-2+b2 [20.3 kB] Get: 144 http://deb.debian.org/debian trixie/main amd64 libxcursor1 amd64 1:1.2.2-1+b1 [37.6 kB] Get: 145 http://deb.debian.org/debian trixie/main amd64 libxdamage1 amd64 1:1.1.6-1+b2 [15.5 kB] Get: 146 http://deb.debian.org/debian trixie/main amd64 libxinerama1 amd64 2:1.1.4-3+b2 [16.0 kB] Get: 147 http://deb.debian.org/debian trixie/main amd64 xkb-data all 2.42-1 [790 kB] Get: 148 http://deb.debian.org/debian trixie/main amd64 libxkbcommon0 amd64 1.6.0-1+b2 [111 kB] Get: 149 http://deb.debian.org/debian trixie/main amd64 libxrandr2 amd64 2:1.5.4-1+b1 [36.3 kB] Get: 150 http://deb.debian.org/debian trixie/main amd64 libgtk-3-common all 3.24.43-4 [4657 kB] Get: 151 http://deb.debian.org/debian trixie/main amd64 libgtk-3-0t64 amd64 3.24.43-4 [2754 kB] Get: 152 http://deb.debian.org/debian trixie/main amd64 libglvnd0 amd64 1.7.0-1+b2 [52.0 kB] Get: 153 http://deb.debian.org/debian trixie/main amd64 libdrm-common all 2.4.123-1 [8084 B] Get: 154 http://deb.debian.org/debian trixie/main amd64 libdrm2 amd64 2.4.123-1 [38.7 kB] Get: 155 http://deb.debian.org/debian trixie/main amd64 libglapi-mesa amd64 24.2.6-1 [38.0 kB] Get: 156 http://deb.debian.org/debian trixie/main amd64 libx11-xcb1 amd64 2:1.8.10-2 [241 kB] Get: 157 http://deb.debian.org/debian trixie/main amd64 libxcb-dri2-0 amd64 1.17.0-2+b1 [107 kB] Get: 158 http://deb.debian.org/debian trixie/main amd64 libxcb-dri3-0 amd64 1.17.0-2+b1 [107 kB] Get: 159 http://deb.debian.org/debian trixie/main amd64 libxcb-glx0 amd64 1.17.0-2+b1 [122 kB] Get: 160 http://deb.debian.org/debian trixie/main amd64 libxcb-present0 amd64 1.17.0-2+b1 [106 kB] Get: 161 http://deb.debian.org/debian trixie/main amd64 libxcb-randr0 amd64 1.17.0-2+b1 [117 kB] Get: 162 http://deb.debian.org/debian trixie/main amd64 libxcb-sync1 amd64 1.17.0-2+b1 [109 kB] Get: 163 http://deb.debian.org/debian trixie/main amd64 libxcb-xfixes0 amd64 1.17.0-2+b1 [109 kB] Get: 164 http://deb.debian.org/debian trixie/main amd64 libxshmfence1 amd64 1.3-1+b2 [8848 B] Get: 165 http://deb.debian.org/debian trixie/main amd64 libxxf86vm1 amd64 1:1.1.4-1+b3 [19.3 kB] Get: 166 http://deb.debian.org/debian trixie/main amd64 libdrm-amdgpu1 amd64 2.4.123-1 [22.3 kB] Get: 167 http://deb.debian.org/debian trixie/main amd64 libpciaccess0 amd64 0.17-3+b2 [51.9 kB] Get: 168 http://deb.debian.org/debian trixie/main amd64 libdrm-intel1 amd64 2.4.123-1 [63.7 kB] Get: 169 http://deb.debian.org/debian trixie/main amd64 libdrm-radeon1 amd64 2.4.123-1 [22.3 kB] Get: 170 http://deb.debian.org/debian trixie/main amd64 libedit2 amd64 3.1-20240808-1 [93.9 kB] Get: 171 http://deb.debian.org/debian trixie/main amd64 libz3-4 amd64 4.13.3-1 [8560 kB] Get: 172 http://deb.debian.org/debian trixie/main amd64 libllvm19 amd64 1:19.1.3-1 [26.0 MB] Get: 173 http://deb.debian.org/debian trixie/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB] Get: 174 http://deb.debian.org/debian trixie/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB] Get: 175 http://deb.debian.org/debian trixie/main amd64 mesa-libgallium amd64 24.2.6-1 [9185 kB] Get: 176 http://deb.debian.org/debian trixie/main amd64 libvulkan1 amd64 1.3.296.0-1 [126 kB] Get: 177 http://deb.debian.org/debian trixie/main amd64 libwayland-server0 amd64 1.23.0-1+b1 [34.2 kB] Get: 178 http://deb.debian.org/debian trixie/main amd64 libgbm1 amd64 24.2.6-1 [42.8 kB] Get: 179 http://deb.debian.org/debian trixie/main amd64 libgl1-mesa-dri amd64 24.2.6-1 [43.9 kB] Get: 180 http://deb.debian.org/debian trixie/main amd64 libglx-mesa0 amd64 24.2.6-1 [154 kB] Get: 181 http://deb.debian.org/debian trixie/main amd64 libglx0 amd64 1.7.0-1+b2 [34.9 kB] Get: 182 http://deb.debian.org/debian trixie/main amd64 libgl1 amd64 1.7.0-1+b2 [89.5 kB] Get: 183 http://deb.debian.org/debian trixie/main amd64 libasound2-data all 1.2.12-1 [21.0 kB] Get: 184 http://deb.debian.org/debian trixie/main amd64 libasound2t64 amd64 1.2.12-1+b1 [371 kB] Get: 185 http://deb.debian.org/debian trixie/main amd64 libgif7 amd64 5.2.2-1+b1 [44.2 kB] Get: 186 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+23.1 [216 kB] Get: 187 http://deb.debian.org/debian trixie/main amd64 libxtst6 amd64 2:1.2.3-1.1+b2 [25.9 kB] Get: 188 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jre amd64 21.0.5+11-1 [205 kB] Get: 189 http://deb.debian.org/debian trixie/main amd64 default-jre amd64 2:1.21-76 [1068 B] Get: 190 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jdk-headless amd64 21.0.5+11-1 [82.8 MB] Get: 191 http://deb.debian.org/debian trixie/main amd64 default-jdk-headless amd64 2:1.21-76 [1124 B] Get: 192 http://deb.debian.org/debian trixie/main amd64 openjdk-21-jdk amd64 21.0.5+11-1 [3360 kB] Get: 193 http://deb.debian.org/debian trixie/main amd64 default-jdk amd64 2:1.21-76 [1076 B] Get: 194 http://deb.debian.org/debian trixie/main amd64 libjs-jquery all 3.6.1+dfsg+~3.5.14-1 [326 kB] Get: 195 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-ui all 1.13.2+dfsg-1 [250 kB] Get: 196 http://deb.debian.org/debian trixie/main amd64 libjs-jquery-ui-theme-base all 1.12.1+dfsg-1.1 [44.3 kB] Get: 197 http://deb.debian.org/debian trixie/main amd64 openjdk-21-doc all 21.0.5+11-1 [13.2 MB] Get: 198 http://deb.debian.org/debian trixie/main amd64 default-jdk-doc amd64 2:1.21-76 [3264 B] Get: 199 http://deb.debian.org/debian trixie/main amd64 libassuan9 amd64 3.0.1-2 [60.6 kB] Get: 200 http://deb.debian.org/debian trixie/main amd64 gpgconf amd64 2.2.45-2 [120 kB] Get: 201 http://deb.debian.org/debian trixie/main amd64 libksba8 amd64 1.6.7-2+b1 [136 kB] Get: 202 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-8 [19.6 kB] Get: 203 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-8 [57.3 kB] Get: 204 http://deb.debian.org/debian trixie/main amd64 libldap-2.5-0 amd64 2.5.18+dfsg-3+b1 [188 kB] Get: 205 http://deb.debian.org/debian trixie/main amd64 libnpth0t64 amd64 1.6-3.1+b1 [18.2 kB] Get: 206 http://deb.debian.org/debian trixie/main amd64 dirmngr amd64 2.2.45-2 [368 kB] Get: 207 http://deb.debian.org/debian trixie/main amd64 gnupg-l10n all 2.2.45-2 [705 kB] Get: 208 http://deb.debian.org/debian trixie/main amd64 gpg amd64 2.2.45-2 [531 kB] Get: 209 http://deb.debian.org/debian trixie/main amd64 pinentry-curses amd64 1.2.1-4+b1 [79.7 kB] Get: 210 http://deb.debian.org/debian trixie/main amd64 gpg-agent amd64 2.2.45-2 [251 kB] Get: 211 http://deb.debian.org/debian trixie/main amd64 gpgsm amd64 2.2.45-2 [255 kB] Get: 212 http://deb.debian.org/debian trixie/main amd64 gnupg all 2.2.45-2 [376 kB] Get: 213 http://deb.debian.org/debian trixie/main amd64 libfile-dirlist-perl all 0.05-3 [7600 B] Get: 214 http://deb.debian.org/debian trixie/main amd64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 215 http://deb.debian.org/debian trixie/main amd64 libfile-homedir-perl all 1.006-2 [42.4 kB] Get: 216 http://deb.debian.org/debian trixie/main amd64 libfile-touch-perl all 0.12-2 [8816 B] Get: 217 http://deb.debian.org/debian trixie/main amd64 libio-pty-perl amd64 1:1.20-1+b2 [34.3 kB] Get: 218 http://deb.debian.org/debian trixie/main amd64 libipc-run-perl all 20231003.0-2 [101 kB] Get: 219 http://deb.debian.org/debian trixie/main amd64 libclass-method-modifiers-perl all 2.15-1 [18.0 kB] Get: 220 http://deb.debian.org/debian trixie/main amd64 libclass-xsaccessor-perl amd64 1.19-4+b4 [36.1 kB] Get: 221 http://deb.debian.org/debian trixie/main amd64 libb-hooks-op-check-perl amd64 0.22-3+b2 [10.6 kB] Get: 222 http://deb.debian.org/debian trixie/main amd64 libdynaloader-functions-perl all 0.004-1 [12.1 kB] Get: 223 http://deb.debian.org/debian trixie/main amd64 libdevel-callchecker-perl amd64 0.009-1+b1 [16.2 kB] Get: 224 http://deb.debian.org/debian trixie/main amd64 libparams-classify-perl amd64 0.015-2+b4 [22.5 kB] Get: 225 http://deb.debian.org/debian trixie/main amd64 libmodule-runtime-perl all 0.016-2 [19.6 kB] Get: 226 http://deb.debian.org/debian trixie/main amd64 libimport-into-perl all 1.002005-2 [11.3 kB] Get: 227 http://deb.debian.org/debian trixie/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB] Get: 228 http://deb.debian.org/debian trixie/main amd64 libsub-quote-perl all 2.006008-1 [21.8 kB] Get: 229 http://deb.debian.org/debian trixie/main amd64 libmoo-perl all 2.005005-1 [58.0 kB] Get: 230 http://deb.debian.org/debian trixie/main amd64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 231 http://deb.debian.org/debian trixie/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 232 http://deb.debian.org/debian trixie/main amd64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 233 http://deb.debian.org/debian trixie/main amd64 libfile-listing-perl all 6.16-1 [12.4 kB] Get: 234 http://deb.debian.org/debian trixie/main amd64 libhtml-tagset-perl all 3.24-1 [14.7 kB] Get: 235 http://deb.debian.org/debian trixie/main amd64 liburi-perl all 5.30-1 [105 kB] Get: 236 http://deb.debian.org/debian trixie/main amd64 libhtml-parser-perl amd64 3.83-1+b1 [99.7 kB] Get: 237 http://deb.debian.org/debian trixie/main amd64 libhtml-tree-perl all 5.07-3 [211 kB] Get: 238 http://deb.debian.org/debian trixie/main amd64 libclone-perl amd64 0.47-1+b1 [13.9 kB] Get: 239 http://deb.debian.org/debian trixie/main amd64 libio-html-perl all 1.004-3 [16.2 kB] Get: 240 http://deb.debian.org/debian trixie/main amd64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 241 http://deb.debian.org/debian trixie/main amd64 libhttp-message-perl all 7.00-2 [79.8 kB] Get: 242 http://deb.debian.org/debian trixie/main amd64 libhttp-cookies-perl all 6.11-1 [19.1 kB] Get: 243 http://deb.debian.org/debian trixie/main amd64 libhttp-negotiate-perl all 6.01-2 [13.1 kB] Get: 244 http://deb.debian.org/debian trixie/main amd64 perl-openssl-defaults amd64 7+b2 [6724 B] Get: 245 http://deb.debian.org/debian trixie/main amd64 libnet-ssleay-perl amd64 1.94-2 [339 kB] Get: 246 http://deb.debian.org/debian trixie/main amd64 libio-socket-ssl-perl all 2.089-1 [223 kB] Get: 247 http://deb.debian.org/debian trixie/main amd64 libnet-http-perl all 6.23-1 [23.9 kB] Get: 248 http://deb.debian.org/debian trixie/main amd64 liblwp-protocol-https-perl all 6.14-1 [10.8 kB] Get: 249 http://deb.debian.org/debian trixie/main amd64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 250 http://deb.debian.org/debian trixie/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB] Get: 251 http://deb.debian.org/debian trixie/main amd64 libwww-perl all 6.77-1 [183 kB] Get: 252 http://deb.debian.org/debian trixie/main amd64 patchutils amd64 0.4.2-1 [77.5 kB] Get: 253 http://deb.debian.org/debian trixie/main amd64 wdiff amd64 1.2.2-6 [119 kB] Get: 254 http://deb.debian.org/debian trixie/main amd64 devscripts all 2.24.2 [1076 kB] Get: 255 http://deb.debian.org/debian trixie/main amd64 fastjar amd64 2:0.98-7 [80.1 kB] Get: 256 http://deb.debian.org/debian trixie/main amd64 jarwrapper all 0.80 [9692 B] Get: 257 http://deb.debian.org/debian trixie/main amd64 javahelper all 0.80 [80.4 kB] Get: 258 http://deb.debian.org/debian trixie/main amd64 libhamcrest-java all 2.2-2 [121 kB] Get: 259 http://deb.debian.org/debian trixie/main amd64 junit4 all 4.13.2-5 [350 kB] Get: 260 http://deb.debian.org/debian trixie/main amd64 libapiguardian-java all 1.1.2-1 [4656 B] Get: 261 http://deb.debian.org/debian trixie/main amd64 libopentest4j-java all 1.2.0-4 [9516 B] Get: 262 http://deb.debian.org/debian trixie/main amd64 libopentest4j-reporting-java all 0.1.0-M1-2 [49.0 kB] Get: 263 http://deb.debian.org/debian trixie/main amd64 libpicocli-java all 4.6.2-2 [390 kB] Get: 264 http://deb.debian.org/debian trixie/main amd64 libunivocity-parsers-java all 2.9.1-1 [397 kB] Get: 265 http://deb.debian.org/debian trixie/main amd64 junit5 all 5.10.3-1 [2459 kB] Get: 266 http://deb.debian.org/debian trixie/main amd64 libactivation-java all 1.2.0-2 [84.7 kB] Get: 267 http://deb.debian.org/debian trixie/main amd64 libantlr4-runtime-java all 4.9.2-2 [317 kB] Get: 268 http://deb.debian.org/debian trixie/main amd64 libaopalliance-java all 20070526-7 [8572 B] Get: 269 http://deb.debian.org/debian trixie/main amd64 libapache-pom-java all 33-2 [5852 B] Get: 270 http://deb.debian.org/debian trixie/main amd64 libapfloat-java all 1.14.0-1 [725 kB] Get: 271 http://deb.debian.org/debian trixie/main amd64 libargs4j-java all 2.33-2 [138 kB] Get: 272 http://deb.debian.org/debian trixie/main amd64 libasm-java all 9.7.1-1 [391 kB] Get: 273 http://deb.debian.org/debian trixie/main amd64 libatinject-jsr330-api-java all 1.0+ds1-5 [5312 B] Get: 274 http://deb.debian.org/debian trixie/main amd64 libgeronimo-annotation-1.3-spec-java all 1.3-1 [11.1 kB] Get: 275 http://deb.debian.org/debian trixie/main amd64 libgoogle-gson-java all 2.10.1-1 [262 kB] Get: 276 http://deb.debian.org/debian trixie/main amd64 libciftools-java all 6.0.0-1 [2211 kB] Get: 277 http://deb.debian.org/debian trixie/main amd64 libcommons-parent-java all 56-1 [10.8 kB] Get: 278 http://deb.debian.org/debian trixie/main amd64 libcommons-codec-java all 1.17.1-1 [303 kB] Get: 279 http://deb.debian.org/debian trixie/main amd64 libcommons-math-java all 2.2-9 [933 kB] Get: 280 http://deb.debian.org/debian trixie/main amd64 liberror-prone-java all 2.18.0-1 [22.5 kB] Get: 281 http://deb.debian.org/debian trixie/main amd64 libjsr305-java all 0.1~+svn49-11 [26.9 kB] Get: 282 http://deb.debian.org/debian trixie/main amd64 libguava-java all 32.0.1-1 [2708 kB] Get: 283 http://deb.debian.org/debian trixie/main amd64 libitext5-java all 5.5.13.3-4 [2667 kB] Get: 284 http://deb.debian.org/debian trixie/main amd64 libjackson2-annotations-java all 2.14.0-1 [68.8 kB] Get: 285 http://deb.debian.org/debian trixie/main amd64 libjackson2-core-java all 2.14.1-1 [447 kB] Get: 286 http://deb.debian.org/debian trixie/main amd64 libjackson2-databind-java all 2.14.0-1 [1584 kB] Get: 287 http://deb.debian.org/debian trixie/main amd64 libjaxb-api-java all 2.3.1-1 [119 kB] Get: 288 http://deb.debian.org/debian trixie/main amd64 libjaxen-java all 1.1.6-5 [214 kB] Get: 289 http://deb.debian.org/debian trixie/main amd64 libdom4j-java all 2.1.4-1 [312 kB] Get: 290 http://deb.debian.org/debian trixie/main amd64 libcommons-io-java all 2.17.0-1 [488 kB] Get: 291 http://deb.debian.org/debian trixie/main amd64 libslf4j-java all 1.7.32-1 [144 kB] Get: 292 http://deb.debian.org/debian trixie/main amd64 libmaven-shared-utils-java all 3.4.2-1 [137 kB] Get: 293 http://deb.debian.org/debian trixie/main amd64 libcommons-cli-java all 1.6.0-1 [60.4 kB] Get: 294 http://deb.debian.org/debian trixie/main amd64 libcommons-lang3-java all 3.17.0-1 [641 kB] Get: 295 http://deb.debian.org/debian trixie/main amd64 libguice-java all 4.2.3-2 [1435 kB] Get: 296 http://deb.debian.org/debian trixie/main amd64 libmaven-parent-java all 43-2 [6252 B] Get: 297 http://deb.debian.org/debian trixie/main amd64 libplexus-utils2-java all 3.4.2-1 [258 kB] Get: 298 http://deb.debian.org/debian trixie/main amd64 libwagon-provider-api-java all 3.5.3-1 [48.2 kB] Get: 299 http://deb.debian.org/debian trixie/main amd64 libmaven-resolver-java all 1.6.3-1 [548 kB] Get: 300 http://deb.debian.org/debian trixie/main amd64 libplexus-cipher-java all 2.0-1 [14.9 kB] Get: 301 http://deb.debian.org/debian trixie/main amd64 libplexus-classworlds-java all 2.7.0-1 [50.6 kB] Get: 302 http://deb.debian.org/debian trixie/main amd64 libplexus-component-annotations-java all 2.1.1-1 [7660 B] Get: 303 http://deb.debian.org/debian trixie/main amd64 libplexus-interpolation-java all 1.27-1 [76.8 kB] Get: 304 http://deb.debian.org/debian trixie/main amd64 libplexus-sec-dispatcher-java all 2.0-3 [28.3 kB] Get: 305 http://deb.debian.org/debian trixie/main amd64 libgeronimo-interceptor-3.0-spec-java all 1.0.1-4 [8484 B] Get: 306 http://deb.debian.org/debian trixie/main amd64 libcdi-api-java all 1.2-4 [55.3 kB] Get: 307 http://deb.debian.org/debian trixie/main amd64 libsisu-inject-java all 0.3.4-2 [347 kB] Get: 308 http://deb.debian.org/debian trixie/main amd64 libsisu-plexus-java all 0.3.4-3 [181 kB] Get: 309 http://deb.debian.org/debian trixie/main amd64 libmaven3-core-java all 3.8.8-1 [1579 kB] Get: 310 http://deb.debian.org/debian trixie/main amd64 libmaven-shared-io-java all 3.0.0-4 [33.2 kB] Get: 311 http://deb.debian.org/debian trixie/main amd64 libmaven-file-management-java all 3.0.0-1 [35.1 kB] Get: 312 http://deb.debian.org/debian trixie/main amd64 libcommons-compress-java all 1.27.1-2 [641 kB] Get: 313 http://deb.debian.org/debian trixie/main amd64 libplexus-io-java all 3.3.1-2 [65.3 kB] Get: 314 http://deb.debian.org/debian trixie/main amd64 libsnappy1v5 amd64 1.2.1-1+b1 [29.6 kB] Get: 315 http://deb.debian.org/debian trixie/main amd64 libsnappy-jni amd64 1.1.10.5-2 [6396 B] Get: 316 http://deb.debian.org/debian trixie/main amd64 libsnappy-java all 1.1.10.5-2 [87.5 kB] Get: 317 http://deb.debian.org/debian trixie/main amd64 libxz-java all 1.9-1 [143 kB] Get: 318 http://deb.debian.org/debian trixie/main amd64 libplexus-archiver-java all 4.6.1-1 [187 kB] Get: 319 http://deb.debian.org/debian trixie/main amd64 libhttpcore-java all 4.4.16-1 [636 kB] Get: 320 http://deb.debian.org/debian trixie/main amd64 libcommons-logging-java all 1.3.0-1 [68.6 kB] Get: 321 http://deb.debian.org/debian trixie/main amd64 libhttpclient-java all 4.5.14-1 [1247 kB] Get: 322 http://deb.debian.org/debian trixie/main amd64 libjsoup-java all 1.15.3-1 [431 kB] Get: 323 http://deb.debian.org/debian trixie/main amd64 libwagon-http-java all 3.5.3-1 [49.5 kB] Get: 324 http://deb.debian.org/debian trixie/main amd64 libistack-commons-java all 3.0.6-5 [145 kB] Get: 325 http://deb.debian.org/debian trixie/main amd64 libcodemodel-java all 2.6+jaxb2.3.0.1-11 [164 kB] Get: 326 http://deb.debian.org/debian trixie/main amd64 librelaxng-datatype-java all 1.0+ds1-3.1 [11.7 kB] Get: 327 http://deb.debian.org/debian trixie/main amd64 librngom-java all 2.3.0.1-11 [292 kB] Get: 328 http://deb.debian.org/debian trixie/main amd64 libxsom-java all 2.3.0.1-11 [401 kB] Get: 329 http://deb.debian.org/debian trixie/main amd64 libtxw2-java all 2.3.0.1-11 [134 kB] Get: 330 http://deb.debian.org/debian trixie/main amd64 libxml-commons-resolver1.1-java all 1.2-11 [98.3 kB] Get: 331 http://deb.debian.org/debian trixie/main amd64 libdtd-parser-java all 1.2-1 [64.9 kB] Get: 332 http://deb.debian.org/debian trixie/main amd64 libstax-ex-java all 1.7.8-3 [40.9 kB] Get: 333 http://deb.debian.org/debian trixie/main amd64 libstreambuffer-java all 1.5.4-1.1 [74.0 kB] Get: 334 http://deb.debian.org/debian trixie/main amd64 libfastinfoset-java all 1.2.12-3 [343 kB] Get: 335 http://deb.debian.org/debian trixie/main amd64 libjaxb-java all 2.3.0.1-11 [1980 kB] Get: 336 http://deb.debian.org/debian trixie/main amd64 libmaven-archiver-java all 3.6.2-1 [26.1 kB] Get: 337 http://deb.debian.org/debian trixie/main amd64 libmaven-jar-plugin-java all 3.3.0-2 [24.0 kB] Get: 338 http://deb.debian.org/debian trixie/main amd64 libcommons-text-java all 1.12.0-1 [222 kB] Get: 339 http://deb.debian.org/debian trixie/main amd64 libfastutil-java all 8.5.15+dfsg-1 [20.0 MB] Get: 340 http://deb.debian.org/debian trixie/main amd64 libjheaps-java all 0.14-2 [144 kB] Get: 341 http://deb.debian.org/debian trixie/main amd64 libxml-commons-external-java all 1.4.01-6 [240 kB] Get: 342 http://deb.debian.org/debian trixie/main amd64 libxerces2-java all 2.12.2-1 [1440 kB] Get: 343 http://deb.debian.org/debian trixie/main amd64 libjgraphx-java all 2.1.0.7-4 [807 kB] Get: 344 http://deb.debian.org/debian trixie/main amd64 libjgrapht-java all 1.5.2-1 [1610 kB] Get: 345 http://deb.debian.org/debian trixie/main amd64 libinchi1.07 amd64 1.07.1+dfsg-4 [556 kB] Get: 346 http://deb.debian.org/debian trixie/main amd64 libjni-inchi-jni amd64 0.8+dfsg-8 [9188 B] Get: 347 http://deb.debian.org/debian trixie/main amd64 libcommons-exec-java all 1.3-2 [48.1 kB] Get: 348 http://deb.debian.org/debian trixie/main amd64 libexec-maven-plugin-java all 3.1.0-2 [66.7 kB] Get: 349 http://deb.debian.org/debian trixie/main amd64 libmaven-shared-incremental-java all 1.1-6 [9916 B] Get: 350 http://deb.debian.org/debian trixie/main amd64 libcommons-lang-java all 2.6-10 [273 kB] Get: 351 http://deb.debian.org/debian trixie/main amd64 libxbean-reflect-java all 4.5-9 [132 kB] Get: 352 http://deb.debian.org/debian trixie/main amd64 libplexus-container-default-java all 2.1.1-1 [193 kB] Get: 353 http://deb.debian.org/debian trixie/main amd64 libplexus-compiler-java all 2.13.0-1 [99.5 kB] Get: 354 http://deb.debian.org/debian trixie/main amd64 libqdox2-java all 2.0.3-1 [296 kB] Get: 355 http://deb.debian.org/debian trixie/main amd64 libplexus-languages-java all 1.1.1-2 [47.3 kB] Get: 356 http://deb.debian.org/debian trixie/main amd64 libmaven-compiler-plugin-java all 3.13.0-1 [78.8 kB] Get: 357 http://deb.debian.org/debian trixie/main amd64 liblog4j1.2-java all 1.2.17-11 [444 kB] Get: 358 http://deb.debian.org/debian trixie/main amd64 libjni-inchi-java all 0.8+dfsg-8 [33.6 kB] Get: 359 http://deb.debian.org/debian trixie/main amd64 libnaga-java all 3.0+svn80-5 [43.5 kB] Get: 360 http://deb.debian.org/debian trixie/main amd64 libjmol-java all 16.2.33+dfsg-1 [10.4 MB] Get: 361 http://deb.debian.org/debian trixie/main amd64 libjson-simple-java all 2.3.0-1 [63.8 kB] Get: 362 http://deb.debian.org/debian trixie/main amd64 libmsgpack-java all 0.9.6-1 [161 kB] Get: 363 http://deb.debian.org/debian trixie/main amd64 libmmtf-java all 1.0.11-1 [187 kB] Get: 364 http://deb.debian.org/debian trixie/main amd64 libvecmath-java all 1.5.2-7 [97.0 kB] Get: 365 http://deb.debian.org/debian trixie/main amd64 libbiojava6-java all 6.1.0+dfsg-5 [5359 kB] Get: 366 http://deb.debian.org/debian trixie/main amd64 libbiojava6-java-doc all 6.1.0+dfsg-5 [2256 kB] Get: 367 http://deb.debian.org/debian trixie/main amd64 libbsh-java all 2.0b4-20 [291 kB] Get: 368 http://deb.debian.org/debian trixie/main amd64 libcharts4j-java all 1.3-4 [162 kB] Get: 369 http://deb.debian.org/debian trixie/main amd64 libcommons-collections3-java all 3.2.2-3 [530 kB] Get: 370 http://deb.debian.org/debian trixie/main amd64 libcommons-beanutils-java all 1.9.4-2 [233 kB] Get: 371 http://deb.debian.org/debian trixie/main amd64 libcommons-digester-java all 1.8.1-7 [138 kB] Get: 372 http://deb.debian.org/debian trixie/main amd64 libcommons-jexl2-java all 2.1.1-6 [256 kB] Get: 373 http://deb.debian.org/debian trixie/main amd64 libcommons-math3-java all 3.6.1-3 [2018 kB] Get: 374 http://deb.debian.org/debian trixie/main amd64 libcommons-validator-java all 1:1.7-1 [181 kB] Get: 375 http://deb.debian.org/debian trixie/main amd64 libdistlib-java all 1.0-5 [72.5 kB] Get: 376 http://deb.debian.org/debian trixie/main amd64 libdoxia-core-java all 2.0.0-1 [149 kB] Get: 377 http://deb.debian.org/debian trixie/main amd64 libplexus-xml-java all 3.0.1-2 [93.7 kB] Get: 378 http://deb.debian.org/debian trixie/main amd64 libdoxia-java all 2.0.0-1 [113 kB] Get: 379 http://deb.debian.org/debian trixie/main amd64 libmaven-reporting-api-java all 4.0.0-1 [6724 B] Get: 380 http://deb.debian.org/debian trixie/main amd64 libplexus-i18n-java all 1.0-beta-10-6 [13.4 kB] Get: 381 http://deb.debian.org/debian trixie/main amd64 velocity all 1.7-7 [431 kB] Get: 382 http://deb.debian.org/debian trixie/main amd64 libplexus-velocity-java all 1.2-4 [9676 B] Get: 383 http://deb.debian.org/debian trixie/main amd64 liboro-java all 2.0.8a-14 [70.5 kB] Get: 384 http://deb.debian.org/debian trixie/main amd64 libvelocity-tools-java all 2.0-9 [311 kB] Get: 385 http://deb.debian.org/debian trixie/main amd64 libdoxia-sitetools-java all 2.0.0-1 [176 kB] Get: 386 http://deb.debian.org/debian trixie/main amd64 libel-api-java all 3.0.0-3 [64.9 kB] Get: 387 http://deb.debian.org/debian trixie/main amd64 libfreemarker-java all 2.3.32-2 [1546 kB] Get: 388 http://deb.debian.org/debian trixie/main amd64 libmjson-java all 1.4.0-3 [60.4 kB] Get: 389 http://deb.debian.org/debian trixie/main amd64 libmbedcrypto7t64 amd64 2.28.8-1 [284 kB] Get: 390 http://deb.debian.org/debian trixie/main amd64 libmbedx509-1t64 amd64 2.28.8-1 [131 kB] Get: 391 http://deb.debian.org/debian trixie/main amd64 libmbedtls14t64 amd64 2.28.8-1 [167 kB] Get: 392 http://deb.debian.org/debian trixie/main amd64 ncbi-vdb-data all 3.0.2+dfsg-2 [73.3 kB] Get: 393 http://deb.debian.org/debian trixie/main amd64 libncbi-vdb3 amd64 3.0.2+dfsg-2+b1 [1049 kB] Get: 394 http://deb.debian.org/debian trixie/main amd64 libncbi-ngs3 amd64 3.0.3+dfsg-9 [155 kB] Get: 395 http://deb.debian.org/debian trixie/main amd64 libngs-jni amd64 3.0.3+dfsg-9 [23.8 kB] Get: 396 http://deb.debian.org/debian trixie/main amd64 libngs-java amd64 3.0.3+dfsg-9 [110 kB] Get: 397 http://deb.debian.org/debian trixie/main amd64 librhino-java all 1.7.14-2.1 [1357 kB] Get: 398 http://deb.debian.org/debian trixie/main amd64 libhtsjdk-java all 4.1.0+dfsg-2 [1833 kB] Get: 399 http://deb.debian.org/debian trixie/main amd64 libjansi-java all 2.4.1-2 [100 kB] Get: 400 http://deb.debian.org/debian trixie/main amd64 libjsp-api-java all 2.3.4-3 [53.7 kB] Get: 401 http://deb.debian.org/debian trixie/main amd64 libservlet-api-java all 4.0.1-2 [81.0 kB] Get: 402 http://deb.debian.org/debian trixie/main amd64 libwebsocket-api-java all 1.1-2 [40.1 kB] Get: 403 http://deb.debian.org/debian trixie/main amd64 libjetty9-java all 9.4.56-1 [2964 kB] Get: 404 http://deb.debian.org/debian trixie/main amd64 libjtidy-java all 7+svn20110807-5 [250 kB] Get: 405 http://deb.debian.org/debian trixie/main amd64 libmaven-common-artifact-filters-java all 3.4.0-1 [47.7 kB] Get: 406 http://deb.debian.org/debian trixie/main amd64 libmaven-artifact-transfer-java all 0.13.1-2 [158 kB] Get: 407 http://deb.debian.org/debian trixie/main amd64 libplexus-build-api-java all 0.0.7-4 [10.3 kB] Get: 408 http://deb.debian.org/debian trixie/main amd64 libmaven-filtering-java all 3.4.0-1 [51.4 kB] Get: 409 http://deb.debian.org/debian trixie/main amd64 libmaven-assembly-plugin-java all 3.4.2-2 [242 kB] Get: 410 http://deb.debian.org/debian trixie/main amd64 libmaven-clean-plugin-java all 3.2.0-2 [32.2 kB] Get: 411 http://deb.debian.org/debian trixie/main amd64 libmaven-invoker-java all 3.3.0-1 [29.1 kB] Get: 412 http://deb.debian.org/debian trixie/main amd64 libplexus-interactivity-api-java all 1.3-1 [11.6 kB] Get: 413 http://deb.debian.org/debian trixie/main amd64 libmaven-javadoc-plugin-java all 3.10.1-2 [451 kB] Get: 414 http://deb.debian.org/debian trixie/main amd64 libplexus-container-default1.5-java all 2.1.1-1 [4476 B] Get: 415 http://deb.debian.org/debian trixie/main amd64 libplexus-ant-factory-java all 1.0~alpha2.1-4 [11.4 kB] Get: 416 http://deb.debian.org/debian trixie/main amd64 libplexus-bsh-factory-java all 1.0~alpha7-5 [8360 B] Get: 417 http://deb.debian.org/debian trixie/main amd64 libmaven-plugin-tools-java all 3.10.2-1 [245 kB] Get: 418 http://deb.debian.org/debian trixie/main amd64 libmaven-reporting-exec-java all 2.0.0-1 [23.9 kB] Get: 419 http://deb.debian.org/debian trixie/main amd64 libmaven-resources-plugin-java all 3.3.1-1 [27.5 kB] Get: 420 http://deb.debian.org/debian trixie/main amd64 libmaven-site-plugin-java all 3.21.0-1 [106 kB] Get: 421 http://deb.debian.org/debian trixie/main amd64 libsurefire-java all 2.22.3-3 [1284 kB] Get: 422 http://deb.debian.org/debian trixie/main amd64 libtrove3-java all 3.0.3-5 [2146 kB] Get: 423 http://deb.debian.org/debian trixie/main amd64 libtrove3-java-doc all 3.0.3-5 [823 kB] Get: 424 http://deb.debian.org/debian trixie/main amd64 libwagon-file-java all 3.5.3-1 [8388 B] Get: 425 http://deb.debian.org/debian trixie/main amd64 libwagon-http-shaded-java all 3.5.3-1 [1341 kB] Get: 426 http://deb.debian.org/debian trixie/main amd64 libxml2-utils amd64 2.12.7+dfsg+really2.9.14-0.1 [99.1 kB] Get: 427 http://deb.debian.org/debian trixie/main amd64 maven all 3.8.8-1 [19.3 kB] Get: 428 http://deb.debian.org/debian trixie/main amd64 maven-repo-helper all 1.11 [142 kB] Get: 429 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB] Get: 430 http://deb.debian.org/debian trixie/main amd64 maven-debian-helper all 2.6.5 [108 kB] Fetched 357 MB in 1min 8s (5236 kB/s) debconf: delaying package configuration, since apt-utils is not installed Selecting previously unselected package libapparmor1: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 ... 19971 files and directories currently installed.) Preparing to unpack .../libapparmor1_3.1.7-1+b2_amd64.deb ... Unpacking libapparmor1:amd64 (3.1.7-1+b2) ... Selecting previously unselected package libsystemd-shared:amd64. Preparing to unpack .../libsystemd-shared_256.7-3_amd64.deb ... Unpacking libsystemd-shared:amd64 (256.7-3) ... Selecting previously unselected package systemd. Preparing to unpack .../systemd_256.7-3_amd64.deb ... Unpacking systemd (256.7-3) ... Setting up libapparmor1:amd64 (3.1.7-1+b2) ... Setting up libsystemd-shared:amd64 (256.7-3) ... Setting up systemd (256.7-3) ... Created symlink '/etc/systemd/system/getty.target.wants/getty@tty1.service' -> '/usr/lib/systemd/system/getty@.service'. Created symlink '/etc/systemd/system/multi-user.target.wants/remote-fs.target' -> '/usr/lib/systemd/system/remote-fs.target'. Created symlink '/etc/systemd/system/sysinit.target.wants/systemd-pstore.service' -> '/usr/lib/systemd/system/systemd-pstore.service'. Initializing machine ID from random generator. Creating group 'systemd-journal' with GID 999. Creating group 'systemd-network' with GID 998. Creating user 'systemd-network' (systemd Network Management) with UID 998 and GID 998. /usr/lib/tmpfiles.d/legacy.conf:13: Duplicate line for path "/run/lock", ignoring. Selecting previously unselected package systemd-sysv. (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 ... 20922 files and directories currently installed.) Preparing to unpack .../00-systemd-sysv_256.7-3_amd64.deb ... Unpacking systemd-sysv (256.7-3) ... Selecting previously unselected package libdbus-1-3:amd64. Preparing to unpack .../01-libdbus-1-3_1.14.10-6_amd64.deb ... Unpacking libdbus-1-3:amd64 (1.14.10-6) ... Selecting previously unselected package dbus-bin. Preparing to unpack .../02-dbus-bin_1.14.10-6_amd64.deb ... Unpacking dbus-bin (1.14.10-6) ... Selecting previously unselected package dbus-session-bus-common. Preparing to unpack .../03-dbus-session-bus-common_1.14.10-6_all.deb ... Unpacking dbus-session-bus-common (1.14.10-6) ... Selecting previously unselected package libexpat1:amd64. Preparing to unpack .../04-libexpat1_2.6.3-2_amd64.deb ... Unpacking libexpat1:amd64 (2.6.3-2) ... Selecting previously unselected package dbus-daemon. Preparing to unpack .../05-dbus-daemon_1.14.10-6_amd64.deb ... Unpacking dbus-daemon (1.14.10-6) ... Selecting previously unselected package dbus-system-bus-common. Preparing to unpack .../06-dbus-system-bus-common_1.14.10-6_all.deb ... Unpacking dbus-system-bus-common (1.14.10-6) ... Selecting previously unselected package dbus. Preparing to unpack .../07-dbus_1.14.10-6_amd64.deb ... Unpacking dbus (1.14.10-6) ... Selecting previously unselected package libpipeline1:amd64. Preparing to unpack .../08-libpipeline1_1.5.8-1_amd64.deb ... Unpacking libpipeline1:amd64 (1.5.8-1) ... Selecting previously unselected package binfmt-support. Preparing to unpack .../09-binfmt-support_2.2.2-7_amd64.deb ... Unpacking binfmt-support (2.2.2-7) ... Selecting previously unselected package libpython3.12-minimal:amd64. Preparing to unpack .../10-libpython3.12-minimal_3.12.7-3_amd64.deb ... Unpacking libpython3.12-minimal:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12-minimal. Preparing to unpack .../11-python3.12-minimal_3.12.7-3_amd64.deb ... Unpacking python3.12-minimal (3.12.7-3) ... Setting up libpython3.12-minimal:amd64 (3.12.7-3) ... Setting up libexpat1:amd64 (2.6.3-2) ... Setting up python3.12-minimal (3.12.7-3) ... Selecting previously unselected package python3-minimal. (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 ... 21356 files and directories currently installed.) Preparing to unpack .../00-python3-minimal_3.12.6-1_amd64.deb ... Unpacking python3-minimal (3.12.6-1) ... Selecting previously unselected package media-types. Preparing to unpack .../01-media-types_10.1.0_all.deb ... Unpacking media-types (10.1.0) ... Selecting previously unselected package netbase. Preparing to unpack .../02-netbase_6.4_all.deb ... Unpacking netbase (6.4) ... Selecting previously unselected package tzdata. Preparing to unpack .../03-tzdata_2024b-3_all.deb ... Unpacking tzdata (2024b-3) ... Selecting previously unselected package libkrb5support0:amd64. Preparing to unpack .../04-libkrb5support0_1.21.3-3_amd64.deb ... Unpacking libkrb5support0:amd64 (1.21.3-3) ... Selecting previously unselected package libcom-err2:amd64. Preparing to unpack .../05-libcom-err2_1.47.1-1+b1_amd64.deb ... Unpacking libcom-err2:amd64 (1.47.1-1+b1) ... Selecting previously unselected package libk5crypto3:amd64. Preparing to unpack .../06-libk5crypto3_1.21.3-3_amd64.deb ... Unpacking libk5crypto3:amd64 (1.21.3-3) ... Selecting previously unselected package libkeyutils1:amd64. Preparing to unpack .../07-libkeyutils1_1.6.3-4_amd64.deb ... Unpacking libkeyutils1:amd64 (1.6.3-4) ... Selecting previously unselected package libkrb5-3:amd64. Preparing to unpack .../08-libkrb5-3_1.21.3-3_amd64.deb ... Unpacking libkrb5-3:amd64 (1.21.3-3) ... Selecting previously unselected package libgssapi-krb5-2:amd64. Preparing to unpack .../09-libgssapi-krb5-2_1.21.3-3_amd64.deb ... Unpacking libgssapi-krb5-2:amd64 (1.21.3-3) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../10-libtirpc-common_1.3.4+ds-1.3_all.deb ... Unpacking libtirpc-common (1.3.4+ds-1.3) ... Selecting previously unselected package libtirpc3t64:amd64. Preparing to unpack .../11-libtirpc3t64_1.3.4+ds-1.3+b1_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3 to /lib/x86_64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/x86_64-linux-gnu/libtirpc.so.3.0.0 to /lib/x86_64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Selecting previously unselected package libnsl2:amd64. Preparing to unpack .../12-libnsl2_1.3.0-3+b3_amd64.deb ... Unpacking libnsl2:amd64 (1.3.0-3+b3) ... Selecting previously unselected package readline-common. Preparing to unpack .../13-readline-common_8.2-5_all.deb ... Unpacking readline-common (8.2-5) ... Selecting previously unselected package libreadline8t64:amd64. Preparing to unpack .../14-libreadline8t64_8.2-5_amd64.deb ... Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8 to /lib/x86_64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libhistory.so.8.2 to /lib/x86_64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8 to /lib/x86_64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/x86_64-linux-gnu/libreadline.so.8.2 to /lib/x86_64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:amd64 (8.2-5) ... Selecting previously unselected package libpython3.12-stdlib:amd64. Preparing to unpack .../15-libpython3.12-stdlib_3.12.7-3_amd64.deb ... Unpacking libpython3.12-stdlib:amd64 (3.12.7-3) ... Selecting previously unselected package python3.12. Preparing to unpack .../16-python3.12_3.12.7-3_amd64.deb ... Unpacking python3.12 (3.12.7-3) ... Selecting previously unselected package libpython3-stdlib:amd64. Preparing to unpack .../17-libpython3-stdlib_3.12.6-1_amd64.deb ... Unpacking libpython3-stdlib:amd64 (3.12.6-1) ... Setting up python3-minimal (3.12.6-1) ... Selecting previously unselected package python3. (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 ... 22418 files and directories currently installed.) Preparing to unpack .../000-python3_3.12.6-1_amd64.deb ... Unpacking python3 (3.12.6-1) ... Selecting previously unselected package sgml-base. Preparing to unpack .../001-sgml-base_1.31_all.deb ... Unpacking sgml-base (1.31) ... Selecting previously unselected package libproc2-0:amd64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-6_amd64.deb ... Unpacking libproc2-0:amd64 (2:4.0.4-6) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-6_amd64.deb ... Unpacking procps (2:4.0.4-6) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../004-sensible-utils_0.0.24_all.deb ... Unpacking sensible-utils (0.0.24) ... Selecting previously unselected package openssl. Preparing to unpack .../005-openssl_3.3.2-2_amd64.deb ... Unpacking openssl (3.3.2-2) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../006-ca-certificates_20240203_all.deb ... Unpacking ca-certificates (20240203) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../007-libmagic-mgc_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic-mgc (1:5.45-3+b1) ... Selecting previously unselected package libmagic1t64:amd64. Preparing to unpack .../008-libmagic1t64_1%3a5.45-3+b1_amd64.deb ... Unpacking libmagic1t64:amd64 (1:5.45-3+b1) ... Selecting previously unselected package file. Preparing to unpack .../009-file_1%3a5.45-3+b1_amd64.deb ... Unpacking file (1:5.45-3+b1) ... Selecting previously unselected package gettext-base. Preparing to unpack .../010-gettext-base_0.22.5-2_amd64.deb ... Unpacking gettext-base (0.22.5-2) ... Selecting previously unselected package libuchardet0:amd64. Preparing to unpack .../011-libuchardet0_0.0.8-1+b2_amd64.deb ... Unpacking libuchardet0:amd64 (0.0.8-1+b2) ... Selecting previously unselected package groff-base. Preparing to unpack .../012-groff-base_1.23.0-5_amd64.deb ... Unpacking groff-base (1.23.0-5) ... Selecting previously unselected package libpam-systemd:amd64. Preparing to unpack .../013-libpam-systemd_256.7-3_amd64.deb ... Unpacking libpam-systemd:amd64 (256.7-3) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.40.2-9_amd64.deb ... Unpacking bsdextrautils (2.40.2-9) ... Selecting previously unselected package man-db. Preparing to unpack .../015-man-db_2.13.0-1_amd64.deb ... Unpacking man-db (2.13.0-1) ... Selecting previously unselected package libgdk-pixbuf2.0-common. Preparing to unpack .../016-libgdk-pixbuf2.0-common_2.42.12+dfsg-1_all.deb ... Unpacking libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Selecting previously unselected package libglib2.0-0t64:amd64. Preparing to unpack .../017-libglib2.0-0t64_2.82.2-2_amd64.deb ... Unpacking libglib2.0-0t64:amd64 (2.82.2-2) ... Selecting previously unselected package libicu72:amd64. Preparing to unpack .../018-libicu72_72.1-5+b1_amd64.deb ... Unpacking libicu72:amd64 (72.1-5+b1) ... Selecting previously unselected package libxml2:amd64. Preparing to unpack .../019-libxml2_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package shared-mime-info. Preparing to unpack .../020-shared-mime-info_2.4-5+b1_amd64.deb ... Unpacking shared-mime-info (2.4-5+b1) ... Selecting previously unselected package libjpeg62-turbo:amd64. Preparing to unpack .../021-libjpeg62-turbo_1%3a2.1.5-3+b1_amd64.deb ... Unpacking libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Selecting previously unselected package libpng16-16t64:amd64. Preparing to unpack .../022-libpng16-16t64_1.6.44-2_amd64.deb ... Unpacking libpng16-16t64:amd64 (1.6.44-2) ... Selecting previously unselected package libdeflate0:amd64. Preparing to unpack .../023-libdeflate0_1.22-1_amd64.deb ... Unpacking libdeflate0:amd64 (1.22-1) ... Selecting previously unselected package libjbig0:amd64. Preparing to unpack .../024-libjbig0_2.1-6.1+b2_amd64.deb ... Unpacking libjbig0:amd64 (2.1-6.1+b2) ... Selecting previously unselected package liblerc4:amd64. Preparing to unpack .../025-liblerc4_4.0.0+ds-5_amd64.deb ... Unpacking liblerc4:amd64 (4.0.0+ds-5) ... Selecting previously unselected package libsharpyuv0:amd64. Preparing to unpack .../026-libsharpyuv0_1.4.0-0.1+b1_amd64.deb ... Unpacking libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libwebp7:amd64. Preparing to unpack .../027-libwebp7_1.4.0-0.1+b1_amd64.deb ... Unpacking libwebp7:amd64 (1.4.0-0.1+b1) ... Selecting previously unselected package libtiff6:amd64. Preparing to unpack .../028-libtiff6_4.5.1+git230720-5_amd64.deb ... Unpacking libtiff6:amd64 (4.5.1+git230720-5) ... Selecting previously unselected package libgdk-pixbuf-2.0-0:amd64. Preparing to unpack .../029-libgdk-pixbuf-2.0-0_2.42.12+dfsg-1+b1_amd64.deb ... Unpacking libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1+b1) ... Selecting previously unselected package gtk-update-icon-cache. Preparing to unpack .../030-gtk-update-icon-cache_4.16.3+ds-2_amd64.deb ... No diversion 'diversion of /usr/sbin/update-icon-caches to /usr/sbin/update-icon-caches.gtk2 by libgtk-3-bin', none removed. No diversion 'diversion of /usr/share/man/man8/update-icon-caches.8.gz to /usr/share/man/man8/update-icon-caches.gtk2.8.gz by libgtk-3-bin', none removed. Unpacking gtk-update-icon-cache (4.16.3+ds-2) ... Selecting previously unselected package hicolor-icon-theme. Preparing to unpack .../031-hicolor-icon-theme_0.18-1_all.deb ... Unpacking hicolor-icon-theme (0.18-1) ... Selecting previously unselected package adwaita-icon-theme. Preparing to unpack .../032-adwaita-icon-theme_47.0-2_all.deb ... Unpacking adwaita-icon-theme (47.0-2) ... Selecting previously unselected package ca-certificates-java. Preparing to unpack .../033-ca-certificates-java_20240118_all.deb ... Unpacking ca-certificates-java (20240118) ... Selecting previously unselected package java-common. Preparing to unpack .../034-java-common_0.76_all.deb ... Unpacking java-common (0.76) ... Selecting previously unselected package liblcms2-2:amd64. Preparing to unpack .../035-liblcms2-2_2.16-2_amd64.deb ... Unpacking liblcms2-2:amd64 (2.16-2) ... Selecting previously unselected package libnspr4:amd64. Preparing to unpack .../036-libnspr4_2%3a4.35-1.1+b1_amd64.deb ... Unpacking libnspr4:amd64 (2:4.35-1.1+b1) ... Selecting previously unselected package libnss3:amd64. Preparing to unpack .../037-libnss3_2%3a3.105-2_amd64.deb ... Unpacking libnss3:amd64 (2:3.105-2) ... Selecting previously unselected package libpcsclite1:amd64. Preparing to unpack .../038-libpcsclite1_2.3.0-3_amd64.deb ... Unpacking libpcsclite1:amd64 (2.3.0-3) ... Selecting previously unselected package openjdk-21-jre-headless:amd64. Preparing to unpack .../039-openjdk-21-jre-headless_21.0.5+11-1_amd64.deb ... Unpacking openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jre-headless. Preparing to unpack .../040-default-jre-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jre-headless (2:1.21-76) ... Selecting previously unselected package ant. Preparing to unpack .../041-ant_1.10.15-1_all.deb ... Unpacking ant (1.10.15-1) ... Selecting previously unselected package ant-optional. Preparing to unpack .../042-ant-optional_1.10.15-1_all.deb ... Unpacking ant-optional (1.10.15-1) ... Selecting previously unselected package at-spi2-common. Preparing to unpack .../043-at-spi2-common_2.54.0-1_all.deb ... Unpacking at-spi2-common (2.54.0-1) ... Selecting previously unselected package m4. Preparing to unpack .../044-m4_1.4.19-4_amd64.deb ... Unpacking m4 (1.4.19-4) ... Selecting previously unselected package autoconf. Preparing to unpack .../045-autoconf_2.72-3_all.deb ... Unpacking autoconf (2.72-3) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../046-autotools-dev_20220109.1_all.deb ... Unpacking autotools-dev (20220109.1) ... Selecting previously unselected package automake. Preparing to unpack .../047-automake_1%3a1.16.5-1.3_all.deb ... Unpacking automake (1:1.16.5-1.3) ... Selecting previously unselected package autopoint. Preparing to unpack .../048-autopoint_0.22.5-2_all.deb ... Unpacking autopoint (0.22.5-2) ... Selecting previously unselected package dbus-user-session. Preparing to unpack .../049-dbus-user-session_1.14.10-6_amd64.deb ... Unpacking dbus-user-session (1.14.10-6) ... Selecting previously unselected package libdconf1:amd64. Preparing to unpack .../050-libdconf1_0.40.0-4+b3_amd64.deb ... Unpacking libdconf1:amd64 (0.40.0-4+b3) ... Selecting previously unselected package dconf-service. Preparing to unpack .../051-dconf-service_0.40.0-4+b3_amd64.deb ... Unpacking dconf-service (0.40.0-4+b3) ... Selecting previously unselected package dconf-gsettings-backend:amd64. Preparing to unpack .../052-dconf-gsettings-backend_0.40.0-4+b3_amd64.deb ... Unpacking dconf-gsettings-backend:amd64 (0.40.0-4+b3) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../053-dctrl-tools_2.24-3+b1_amd64.deb ... Unpacking dctrl-tools (2.24-3+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../054-libdebhelper-perl_13.20_all.deb ... Unpacking libdebhelper-perl (13.20) ... Selecting previously unselected package libtool. Preparing to unpack .../055-libtool_2.4.7-8_all.deb ... Unpacking libtool (2.4.7-8) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../056-dh-autoreconf_20_all.deb ... Unpacking dh-autoreconf (20) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../057-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... Selecting previously unselected package libfile-stripnondeterminism-perl. Preparing to unpack .../058-libfile-stripnondeterminism-perl_1.14.0-1_all.deb ... Unpacking libfile-stripnondeterminism-perl (1.14.0-1) ... Selecting previously unselected package dh-strip-nondeterminism. Preparing to unpack .../059-dh-strip-nondeterminism_1.14.0-1_all.deb ... Unpacking dh-strip-nondeterminism (1.14.0-1) ... Selecting previously unselected package libelf1t64:amd64. Preparing to unpack .../060-libelf1t64_0.192-4_amd64.deb ... Unpacking libelf1t64:amd64 (0.192-4) ... Selecting previously unselected package dwz. Preparing to unpack .../061-dwz_0.15-1+b1_amd64.deb ... Unpacking dwz (0.15-1+b1) ... Selecting previously unselected package gettext. Preparing to unpack .../062-gettext_0.22.5-2_amd64.deb ... Unpacking gettext (0.22.5-2) ... Selecting previously unselected package intltool-debian. Preparing to unpack .../063-intltool-debian_0.35.0+20060710.6_all.deb ... Unpacking intltool-debian (0.35.0+20060710.6) ... Selecting previously unselected package po-debconf. Preparing to unpack .../064-po-debconf_1.0.21+nmu1_all.deb ... Unpacking po-debconf (1.0.21+nmu1) ... Selecting previously unselected package debhelper. Preparing to unpack .../065-debhelper_13.20_all.deb ... Unpacking debhelper (13.20) ... Selecting previously unselected package libatk1.0-0t64:amd64. Preparing to unpack .../066-libatk1.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatk1.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libxau6:amd64. Preparing to unpack .../067-libxau6_1%3a1.0.11-1_amd64.deb ... Unpacking libxau6:amd64 (1:1.0.11-1) ... Selecting previously unselected package libxdmcp6:amd64. Preparing to unpack .../068-libxdmcp6_1%3a1.1.2-3+b2_amd64.deb ... Unpacking libxdmcp6:amd64 (1:1.1.2-3+b2) ... Selecting previously unselected package libxcb1:amd64. Preparing to unpack .../069-libxcb1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb1:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libx11-data. Preparing to unpack .../070-libx11-data_2%3a1.8.10-2_all.deb ... Unpacking libx11-data (2:1.8.10-2) ... Selecting previously unselected package libx11-6:amd64. Preparing to unpack .../071-libx11-6_2%3a1.8.10-2_amd64.deb ... Unpacking libx11-6:amd64 (2:1.8.10-2) ... Selecting previously unselected package libxext6:amd64. Preparing to unpack .../072-libxext6_2%3a1.3.4-1+b2_amd64.deb ... Unpacking libxext6:amd64 (2:1.3.4-1+b2) ... Selecting previously unselected package libxi6:amd64. Preparing to unpack .../073-libxi6_2%3a1.8.2-1_amd64.deb ... Unpacking libxi6:amd64 (2:1.8.2-1) ... Selecting previously unselected package libatspi2.0-0t64:amd64. Preparing to unpack .../074-libatspi2.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatspi2.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libatk-bridge2.0-0t64:amd64. Preparing to unpack .../075-libatk-bridge2.0-0t64_2.54.0-1_amd64.deb ... Unpacking libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Selecting previously unselected package libbrotli1:amd64. Preparing to unpack .../076-libbrotli1_1.1.0-2+b5_amd64.deb ... Unpacking libbrotli1:amd64 (1.1.0-2+b5) ... Selecting previously unselected package libfreetype6:amd64. Preparing to unpack .../077-libfreetype6_2.13.3+dfsg-1_amd64.deb ... Unpacking libfreetype6:amd64 (2.13.3+dfsg-1) ... Selecting previously unselected package fonts-dejavu-mono. Preparing to unpack .../078-fonts-dejavu-mono_2.37-8_all.deb ... Unpacking fonts-dejavu-mono (2.37-8) ... Selecting previously unselected package fonts-dejavu-core. Preparing to unpack .../079-fonts-dejavu-core_2.37-8_all.deb ... Unpacking fonts-dejavu-core (2.37-8) ... Selecting previously unselected package fontconfig-config. Preparing to unpack .../080-fontconfig-config_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig-config (2.15.0-1.1+b1) ... Selecting previously unselected package libfontconfig1:amd64. Preparing to unpack .../081-libfontconfig1_2.15.0-1.1+b1_amd64.deb ... Unpacking libfontconfig1:amd64 (2.15.0-1.1+b1) ... Selecting previously unselected package libpixman-1-0:amd64. Preparing to unpack .../082-libpixman-1-0_0.42.2-1+b1_amd64.deb ... Unpacking libpixman-1-0:amd64 (0.42.2-1+b1) ... Selecting previously unselected package libxcb-render0:amd64. Preparing to unpack .../083-libxcb-render0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-render0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-shm0:amd64. Preparing to unpack .../084-libxcb-shm0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-shm0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxrender1:amd64. Preparing to unpack .../085-libxrender1_1%3a0.9.10-1.1+b2_amd64.deb ... Unpacking libxrender1:amd64 (1:0.9.10-1.1+b2) ... Selecting previously unselected package libcairo2:amd64. Preparing to unpack .../086-libcairo2_1.18.2-2_amd64.deb ... Unpacking libcairo2:amd64 (1.18.2-2) ... Selecting previously unselected package libcairo-gobject2:amd64. Preparing to unpack .../087-libcairo-gobject2_1.18.2-2_amd64.deb ... Unpacking libcairo-gobject2:amd64 (1.18.2-2) ... Selecting previously unselected package libcloudproviders0:amd64. Preparing to unpack .../088-libcloudproviders0_0.3.6-1+b1_amd64.deb ... Unpacking libcloudproviders0:amd64 (0.3.6-1+b1) ... Selecting previously unselected package libcolord2:amd64. Preparing to unpack .../089-libcolord2_1.4.7-1+b2_amd64.deb ... Unpacking libcolord2:amd64 (1.4.7-1+b2) ... Selecting previously unselected package libavahi-common-data:amd64. Preparing to unpack .../090-libavahi-common-data_0.8-13+b3_amd64.deb ... Unpacking libavahi-common-data:amd64 (0.8-13+b3) ... Selecting previously unselected package libavahi-common3:amd64. Preparing to unpack .../091-libavahi-common3_0.8-13+b3_amd64.deb ... Unpacking libavahi-common3:amd64 (0.8-13+b3) ... Selecting previously unselected package libavahi-client3:amd64. Preparing to unpack .../092-libavahi-client3_0.8-13+b3_amd64.deb ... Unpacking libavahi-client3:amd64 (0.8-13+b3) ... Selecting previously unselected package libcups2t64:amd64. Preparing to unpack .../093-libcups2t64_2.4.10-2_amd64.deb ... Unpacking libcups2t64:amd64 (2.4.10-2) ... Selecting previously unselected package libepoxy0:amd64. Preparing to unpack .../094-libepoxy0_1.5.10-2_amd64.deb ... Unpacking libepoxy0:amd64 (1.5.10-2) ... Selecting previously unselected package libfribidi0:amd64. Preparing to unpack .../095-libfribidi0_1.0.15-1_amd64.deb ... Unpacking libfribidi0:amd64 (1.0.15-1) ... Selecting previously unselected package libgraphite2-3:amd64. Preparing to unpack .../096-libgraphite2-3_1.3.14-2+b1_amd64.deb ... Unpacking libgraphite2-3:amd64 (1.3.14-2+b1) ... Selecting previously unselected package libharfbuzz0b:amd64. Preparing to unpack .../097-libharfbuzz0b_10.0.1-1_amd64.deb ... Unpacking libharfbuzz0b:amd64 (10.0.1-1) ... Selecting previously unselected package fontconfig. Preparing to unpack .../098-fontconfig_2.15.0-1.1+b1_amd64.deb ... Unpacking fontconfig (2.15.0-1.1+b1) ... Selecting previously unselected package libthai-data. Preparing to unpack .../099-libthai-data_0.1.29-2_all.deb ... Unpacking libthai-data (0.1.29-2) ... Selecting previously unselected package libdatrie1:amd64. Preparing to unpack .../100-libdatrie1_0.2.13-3+b1_amd64.deb ... Unpacking libdatrie1:amd64 (0.2.13-3+b1) ... Selecting previously unselected package libthai0:amd64. Preparing to unpack .../101-libthai0_0.1.29-2+b1_amd64.deb ... Unpacking libthai0:amd64 (0.1.29-2+b1) ... Selecting previously unselected package libpango-1.0-0:amd64. Preparing to unpack .../102-libpango-1.0-0_1.54.0+ds-3_amd64.deb ... Unpacking libpango-1.0-0:amd64 (1.54.0+ds-3) ... Selecting previously unselected package libpangoft2-1.0-0:amd64. Preparing to unpack .../103-libpangoft2-1.0-0_1.54.0+ds-3_amd64.deb ... Unpacking libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Selecting previously unselected package libpangocairo-1.0-0:amd64. Preparing to unpack .../104-libpangocairo-1.0-0_1.54.0+ds-3_amd64.deb ... Unpacking libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Selecting previously unselected package libwayland-client0:amd64. Preparing to unpack .../105-libwayland-client0_1.23.0-1+b1_amd64.deb ... Unpacking libwayland-client0:amd64 (1.23.0-1+b1) ... Selecting previously unselected package libwayland-cursor0:amd64. Preparing to unpack .../106-libwayland-cursor0_1.23.0-1+b1_amd64.deb ... Unpacking libwayland-cursor0:amd64 (1.23.0-1+b1) ... Selecting previously unselected package libwayland-egl1:amd64. Preparing to unpack .../107-libwayland-egl1_1.23.0-1+b1_amd64.deb ... Unpacking libwayland-egl1:amd64 (1.23.0-1+b1) ... Selecting previously unselected package libxcomposite1:amd64. Preparing to unpack .../108-libxcomposite1_1%3a0.4.6-1_amd64.deb ... Unpacking libxcomposite1:amd64 (1:0.4.6-1) ... Selecting previously unselected package libxfixes3:amd64. Preparing to unpack .../109-libxfixes3_1%3a6.0.0-2+b2_amd64.deb ... Unpacking libxfixes3:amd64 (1:6.0.0-2+b2) ... Selecting previously unselected package libxcursor1:amd64. Preparing to unpack .../110-libxcursor1_1%3a1.2.2-1+b1_amd64.deb ... Unpacking libxcursor1:amd64 (1:1.2.2-1+b1) ... Selecting previously unselected package libxdamage1:amd64. Preparing to unpack .../111-libxdamage1_1%3a1.1.6-1+b2_amd64.deb ... Unpacking libxdamage1:amd64 (1:1.1.6-1+b2) ... Selecting previously unselected package libxinerama1:amd64. Preparing to unpack .../112-libxinerama1_2%3a1.1.4-3+b2_amd64.deb ... Unpacking libxinerama1:amd64 (2:1.1.4-3+b2) ... Selecting previously unselected package xkb-data. Preparing to unpack .../113-xkb-data_2.42-1_all.deb ... Unpacking xkb-data (2.42-1) ... Selecting previously unselected package libxkbcommon0:amd64. Preparing to unpack .../114-libxkbcommon0_1.6.0-1+b2_amd64.deb ... Unpacking libxkbcommon0:amd64 (1.6.0-1+b2) ... Selecting previously unselected package libxrandr2:amd64. Preparing to unpack .../115-libxrandr2_2%3a1.5.4-1+b1_amd64.deb ... Unpacking libxrandr2:amd64 (2:1.5.4-1+b1) ... Selecting previously unselected package libgtk-3-common. Preparing to unpack .../116-libgtk-3-common_3.24.43-4_all.deb ... Unpacking libgtk-3-common (3.24.43-4) ... Selecting previously unselected package libgtk-3-0t64:amd64. Preparing to unpack .../117-libgtk-3-0t64_3.24.43-4_amd64.deb ... Unpacking libgtk-3-0t64:amd64 (3.24.43-4) ... Selecting previously unselected package libglvnd0:amd64. Preparing to unpack .../118-libglvnd0_1.7.0-1+b2_amd64.deb ... Unpacking libglvnd0:amd64 (1.7.0-1+b2) ... Selecting previously unselected package libdrm-common. Preparing to unpack .../119-libdrm-common_2.4.123-1_all.deb ... Unpacking libdrm-common (2.4.123-1) ... Selecting previously unselected package libdrm2:amd64. Preparing to unpack .../120-libdrm2_2.4.123-1_amd64.deb ... Unpacking libdrm2:amd64 (2.4.123-1) ... Selecting previously unselected package libglapi-mesa:amd64. Preparing to unpack .../121-libglapi-mesa_24.2.6-1_amd64.deb ... Unpacking libglapi-mesa:amd64 (24.2.6-1) ... Selecting previously unselected package libx11-xcb1:amd64. Preparing to unpack .../122-libx11-xcb1_2%3a1.8.10-2_amd64.deb ... Unpacking libx11-xcb1:amd64 (2:1.8.10-2) ... Selecting previously unselected package libxcb-dri2-0:amd64. Preparing to unpack .../123-libxcb-dri2-0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-dri2-0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-dri3-0:amd64. Preparing to unpack .../124-libxcb-dri3-0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-glx0:amd64. Preparing to unpack .../125-libxcb-glx0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-glx0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-present0:amd64. Preparing to unpack .../126-libxcb-present0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-present0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-randr0:amd64. Preparing to unpack .../127-libxcb-randr0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-randr0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-sync1:amd64. Preparing to unpack .../128-libxcb-sync1_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-sync1:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxcb-xfixes0:amd64. Preparing to unpack .../129-libxcb-xfixes0_1.17.0-2+b1_amd64.deb ... Unpacking libxcb-xfixes0:amd64 (1.17.0-2+b1) ... Selecting previously unselected package libxshmfence1:amd64. Preparing to unpack .../130-libxshmfence1_1.3-1+b2_amd64.deb ... Unpacking libxshmfence1:amd64 (1.3-1+b2) ... Selecting previously unselected package libxxf86vm1:amd64. Preparing to unpack .../131-libxxf86vm1_1%3a1.1.4-1+b3_amd64.deb ... Unpacking libxxf86vm1:amd64 (1:1.1.4-1+b3) ... Selecting previously unselected package libdrm-amdgpu1:amd64. Preparing to unpack .../132-libdrm-amdgpu1_2.4.123-1_amd64.deb ... Unpacking libdrm-amdgpu1:amd64 (2.4.123-1) ... Selecting previously unselected package libpciaccess0:amd64. Preparing to unpack .../133-libpciaccess0_0.17-3+b2_amd64.deb ... Unpacking libpciaccess0:amd64 (0.17-3+b2) ... Selecting previously unselected package libdrm-intel1:amd64. Preparing to unpack .../134-libdrm-intel1_2.4.123-1_amd64.deb ... Unpacking libdrm-intel1:amd64 (2.4.123-1) ... Selecting previously unselected package libdrm-radeon1:amd64. Preparing to unpack .../135-libdrm-radeon1_2.4.123-1_amd64.deb ... Unpacking libdrm-radeon1:amd64 (2.4.123-1) ... Selecting previously unselected package libedit2:amd64. Preparing to unpack .../136-libedit2_3.1-20240808-1_amd64.deb ... Unpacking libedit2:amd64 (3.1-20240808-1) ... Selecting previously unselected package libz3-4:amd64. Preparing to unpack .../137-libz3-4_4.13.3-1_amd64.deb ... Unpacking libz3-4:amd64 (4.13.3-1) ... Selecting previously unselected package libllvm19:amd64. Preparing to unpack .../138-libllvm19_1%3a19.1.3-1_amd64.deb ... Unpacking libllvm19:amd64 (1:19.1.3-1) ... Selecting previously unselected package libsensors-config. Preparing to unpack .../139-libsensors-config_1%3a3.6.0-10_all.deb ... Unpacking libsensors-config (1:3.6.0-10) ... Selecting previously unselected package libsensors5:amd64. Preparing to unpack .../140-libsensors5_1%3a3.6.0-10+b1_amd64.deb ... Unpacking libsensors5:amd64 (1:3.6.0-10+b1) ... Selecting previously unselected package mesa-libgallium:amd64. Preparing to unpack .../141-mesa-libgallium_24.2.6-1_amd64.deb ... Unpacking mesa-libgallium:amd64 (24.2.6-1) ... Selecting previously unselected package libvulkan1:amd64. Preparing to unpack .../142-libvulkan1_1.3.296.0-1_amd64.deb ... Unpacking libvulkan1:amd64 (1.3.296.0-1) ... Selecting previously unselected package libwayland-server0:amd64. Preparing to unpack .../143-libwayland-server0_1.23.0-1+b1_amd64.deb ... Unpacking libwayland-server0:amd64 (1.23.0-1+b1) ... Selecting previously unselected package libgbm1:amd64. Preparing to unpack .../144-libgbm1_24.2.6-1_amd64.deb ... Unpacking libgbm1:amd64 (24.2.6-1) ... Selecting previously unselected package libgl1-mesa-dri:amd64. Preparing to unpack .../145-libgl1-mesa-dri_24.2.6-1_amd64.deb ... Unpacking libgl1-mesa-dri:amd64 (24.2.6-1) ... Selecting previously unselected package libglx-mesa0:amd64. Preparing to unpack .../146-libglx-mesa0_24.2.6-1_amd64.deb ... Unpacking libglx-mesa0:amd64 (24.2.6-1) ... Selecting previously unselected package libglx0:amd64. Preparing to unpack .../147-libglx0_1.7.0-1+b2_amd64.deb ... Unpacking libglx0:amd64 (1.7.0-1+b2) ... Selecting previously unselected package libgl1:amd64. Preparing to unpack .../148-libgl1_1.7.0-1+b2_amd64.deb ... Unpacking libgl1:amd64 (1.7.0-1+b2) ... Selecting previously unselected package libasound2-data. Preparing to unpack .../149-libasound2-data_1.2.12-1_all.deb ... Unpacking libasound2-data (1.2.12-1) ... Selecting previously unselected package libasound2t64:amd64. Preparing to unpack .../150-libasound2t64_1.2.12-1+b1_amd64.deb ... Unpacking libasound2t64:amd64 (1.2.12-1+b1) ... Selecting previously unselected package libgif7:amd64. Preparing to unpack .../151-libgif7_5.2.2-1+b1_amd64.deb ... Unpacking libgif7:amd64 (5.2.2-1+b1) ... Selecting previously unselected package x11-common. Preparing to unpack .../152-x11-common_1%3a7.7+23.1_all.deb ... Unpacking x11-common (1:7.7+23.1) ... Selecting previously unselected package libxtst6:amd64. Preparing to unpack .../153-libxtst6_2%3a1.2.3-1.1+b2_amd64.deb ... Unpacking libxtst6:amd64 (2:1.2.3-1.1+b2) ... Selecting previously unselected package openjdk-21-jre:amd64. Preparing to unpack .../154-openjdk-21-jre_21.0.5+11-1_amd64.deb ... Unpacking openjdk-21-jre:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jre. Preparing to unpack .../155-default-jre_2%3a1.21-76_amd64.deb ... Unpacking default-jre (2:1.21-76) ... Selecting previously unselected package openjdk-21-jdk-headless:amd64. Preparing to unpack .../156-openjdk-21-jdk-headless_21.0.5+11-1_amd64.deb ... Unpacking openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jdk-headless. Preparing to unpack .../157-default-jdk-headless_2%3a1.21-76_amd64.deb ... Unpacking default-jdk-headless (2:1.21-76) ... Selecting previously unselected package openjdk-21-jdk:amd64. Preparing to unpack .../158-openjdk-21-jdk_21.0.5+11-1_amd64.deb ... Unpacking openjdk-21-jdk:amd64 (21.0.5+11-1) ... Selecting previously unselected package default-jdk. Preparing to unpack .../159-default-jdk_2%3a1.21-76_amd64.deb ... Unpacking default-jdk (2:1.21-76) ... Selecting previously unselected package libjs-jquery. Preparing to unpack .../160-libjs-jquery_3.6.1+dfsg+~3.5.14-1_all.deb ... Unpacking libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Selecting previously unselected package libjs-jquery-ui. Preparing to unpack .../161-libjs-jquery-ui_1.13.2+dfsg-1_all.deb ... Unpacking libjs-jquery-ui (1.13.2+dfsg-1) ... Selecting previously unselected package libjs-jquery-ui-theme-base. Preparing to unpack .../162-libjs-jquery-ui-theme-base_1.12.1+dfsg-1.1_all.deb ... Unpacking libjs-jquery-ui-theme-base (1.12.1+dfsg-1.1) ... Selecting previously unselected package openjdk-21-doc. Preparing to unpack .../163-openjdk-21-doc_21.0.5+11-1_all.deb ... Unpacking openjdk-21-doc (21.0.5+11-1) ... Selecting previously unselected package default-jdk-doc. Preparing to unpack .../164-default-jdk-doc_2%3a1.21-76_amd64.deb ... Unpacking default-jdk-doc (2:1.21-76) ... Selecting previously unselected package libassuan9:amd64. Preparing to unpack .../165-libassuan9_3.0.1-2_amd64.deb ... Unpacking libassuan9:amd64 (3.0.1-2) ... Selecting previously unselected package gpgconf. Preparing to unpack .../166-gpgconf_2.2.45-2_amd64.deb ... Unpacking gpgconf (2.2.45-2) ... Selecting previously unselected package libksba8:amd64. Preparing to unpack .../167-libksba8_1.6.7-2+b1_amd64.deb ... Unpacking libksba8:amd64 (1.6.7-2+b1) ... Selecting previously unselected package libsasl2-modules-db:amd64. Preparing to unpack .../168-libsasl2-modules-db_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libsasl2-2:amd64. Preparing to unpack .../169-libsasl2-2_2.1.28+dfsg1-8_amd64.deb ... Unpacking libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Selecting previously unselected package libldap-2.5-0:amd64. Preparing to unpack .../170-libldap-2.5-0_2.5.18+dfsg-3+b1_amd64.deb ... Unpacking libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Selecting previously unselected package libnpth0t64:amd64. Preparing to unpack .../171-libnpth0t64_1.6-3.1+b1_amd64.deb ... Unpacking libnpth0t64:amd64 (1.6-3.1+b1) ... Selecting previously unselected package dirmngr. Preparing to unpack .../172-dirmngr_2.2.45-2_amd64.deb ... Unpacking dirmngr (2.2.45-2) ... Selecting previously unselected package gnupg-l10n. Preparing to unpack .../173-gnupg-l10n_2.2.45-2_all.deb ... Unpacking gnupg-l10n (2.2.45-2) ... Selecting previously unselected package gpg. Preparing to unpack .../174-gpg_2.2.45-2_amd64.deb ... Unpacking gpg (2.2.45-2) ... Selecting previously unselected package pinentry-curses. Preparing to unpack .../175-pinentry-curses_1.2.1-4+b1_amd64.deb ... Unpacking pinentry-curses (1.2.1-4+b1) ... Selecting previously unselected package gpg-agent. Preparing to unpack .../176-gpg-agent_2.2.45-2_amd64.deb ... Unpacking gpg-agent (2.2.45-2) ... Selecting previously unselected package gpgsm. Preparing to unpack .../177-gpgsm_2.2.45-2_amd64.deb ... Unpacking gpgsm (2.2.45-2) ... Selecting previously unselected package gnupg. Preparing to unpack .../178-gnupg_2.2.45-2_all.deb ... Unpacking gnupg (2.2.45-2) ... Selecting previously unselected package libfile-dirlist-perl. Preparing to unpack .../179-libfile-dirlist-perl_0.05-3_all.deb ... Unpacking libfile-dirlist-perl (0.05-3) ... Selecting previously unselected package libfile-which-perl. Preparing to unpack .../180-libfile-which-perl_1.27-2_all.deb ... Unpacking libfile-which-perl (1.27-2) ... Selecting previously unselected package libfile-homedir-perl. Preparing to unpack .../181-libfile-homedir-perl_1.006-2_all.deb ... Unpacking libfile-homedir-perl (1.006-2) ... Selecting previously unselected package libfile-touch-perl. Preparing to unpack .../182-libfile-touch-perl_0.12-2_all.deb ... Unpacking libfile-touch-perl (0.12-2) ... Selecting previously unselected package libio-pty-perl. Preparing to unpack .../183-libio-pty-perl_1%3a1.20-1+b2_amd64.deb ... Unpacking libio-pty-perl (1:1.20-1+b2) ... Selecting previously unselected package libipc-run-perl. Preparing to unpack .../184-libipc-run-perl_20231003.0-2_all.deb ... Unpacking libipc-run-perl (20231003.0-2) ... Selecting previously unselected package libclass-method-modifiers-perl. Preparing to unpack .../185-libclass-method-modifiers-perl_2.15-1_all.deb ... Unpacking libclass-method-modifiers-perl (2.15-1) ... Selecting previously unselected package libclass-xsaccessor-perl. Preparing to unpack .../186-libclass-xsaccessor-perl_1.19-4+b4_amd64.deb ... Unpacking libclass-xsaccessor-perl (1.19-4+b4) ... Selecting previously unselected package libb-hooks-op-check-perl:amd64. Preparing to unpack .../187-libb-hooks-op-check-perl_0.22-3+b2_amd64.deb ... Unpacking libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Selecting previously unselected package libdynaloader-functions-perl. Preparing to unpack .../188-libdynaloader-functions-perl_0.004-1_all.deb ... Unpacking libdynaloader-functions-perl (0.004-1) ... Selecting previously unselected package libdevel-callchecker-perl:amd64. Preparing to unpack .../189-libdevel-callchecker-perl_0.009-1+b1_amd64.deb ... Unpacking libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Selecting previously unselected package libparams-classify-perl:amd64. Preparing to unpack .../190-libparams-classify-perl_0.015-2+b4_amd64.deb ... Unpacking libparams-classify-perl:amd64 (0.015-2+b4) ... Selecting previously unselected package libmodule-runtime-perl. Preparing to unpack .../191-libmodule-runtime-perl_0.016-2_all.deb ... Unpacking libmodule-runtime-perl (0.016-2) ... Selecting previously unselected package libimport-into-perl. Preparing to unpack .../192-libimport-into-perl_1.002005-2_all.deb ... Unpacking libimport-into-perl (1.002005-2) ... Selecting previously unselected package librole-tiny-perl. Preparing to unpack .../193-librole-tiny-perl_2.002004-1_all.deb ... Unpacking librole-tiny-perl (2.002004-1) ... Selecting previously unselected package libsub-quote-perl. Preparing to unpack .../194-libsub-quote-perl_2.006008-1_all.deb ... Unpacking libsub-quote-perl (2.006008-1) ... Selecting previously unselected package libmoo-perl. Preparing to unpack .../195-libmoo-perl_2.005005-1_all.deb ... Unpacking libmoo-perl (2.005005-1) ... Selecting previously unselected package libencode-locale-perl. Preparing to unpack .../196-libencode-locale-perl_1.05-3_all.deb ... Unpacking libencode-locale-perl (1.05-3) ... Selecting previously unselected package libtimedate-perl. Preparing to unpack .../197-libtimedate-perl_2.3300-2_all.deb ... Unpacking libtimedate-perl (2.3300-2) ... Selecting previously unselected package libhttp-date-perl. Preparing to unpack .../198-libhttp-date-perl_6.06-1_all.deb ... Unpacking libhttp-date-perl (6.06-1) ... Selecting previously unselected package libfile-listing-perl. Preparing to unpack .../199-libfile-listing-perl_6.16-1_all.deb ... Unpacking libfile-listing-perl (6.16-1) ... Selecting previously unselected package libhtml-tagset-perl. Preparing to unpack .../200-libhtml-tagset-perl_3.24-1_all.deb ... Unpacking libhtml-tagset-perl (3.24-1) ... Selecting previously unselected package liburi-perl. Preparing to unpack .../201-liburi-perl_5.30-1_all.deb ... Unpacking liburi-perl (5.30-1) ... Selecting previously unselected package libhtml-parser-perl:amd64. Preparing to unpack .../202-libhtml-parser-perl_3.83-1+b1_amd64.deb ... Unpacking libhtml-parser-perl:amd64 (3.83-1+b1) ... Selecting previously unselected package libhtml-tree-perl. Preparing to unpack .../203-libhtml-tree-perl_5.07-3_all.deb ... Unpacking libhtml-tree-perl (5.07-3) ... Selecting previously unselected package libclone-perl:amd64. Preparing to unpack .../204-libclone-perl_0.47-1+b1_amd64.deb ... Unpacking libclone-perl:amd64 (0.47-1+b1) ... Selecting previously unselected package libio-html-perl. Preparing to unpack .../205-libio-html-perl_1.004-3_all.deb ... Unpacking libio-html-perl (1.004-3) ... Selecting previously unselected package liblwp-mediatypes-perl. Preparing to unpack .../206-liblwp-mediatypes-perl_6.04-2_all.deb ... Unpacking liblwp-mediatypes-perl (6.04-2) ... Selecting previously unselected package libhttp-message-perl. Preparing to unpack .../207-libhttp-message-perl_7.00-2_all.deb ... Unpacking libhttp-message-perl (7.00-2) ... Selecting previously unselected package libhttp-cookies-perl. Preparing to unpack .../208-libhttp-cookies-perl_6.11-1_all.deb ... Unpacking libhttp-cookies-perl (6.11-1) ... Selecting previously unselected package libhttp-negotiate-perl. Preparing to unpack .../209-libhttp-negotiate-perl_6.01-2_all.deb ... Unpacking libhttp-negotiate-perl (6.01-2) ... Selecting previously unselected package perl-openssl-defaults:amd64. Preparing to unpack .../210-perl-openssl-defaults_7+b2_amd64.deb ... Unpacking perl-openssl-defaults:amd64 (7+b2) ... Selecting previously unselected package libnet-ssleay-perl:amd64. Preparing to unpack .../211-libnet-ssleay-perl_1.94-2_amd64.deb ... Unpacking libnet-ssleay-perl:amd64 (1.94-2) ... Selecting previously unselected package libio-socket-ssl-perl. Preparing to unpack .../212-libio-socket-ssl-perl_2.089-1_all.deb ... Unpacking libio-socket-ssl-perl (2.089-1) ... Selecting previously unselected package libnet-http-perl. Preparing to unpack .../213-libnet-http-perl_6.23-1_all.deb ... Unpacking libnet-http-perl (6.23-1) ... Selecting previously unselected package liblwp-protocol-https-perl. Preparing to unpack .../214-liblwp-protocol-https-perl_6.14-1_all.deb ... Unpacking liblwp-protocol-https-perl (6.14-1) ... Selecting previously unselected package libtry-tiny-perl. Preparing to unpack .../215-libtry-tiny-perl_0.32-1_all.deb ... Unpacking libtry-tiny-perl (0.32-1) ... Selecting previously unselected package libwww-robotrules-perl. Preparing to unpack .../216-libwww-robotrules-perl_6.02-1_all.deb ... Unpacking libwww-robotrules-perl (6.02-1) ... Selecting previously unselected package libwww-perl. Preparing to unpack .../217-libwww-perl_6.77-1_all.deb ... Unpacking libwww-perl (6.77-1) ... Selecting previously unselected package patchutils. Preparing to unpack .../218-patchutils_0.4.2-1_amd64.deb ... Unpacking patchutils (0.4.2-1) ... Selecting previously unselected package wdiff. Preparing to unpack .../219-wdiff_1.2.2-6_amd64.deb ... Unpacking wdiff (1.2.2-6) ... Selecting previously unselected package devscripts. Preparing to unpack .../220-devscripts_2.24.2_all.deb ... Unpacking devscripts (2.24.2) ... Selecting previously unselected package fastjar. Preparing to unpack .../221-fastjar_2%3a0.98-7_amd64.deb ... Unpacking fastjar (2:0.98-7) ... Selecting previously unselected package jarwrapper. Preparing to unpack .../222-jarwrapper_0.80_all.deb ... Unpacking jarwrapper (0.80) ... Selecting previously unselected package javahelper. Preparing to unpack .../223-javahelper_0.80_all.deb ... Unpacking javahelper (0.80) ... Selecting previously unselected package libhamcrest-java. Preparing to unpack .../224-libhamcrest-java_2.2-2_all.deb ... Unpacking libhamcrest-java (2.2-2) ... Selecting previously unselected package junit4. Preparing to unpack .../225-junit4_4.13.2-5_all.deb ... Unpacking junit4 (4.13.2-5) ... Selecting previously unselected package libapiguardian-java. Preparing to unpack .../226-libapiguardian-java_1.1.2-1_all.deb ... Unpacking libapiguardian-java (1.1.2-1) ... Selecting previously unselected package libopentest4j-java. Preparing to unpack .../227-libopentest4j-java_1.2.0-4_all.deb ... Unpacking libopentest4j-java (1.2.0-4) ... Selecting previously unselected package libopentest4j-reporting-java. Preparing to unpack .../228-libopentest4j-reporting-java_0.1.0-M1-2_all.deb ... Unpacking libopentest4j-reporting-java (0.1.0-M1-2) ... Selecting previously unselected package libpicocli-java. Preparing to unpack .../229-libpicocli-java_4.6.2-2_all.deb ... Unpacking libpicocli-java (4.6.2-2) ... Selecting previously unselected package libunivocity-parsers-java. Preparing to unpack .../230-libunivocity-parsers-java_2.9.1-1_all.deb ... Unpacking libunivocity-parsers-java (2.9.1-1) ... Selecting previously unselected package junit5. Preparing to unpack .../231-junit5_5.10.3-1_all.deb ... Unpacking junit5 (5.10.3-1) ... Selecting previously unselected package libactivation-java. Preparing to unpack .../232-libactivation-java_1.2.0-2_all.deb ... Unpacking libactivation-java (1.2.0-2) ... Selecting previously unselected package libantlr4-runtime-java. Preparing to unpack .../233-libantlr4-runtime-java_4.9.2-2_all.deb ... Unpacking libantlr4-runtime-java (4.9.2-2) ... Selecting previously unselected package libaopalliance-java. Preparing to unpack .../234-libaopalliance-java_20070526-7_all.deb ... Unpacking libaopalliance-java (20070526-7) ... Selecting previously unselected package libapache-pom-java. Preparing to unpack .../235-libapache-pom-java_33-2_all.deb ... Unpacking libapache-pom-java (33-2) ... Selecting previously unselected package libapfloat-java. Preparing to unpack .../236-libapfloat-java_1.14.0-1_all.deb ... Unpacking libapfloat-java (1.14.0-1) ... Selecting previously unselected package libargs4j-java. Preparing to unpack .../237-libargs4j-java_2.33-2_all.deb ... Unpacking libargs4j-java (2.33-2) ... Selecting previously unselected package libasm-java. Preparing to unpack .../238-libasm-java_9.7.1-1_all.deb ... Unpacking libasm-java (9.7.1-1) ... Selecting previously unselected package libatinject-jsr330-api-java. Preparing to unpack .../239-libatinject-jsr330-api-java_1.0+ds1-5_all.deb ... Unpacking libatinject-jsr330-api-java (1.0+ds1-5) ... Selecting previously unselected package libgeronimo-annotation-1.3-spec-java. Preparing to unpack .../240-libgeronimo-annotation-1.3-spec-java_1.3-1_all.deb ... Unpacking libgeronimo-annotation-1.3-spec-java (1.3-1) ... Selecting previously unselected package libgoogle-gson-java. Preparing to unpack .../241-libgoogle-gson-java_2.10.1-1_all.deb ... Unpacking libgoogle-gson-java (2.10.1-1) ... Selecting previously unselected package libciftools-java. Preparing to unpack .../242-libciftools-java_6.0.0-1_all.deb ... Unpacking libciftools-java (6.0.0-1) ... Selecting previously unselected package libcommons-parent-java. Preparing to unpack .../243-libcommons-parent-java_56-1_all.deb ... Unpacking libcommons-parent-java (56-1) ... Selecting previously unselected package libcommons-codec-java. Preparing to unpack .../244-libcommons-codec-java_1.17.1-1_all.deb ... Unpacking libcommons-codec-java (1.17.1-1) ... Selecting previously unselected package libcommons-math-java. Preparing to unpack .../245-libcommons-math-java_2.2-9_all.deb ... Unpacking libcommons-math-java (2.2-9) ... Selecting previously unselected package liberror-prone-java. Preparing to unpack .../246-liberror-prone-java_2.18.0-1_all.deb ... Unpacking liberror-prone-java (2.18.0-1) ... Selecting previously unselected package libjsr305-java. Preparing to unpack .../247-libjsr305-java_0.1~+svn49-11_all.deb ... Unpacking libjsr305-java (0.1~+svn49-11) ... Selecting previously unselected package libguava-java. Preparing to unpack .../248-libguava-java_32.0.1-1_all.deb ... Unpacking libguava-java (32.0.1-1) ... Selecting previously unselected package libitext5-java. Preparing to unpack .../249-libitext5-java_5.5.13.3-4_all.deb ... Unpacking libitext5-java (5.5.13.3-4) ... Selecting previously unselected package libjackson2-annotations-java. Preparing to unpack .../250-libjackson2-annotations-java_2.14.0-1_all.deb ... Unpacking libjackson2-annotations-java (2.14.0-1) ... Selecting previously unselected package libjackson2-core-java. Preparing to unpack .../251-libjackson2-core-java_2.14.1-1_all.deb ... Unpacking libjackson2-core-java (2.14.1-1) ... Selecting previously unselected package libjackson2-databind-java. Preparing to unpack .../252-libjackson2-databind-java_2.14.0-1_all.deb ... Unpacking libjackson2-databind-java (2.14.0-1) ... Selecting previously unselected package libjaxb-api-java. Preparing to unpack .../253-libjaxb-api-java_2.3.1-1_all.deb ... Unpacking libjaxb-api-java (2.3.1-1) ... Selecting previously unselected package libjaxen-java. Preparing to unpack .../254-libjaxen-java_1.1.6-5_all.deb ... Unpacking libjaxen-java (1.1.6-5) ... Selecting previously unselected package libdom4j-java. Preparing to unpack .../255-libdom4j-java_2.1.4-1_all.deb ... Unpacking libdom4j-java (2.1.4-1) ... Selecting previously unselected package libcommons-io-java. Preparing to unpack .../256-libcommons-io-java_2.17.0-1_all.deb ... Unpacking libcommons-io-java (2.17.0-1) ... Selecting previously unselected package libslf4j-java. Preparing to unpack .../257-libslf4j-java_1.7.32-1_all.deb ... Unpacking libslf4j-java (1.7.32-1) ... Selecting previously unselected package libmaven-shared-utils-java. Preparing to unpack .../258-libmaven-shared-utils-java_3.4.2-1_all.deb ... Unpacking libmaven-shared-utils-java (3.4.2-1) ... Selecting previously unselected package libcommons-cli-java. Preparing to unpack .../259-libcommons-cli-java_1.6.0-1_all.deb ... Unpacking libcommons-cli-java (1.6.0-1) ... Selecting previously unselected package libcommons-lang3-java. Preparing to unpack .../260-libcommons-lang3-java_3.17.0-1_all.deb ... Unpacking libcommons-lang3-java (3.17.0-1) ... Selecting previously unselected package libguice-java. Preparing to unpack .../261-libguice-java_4.2.3-2_all.deb ... Unpacking libguice-java (4.2.3-2) ... Selecting previously unselected package libmaven-parent-java. Preparing to unpack .../262-libmaven-parent-java_43-2_all.deb ... Unpacking libmaven-parent-java (43-2) ... Selecting previously unselected package libplexus-utils2-java. Preparing to unpack .../263-libplexus-utils2-java_3.4.2-1_all.deb ... Unpacking libplexus-utils2-java (3.4.2-1) ... Selecting previously unselected package libwagon-provider-api-java. Preparing to unpack .../264-libwagon-provider-api-java_3.5.3-1_all.deb ... Unpacking libwagon-provider-api-java (3.5.3-1) ... Selecting previously unselected package libmaven-resolver-java. Preparing to unpack .../265-libmaven-resolver-java_1.6.3-1_all.deb ... Unpacking libmaven-resolver-java (1.6.3-1) ... Selecting previously unselected package libplexus-cipher-java. Preparing to unpack .../266-libplexus-cipher-java_2.0-1_all.deb ... Unpacking libplexus-cipher-java (2.0-1) ... Selecting previously unselected package libplexus-classworlds-java. Preparing to unpack .../267-libplexus-classworlds-java_2.7.0-1_all.deb ... Unpacking libplexus-classworlds-java (2.7.0-1) ... Selecting previously unselected package libplexus-component-annotations-java. Preparing to unpack .../268-libplexus-component-annotations-java_2.1.1-1_all.deb ... Unpacking libplexus-component-annotations-java (2.1.1-1) ... Selecting previously unselected package libplexus-interpolation-java. Preparing to unpack .../269-libplexus-interpolation-java_1.27-1_all.deb ... Unpacking libplexus-interpolation-java (1.27-1) ... Selecting previously unselected package libplexus-sec-dispatcher-java. Preparing to unpack .../270-libplexus-sec-dispatcher-java_2.0-3_all.deb ... Unpacking libplexus-sec-dispatcher-java (2.0-3) ... Selecting previously unselected package libgeronimo-interceptor-3.0-spec-java. Preparing to unpack .../271-libgeronimo-interceptor-3.0-spec-java_1.0.1-4_all.deb ... Unpacking libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Selecting previously unselected package libcdi-api-java. Preparing to unpack .../272-libcdi-api-java_1.2-4_all.deb ... Unpacking libcdi-api-java (1.2-4) ... Selecting previously unselected package libsisu-inject-java. Preparing to unpack .../273-libsisu-inject-java_0.3.4-2_all.deb ... Unpacking libsisu-inject-java (0.3.4-2) ... Selecting previously unselected package libsisu-plexus-java. Preparing to unpack .../274-libsisu-plexus-java_0.3.4-3_all.deb ... Unpacking libsisu-plexus-java (0.3.4-3) ... Selecting previously unselected package libmaven3-core-java. Preparing to unpack .../275-libmaven3-core-java_3.8.8-1_all.deb ... Unpacking libmaven3-core-java (3.8.8-1) ... Selecting previously unselected package libmaven-shared-io-java. Preparing to unpack .../276-libmaven-shared-io-java_3.0.0-4_all.deb ... Unpacking libmaven-shared-io-java (3.0.0-4) ... Selecting previously unselected package libmaven-file-management-java. Preparing to unpack .../277-libmaven-file-management-java_3.0.0-1_all.deb ... Unpacking libmaven-file-management-java (3.0.0-1) ... Selecting previously unselected package libcommons-compress-java. Preparing to unpack .../278-libcommons-compress-java_1.27.1-2_all.deb ... Unpacking libcommons-compress-java (1.27.1-2) ... Selecting previously unselected package libplexus-io-java. Preparing to unpack .../279-libplexus-io-java_3.3.1-2_all.deb ... Unpacking libplexus-io-java (3.3.1-2) ... Selecting previously unselected package libsnappy1v5:amd64. Preparing to unpack .../280-libsnappy1v5_1.2.1-1+b1_amd64.deb ... Unpacking libsnappy1v5:amd64 (1.2.1-1+b1) ... Selecting previously unselected package libsnappy-jni. Preparing to unpack .../281-libsnappy-jni_1.1.10.5-2_amd64.deb ... Unpacking libsnappy-jni (1.1.10.5-2) ... Selecting previously unselected package libsnappy-java. Preparing to unpack .../282-libsnappy-java_1.1.10.5-2_all.deb ... Unpacking libsnappy-java (1.1.10.5-2) ... Selecting previously unselected package libxz-java. Preparing to unpack .../283-libxz-java_1.9-1_all.deb ... Unpacking libxz-java (1.9-1) ... Selecting previously unselected package libplexus-archiver-java. Preparing to unpack .../284-libplexus-archiver-java_4.6.1-1_all.deb ... Unpacking libplexus-archiver-java (4.6.1-1) ... Selecting previously unselected package libhttpcore-java. Preparing to unpack .../285-libhttpcore-java_4.4.16-1_all.deb ... Unpacking libhttpcore-java (4.4.16-1) ... Selecting previously unselected package libcommons-logging-java. Preparing to unpack .../286-libcommons-logging-java_1.3.0-1_all.deb ... Unpacking libcommons-logging-java (1.3.0-1) ... Selecting previously unselected package libhttpclient-java. Preparing to unpack .../287-libhttpclient-java_4.5.14-1_all.deb ... Unpacking libhttpclient-java (4.5.14-1) ... Selecting previously unselected package libjsoup-java. Preparing to unpack .../288-libjsoup-java_1.15.3-1_all.deb ... Unpacking libjsoup-java (1.15.3-1) ... Selecting previously unselected package libwagon-http-java. Preparing to unpack .../289-libwagon-http-java_3.5.3-1_all.deb ... Unpacking libwagon-http-java (3.5.3-1) ... Selecting previously unselected package libistack-commons-java. Preparing to unpack .../290-libistack-commons-java_3.0.6-5_all.deb ... Unpacking libistack-commons-java (3.0.6-5) ... Selecting previously unselected package libcodemodel-java. Preparing to unpack .../291-libcodemodel-java_2.6+jaxb2.3.0.1-11_all.deb ... Unpacking libcodemodel-java (2.6+jaxb2.3.0.1-11) ... Selecting previously unselected package librelaxng-datatype-java. Preparing to unpack .../292-librelaxng-datatype-java_1.0+ds1-3.1_all.deb ... Unpacking librelaxng-datatype-java (1.0+ds1-3.1) ... Selecting previously unselected package librngom-java. Preparing to unpack .../293-librngom-java_2.3.0.1-11_all.deb ... Unpacking librngom-java (2.3.0.1-11) ... Selecting previously unselected package libxsom-java. Preparing to unpack .../294-libxsom-java_2.3.0.1-11_all.deb ... Unpacking libxsom-java (2.3.0.1-11) ... Selecting previously unselected package libtxw2-java. Preparing to unpack .../295-libtxw2-java_2.3.0.1-11_all.deb ... Unpacking libtxw2-java (2.3.0.1-11) ... Selecting previously unselected package libxml-commons-resolver1.1-java. Preparing to unpack .../296-libxml-commons-resolver1.1-java_1.2-11_all.deb ... Unpacking libxml-commons-resolver1.1-java (1.2-11) ... Selecting previously unselected package libdtd-parser-java. Preparing to unpack .../297-libdtd-parser-java_1.2-1_all.deb ... Unpacking libdtd-parser-java (1.2-1) ... Selecting previously unselected package libstax-ex-java. Preparing to unpack .../298-libstax-ex-java_1.7.8-3_all.deb ... Unpacking libstax-ex-java (1.7.8-3) ... Selecting previously unselected package libstreambuffer-java. Preparing to unpack .../299-libstreambuffer-java_1.5.4-1.1_all.deb ... Unpacking libstreambuffer-java (1.5.4-1.1) ... Selecting previously unselected package libfastinfoset-java. Preparing to unpack .../300-libfastinfoset-java_1.2.12-3_all.deb ... Unpacking libfastinfoset-java (1.2.12-3) ... Selecting previously unselected package libjaxb-java. Preparing to unpack .../301-libjaxb-java_2.3.0.1-11_all.deb ... Unpacking libjaxb-java (2.3.0.1-11) ... Selecting previously unselected package libmaven-archiver-java. Preparing to unpack .../302-libmaven-archiver-java_3.6.2-1_all.deb ... Unpacking libmaven-archiver-java (3.6.2-1) ... Selecting previously unselected package libmaven-jar-plugin-java. Preparing to unpack .../303-libmaven-jar-plugin-java_3.3.0-2_all.deb ... Unpacking libmaven-jar-plugin-java (3.3.0-2) ... Selecting previously unselected package libcommons-text-java. Preparing to unpack .../304-libcommons-text-java_1.12.0-1_all.deb ... Unpacking libcommons-text-java (1.12.0-1) ... Selecting previously unselected package libfastutil-java. Preparing to unpack .../305-libfastutil-java_8.5.15+dfsg-1_all.deb ... Unpacking libfastutil-java (8.5.15+dfsg-1) ... Selecting previously unselected package libjheaps-java. Preparing to unpack .../306-libjheaps-java_0.14-2_all.deb ... Unpacking libjheaps-java (0.14-2) ... Selecting previously unselected package libxml-commons-external-java. Preparing to unpack .../307-libxml-commons-external-java_1.4.01-6_all.deb ... Unpacking libxml-commons-external-java (1.4.01-6) ... Selecting previously unselected package libxerces2-java. Preparing to unpack .../308-libxerces2-java_2.12.2-1_all.deb ... Unpacking libxerces2-java (2.12.2-1) ... Selecting previously unselected package libjgraphx-java. Preparing to unpack .../309-libjgraphx-java_2.1.0.7-4_all.deb ... Unpacking libjgraphx-java (2.1.0.7-4) ... Selecting previously unselected package libjgrapht-java. Preparing to unpack .../310-libjgrapht-java_1.5.2-1_all.deb ... Unpacking libjgrapht-java (1.5.2-1) ... Selecting previously unselected package libinchi1.07. Preparing to unpack .../311-libinchi1.07_1.07.1+dfsg-4_amd64.deb ... Unpacking libinchi1.07 (1.07.1+dfsg-4) ... Selecting previously unselected package libjni-inchi-jni. Preparing to unpack .../312-libjni-inchi-jni_0.8+dfsg-8_amd64.deb ... Unpacking libjni-inchi-jni (0.8+dfsg-8) ... Selecting previously unselected package libcommons-exec-java. Preparing to unpack .../313-libcommons-exec-java_1.3-2_all.deb ... Unpacking libcommons-exec-java (1.3-2) ... Selecting previously unselected package libexec-maven-plugin-java. Preparing to unpack .../314-libexec-maven-plugin-java_3.1.0-2_all.deb ... Unpacking libexec-maven-plugin-java (3.1.0-2) ... Selecting previously unselected package libmaven-shared-incremental-java. Preparing to unpack .../315-libmaven-shared-incremental-java_1.1-6_all.deb ... Unpacking libmaven-shared-incremental-java (1.1-6) ... Selecting previously unselected package libcommons-lang-java. Preparing to unpack .../316-libcommons-lang-java_2.6-10_all.deb ... Unpacking libcommons-lang-java (2.6-10) ... Selecting previously unselected package libxbean-reflect-java. Preparing to unpack .../317-libxbean-reflect-java_4.5-9_all.deb ... Unpacking libxbean-reflect-java (4.5-9) ... Selecting previously unselected package libplexus-container-default-java. Preparing to unpack .../318-libplexus-container-default-java_2.1.1-1_all.deb ... Unpacking libplexus-container-default-java (2.1.1-1) ... Selecting previously unselected package libplexus-compiler-java. Preparing to unpack .../319-libplexus-compiler-java_2.13.0-1_all.deb ... Unpacking libplexus-compiler-java (2.13.0-1) ... Selecting previously unselected package libqdox2-java. Preparing to unpack .../320-libqdox2-java_2.0.3-1_all.deb ... Unpacking libqdox2-java (2.0.3-1) ... Selecting previously unselected package libplexus-languages-java. Preparing to unpack .../321-libplexus-languages-java_1.1.1-2_all.deb ... Unpacking libplexus-languages-java (1.1.1-2) ... Selecting previously unselected package libmaven-compiler-plugin-java. Preparing to unpack .../322-libmaven-compiler-plugin-java_3.13.0-1_all.deb ... Unpacking libmaven-compiler-plugin-java (3.13.0-1) ... Selecting previously unselected package liblog4j1.2-java. Preparing to unpack .../323-liblog4j1.2-java_1.2.17-11_all.deb ... Unpacking liblog4j1.2-java (1.2.17-11) ... Selecting previously unselected package libjni-inchi-java. Preparing to unpack .../324-libjni-inchi-java_0.8+dfsg-8_all.deb ... Unpacking libjni-inchi-java (0.8+dfsg-8) ... Selecting previously unselected package libnaga-java. Preparing to unpack .../325-libnaga-java_3.0+svn80-5_all.deb ... Unpacking libnaga-java (3.0+svn80-5) ... Selecting previously unselected package libjmol-java. Preparing to unpack .../326-libjmol-java_16.2.33+dfsg-1_all.deb ... Unpacking libjmol-java (16.2.33+dfsg-1) ... Selecting previously unselected package libjson-simple-java. Preparing to unpack .../327-libjson-simple-java_2.3.0-1_all.deb ... Unpacking libjson-simple-java (2.3.0-1) ... Selecting previously unselected package libmsgpack-java. Preparing to unpack .../328-libmsgpack-java_0.9.6-1_all.deb ... Unpacking libmsgpack-java (0.9.6-1) ... Selecting previously unselected package libmmtf-java. Preparing to unpack .../329-libmmtf-java_1.0.11-1_all.deb ... Unpacking libmmtf-java (1.0.11-1) ... Selecting previously unselected package libvecmath-java. Preparing to unpack .../330-libvecmath-java_1.5.2-7_all.deb ... Unpacking libvecmath-java (1.5.2-7) ... Selecting previously unselected package libbiojava6-java. Preparing to unpack .../331-libbiojava6-java_6.1.0+dfsg-5_all.deb ... Unpacking libbiojava6-java (6.1.0+dfsg-5) ... Selecting previously unselected package libbiojava6-java-doc. Preparing to unpack .../332-libbiojava6-java-doc_6.1.0+dfsg-5_all.deb ... Unpacking libbiojava6-java-doc (6.1.0+dfsg-5) ... Selecting previously unselected package libbsh-java. Preparing to unpack .../333-libbsh-java_2.0b4-20_all.deb ... Unpacking libbsh-java (2.0b4-20) ... Selecting previously unselected package libcharts4j-java. Preparing to unpack .../334-libcharts4j-java_1.3-4_all.deb ... Unpacking libcharts4j-java (1.3-4) ... Selecting previously unselected package libcommons-collections3-java. Preparing to unpack .../335-libcommons-collections3-java_3.2.2-3_all.deb ... Unpacking libcommons-collections3-java (3.2.2-3) ... Selecting previously unselected package libcommons-beanutils-java. Preparing to unpack .../336-libcommons-beanutils-java_1.9.4-2_all.deb ... Unpacking libcommons-beanutils-java (1.9.4-2) ... Selecting previously unselected package libcommons-digester-java. Preparing to unpack .../337-libcommons-digester-java_1.8.1-7_all.deb ... Unpacking libcommons-digester-java (1.8.1-7) ... Selecting previously unselected package libcommons-jexl2-java. Preparing to unpack .../338-libcommons-jexl2-java_2.1.1-6_all.deb ... Unpacking libcommons-jexl2-java (2.1.1-6) ... Selecting previously unselected package libcommons-math3-java. Preparing to unpack .../339-libcommons-math3-java_3.6.1-3_all.deb ... Unpacking libcommons-math3-java (3.6.1-3) ... Selecting previously unselected package libcommons-validator-java. Preparing to unpack .../340-libcommons-validator-java_1%3a1.7-1_all.deb ... Unpacking libcommons-validator-java (1:1.7-1) ... Selecting previously unselected package libdistlib-java. Preparing to unpack .../341-libdistlib-java_1.0-5_all.deb ... Unpacking libdistlib-java (1.0-5) ... Selecting previously unselected package libdoxia-core-java. Preparing to unpack .../342-libdoxia-core-java_2.0.0-1_all.deb ... Unpacking libdoxia-core-java (2.0.0-1) ... Selecting previously unselected package libplexus-xml-java. Preparing to unpack .../343-libplexus-xml-java_3.0.1-2_all.deb ... Unpacking libplexus-xml-java (3.0.1-2) ... Selecting previously unselected package libdoxia-java. Preparing to unpack .../344-libdoxia-java_2.0.0-1_all.deb ... Unpacking libdoxia-java (2.0.0-1) ... Selecting previously unselected package libmaven-reporting-api-java. Preparing to unpack .../345-libmaven-reporting-api-java_4.0.0-1_all.deb ... Unpacking libmaven-reporting-api-java (4.0.0-1) ... Selecting previously unselected package libplexus-i18n-java. Preparing to unpack .../346-libplexus-i18n-java_1.0-beta-10-6_all.deb ... Unpacking libplexus-i18n-java (1.0-beta-10-6) ... Selecting previously unselected package velocity. Preparing to unpack .../347-velocity_1.7-7_all.deb ... Unpacking velocity (1.7-7) ... Selecting previously unselected package libplexus-velocity-java. Preparing to unpack .../348-libplexus-velocity-java_1.2-4_all.deb ... Unpacking libplexus-velocity-java (1.2-4) ... Selecting previously unselected package liboro-java. Preparing to unpack .../349-liboro-java_2.0.8a-14_all.deb ... Unpacking liboro-java (2.0.8a-14) ... Selecting previously unselected package libvelocity-tools-java. Preparing to unpack .../350-libvelocity-tools-java_2.0-9_all.deb ... Unpacking libvelocity-tools-java (2.0-9) ... Selecting previously unselected package libdoxia-sitetools-java. Preparing to unpack .../351-libdoxia-sitetools-java_2.0.0-1_all.deb ... Unpacking libdoxia-sitetools-java (2.0.0-1) ... Selecting previously unselected package libel-api-java. Preparing to unpack .../352-libel-api-java_3.0.0-3_all.deb ... Unpacking libel-api-java (3.0.0-3) ... Selecting previously unselected package libfreemarker-java. Preparing to unpack .../353-libfreemarker-java_2.3.32-2_all.deb ... Unpacking libfreemarker-java (2.3.32-2) ... Selecting previously unselected package libmjson-java. Preparing to unpack .../354-libmjson-java_1.4.0-3_all.deb ... Unpacking libmjson-java (1.4.0-3) ... Selecting previously unselected package libmbedcrypto7t64:amd64. Preparing to unpack .../355-libmbedcrypto7t64_2.28.8-1_amd64.deb ... Unpacking libmbedcrypto7t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedx509-1t64:amd64. Preparing to unpack .../356-libmbedx509-1t64_2.28.8-1_amd64.deb ... Unpacking libmbedx509-1t64:amd64 (2.28.8-1) ... Selecting previously unselected package libmbedtls14t64:amd64. Preparing to unpack .../357-libmbedtls14t64_2.28.8-1_amd64.deb ... Unpacking libmbedtls14t64:amd64 (2.28.8-1) ... Selecting previously unselected package ncbi-vdb-data. Preparing to unpack .../358-ncbi-vdb-data_3.0.2+dfsg-2_all.deb ... Unpacking ncbi-vdb-data (3.0.2+dfsg-2) ... Selecting previously unselected package libncbi-vdb3:amd64. Preparing to unpack .../359-libncbi-vdb3_3.0.2+dfsg-2+b1_amd64.deb ... Unpacking libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Selecting previously unselected package libncbi-ngs3:amd64. Preparing to unpack .../360-libncbi-ngs3_3.0.3+dfsg-9_amd64.deb ... Unpacking libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-jni:amd64. Preparing to unpack .../361-libngs-jni_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-jni:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package libngs-java:amd64. Preparing to unpack .../362-libngs-java_3.0.3+dfsg-9_amd64.deb ... Unpacking libngs-java:amd64 (3.0.3+dfsg-9) ... Selecting previously unselected package librhino-java. Preparing to unpack .../363-librhino-java_1.7.14-2.1_all.deb ... Unpacking librhino-java (1.7.14-2.1) ... Selecting previously unselected package libhtsjdk-java. Preparing to unpack .../364-libhtsjdk-java_4.1.0+dfsg-2_all.deb ... Unpacking libhtsjdk-java (4.1.0+dfsg-2) ... Selecting previously unselected package libjansi-java. Preparing to unpack .../365-libjansi-java_2.4.1-2_all.deb ... Unpacking libjansi-java (2.4.1-2) ... Selecting previously unselected package libjsp-api-java. Preparing to unpack .../366-libjsp-api-java_2.3.4-3_all.deb ... Unpacking libjsp-api-java (2.3.4-3) ... Selecting previously unselected package libservlet-api-java. Preparing to unpack .../367-libservlet-api-java_4.0.1-2_all.deb ... Unpacking libservlet-api-java (4.0.1-2) ... Selecting previously unselected package libwebsocket-api-java. Preparing to unpack .../368-libwebsocket-api-java_1.1-2_all.deb ... Unpacking libwebsocket-api-java (1.1-2) ... Selecting previously unselected package libjetty9-java. Preparing to unpack .../369-libjetty9-java_9.4.56-1_all.deb ... Unpacking libjetty9-java (9.4.56-1) ... Selecting previously unselected package libjtidy-java. Preparing to unpack .../370-libjtidy-java_7+svn20110807-5_all.deb ... Unpacking libjtidy-java (7+svn20110807-5) ... Selecting previously unselected package libmaven-common-artifact-filters-java. Preparing to unpack .../371-libmaven-common-artifact-filters-java_3.4.0-1_all.deb ... Unpacking libmaven-common-artifact-filters-java (3.4.0-1) ... Selecting previously unselected package libmaven-artifact-transfer-java. Preparing to unpack .../372-libmaven-artifact-transfer-java_0.13.1-2_all.deb ... Unpacking libmaven-artifact-transfer-java (0.13.1-2) ... Selecting previously unselected package libplexus-build-api-java. Preparing to unpack .../373-libplexus-build-api-java_0.0.7-4_all.deb ... Unpacking libplexus-build-api-java (0.0.7-4) ... Selecting previously unselected package libmaven-filtering-java. Preparing to unpack .../374-libmaven-filtering-java_3.4.0-1_all.deb ... Unpacking libmaven-filtering-java (3.4.0-1) ... Selecting previously unselected package libmaven-assembly-plugin-java. Preparing to unpack .../375-libmaven-assembly-plugin-java_3.4.2-2_all.deb ... Unpacking libmaven-assembly-plugin-java (3.4.2-2) ... Selecting previously unselected package libmaven-clean-plugin-java. Preparing to unpack .../376-libmaven-clean-plugin-java_3.2.0-2_all.deb ... Unpacking libmaven-clean-plugin-java (3.2.0-2) ... Selecting previously unselected package libmaven-invoker-java. Preparing to unpack .../377-libmaven-invoker-java_3.3.0-1_all.deb ... Unpacking libmaven-invoker-java (3.3.0-1) ... Selecting previously unselected package libplexus-interactivity-api-java. Preparing to unpack .../378-libplexus-interactivity-api-java_1.3-1_all.deb ... Unpacking libplexus-interactivity-api-java (1.3-1) ... Selecting previously unselected package libmaven-javadoc-plugin-java. Preparing to unpack .../379-libmaven-javadoc-plugin-java_3.10.1-2_all.deb ... Unpacking libmaven-javadoc-plugin-java (3.10.1-2) ... Selecting previously unselected package libplexus-container-default1.5-java. Preparing to unpack .../380-libplexus-container-default1.5-java_2.1.1-1_all.deb ... Unpacking libplexus-container-default1.5-java (2.1.1-1) ... Selecting previously unselected package libplexus-ant-factory-java. Preparing to unpack .../381-libplexus-ant-factory-java_1.0~alpha2.1-4_all.deb ... Unpacking libplexus-ant-factory-java (1.0~alpha2.1-4) ... Selecting previously unselected package libplexus-bsh-factory-java. Preparing to unpack .../382-libplexus-bsh-factory-java_1.0~alpha7-5_all.deb ... Unpacking libplexus-bsh-factory-java (1.0~alpha7-5) ... Selecting previously unselected package libmaven-plugin-tools-java. Preparing to unpack .../383-libmaven-plugin-tools-java_3.10.2-1_all.deb ... Unpacking libmaven-plugin-tools-java (3.10.2-1) ... Selecting previously unselected package libmaven-reporting-exec-java. Preparing to unpack .../384-libmaven-reporting-exec-java_2.0.0-1_all.deb ... Unpacking libmaven-reporting-exec-java (2.0.0-1) ... Selecting previously unselected package libmaven-resources-plugin-java. Preparing to unpack .../385-libmaven-resources-plugin-java_3.3.1-1_all.deb ... Unpacking libmaven-resources-plugin-java (3.3.1-1) ... Selecting previously unselected package libmaven-site-plugin-java. Preparing to unpack .../386-libmaven-site-plugin-java_3.21.0-1_all.deb ... Unpacking libmaven-site-plugin-java (3.21.0-1) ... Selecting previously unselected package libsurefire-java. Preparing to unpack .../387-libsurefire-java_2.22.3-3_all.deb ... Unpacking libsurefire-java (2.22.3-3) ... Selecting previously unselected package libtrove3-java. Preparing to unpack .../388-libtrove3-java_3.0.3-5_all.deb ... Unpacking libtrove3-java (3.0.3-5) ... Selecting previously unselected package libtrove3-java-doc. Preparing to unpack .../389-libtrove3-java-doc_3.0.3-5_all.deb ... Unpacking libtrove3-java-doc (3.0.3-5) ... Selecting previously unselected package libwagon-file-java. Preparing to unpack .../390-libwagon-file-java_3.5.3-1_all.deb ... Unpacking libwagon-file-java (3.5.3-1) ... Selecting previously unselected package libwagon-http-shaded-java. Preparing to unpack .../391-libwagon-http-shaded-java_3.5.3-1_all.deb ... Unpacking libwagon-http-shaded-java (3.5.3-1) ... Selecting previously unselected package libxml2-utils. Preparing to unpack .../392-libxml2-utils_2.12.7+dfsg+really2.9.14-0.1_amd64.deb ... Unpacking libxml2-utils (2.12.7+dfsg+really2.9.14-0.1) ... Selecting previously unselected package maven. Preparing to unpack .../393-maven_3.8.8-1_all.deb ... Unpacking maven (3.8.8-1) ... Selecting previously unselected package maven-repo-helper. Preparing to unpack .../394-maven-repo-helper_1.11_all.deb ... Unpacking maven-repo-helper (1.11) ... Selecting previously unselected package unzip. Preparing to unpack .../395-unzip_6.0-28_amd64.deb ... Unpacking unzip (6.0-28) ... Selecting previously unselected package maven-debian-helper. Preparing to unpack .../396-maven-debian-helper_2.6.5_all.deb ... Unpacking maven-debian-helper (2.6.5) ... Setting up libksba8:amd64 (1.6.7-2+b1) ... Setting up media-types (10.1.0) ... Setting up libpipeline1:amd64 (1.5.8-1) ... Setting up fastjar (2:0.98-7) ... Setting up libgraphite2-3:amd64 (1.3.14-2+b1) ... Setting up liblcms2-2:amd64 (2.16-2) ... Setting up libpixman-1-0:amd64 (0.42.2-1+b1) ... Setting up libfastutil-java (8.5.15+dfsg-1) ... Setting up libjackson2-annotations-java (2.14.0-1) ... Setting up libdtd-parser-java (1.2-1) ... Setting up wdiff (1.2.2-6) ... Setting up libsharpyuv0:amd64 (1.4.0-0.1+b1) ... Setting up libwayland-server0:amd64 (1.23.0-1+b1) ... Setting up libpciaccess0:amd64 (0.17-3+b2) ... Setting up libslf4j-java (1.7.32-1) ... Setting up libfile-which-perl (1.27-2) ... Setting up systemd-sysv (256.7-3) ... Setting up libxau6:amd64 (1:1.0.11-1) ... Setting up libxdmcp6:amd64 (1:1.1.2-3+b2) ... Setting up libplexus-utils2-java (3.4.2-1) ... Setting up libnpth0t64:amd64 (1.6-3.1+b1) ... Setting up libkeyutils1:amd64 (1.6.3-4) ... Setting up libplexus-classworlds-java (2.7.0-1) ... Setting up libxcb1:amd64 (1.17.0-2+b1) ... Setting up libopentest4j-reporting-java (0.1.0-M1-2) ... Setting up libicu72:amd64 (72.1-5+b1) ... Setting up libplexus-build-api-java (0.0.7-4) ... Setting up libxcb-xfixes0:amd64 (1.17.0-2+b1) ... Setting up liblerc4:amd64 (4.0.0+ds-5) ... Setting up libjsr305-java (0.1~+svn49-11) ... Setting up bsdextrautils (2.40.2-9) ... Setting up hicolor-icon-theme (0.18-1) ... Setting up libmbedcrypto7t64:amd64 (2.28.8-1) ... Setting up java-common (0.76) ... Setting up libdynaloader-functions-perl (0.004-1) ... Setting up libdatrie1:amd64 (0.2.13-3+b1) ... Setting up libclass-method-modifiers-perl (2.15-1) ... Setting up libqdox2-java (2.0.3-1) ... Setting up libaopalliance-java (20070526-7) ... Setting up libcommons-cli-java (1.6.0-1) ... Setting up libjheaps-java (0.14-2) ... Setting up libio-pty-perl (1:1.20-1+b2) ... Setting up libmagic-mgc (1:5.45-3+b1) ... Setting up libcommons-exec-java (1.3-2) ... Setting up libvecmath-java (1.5.2-7) ... Setting up libxcb-render0:amd64 (1.17.0-2+b1) ... Setting up libclone-perl:amd64 (0.47-1+b1) ... Setting up libarchive-zip-perl (1.68-1) ... Setting up libglvnd0:amd64 (1.7.0-1+b2) ... Setting up libgoogle-gson-java (2.10.1-1) ... Setting up libtirpc-common (1.3.4+ds-1.3) ... Setting up libmjson-java (1.4.0-3) ... Setting up libhtml-tagset-perl (3.24-1) ... Setting up libxcb-glx0:amd64 (1.17.0-2+b1) ... Setting up unzip (6.0-28) ... Setting up libdebhelper-perl (13.20) ... Setting up libbrotli1:amd64 (1.1.0-2+b5) ... Setting up libedit2:amd64 (3.1-20240808-1) ... Setting up liblwp-mediatypes-perl (6.04-2) ... Setting up libgdk-pixbuf2.0-common (2.42.12+dfsg-1) ... Setting up libmagic1t64:amd64 (1:5.45-3+b1) ... Setting up libpicocli-java (4.6.2-2) ... Setting up libasm-java (9.7.1-1) ... Setting up libjs-jquery-ui-theme-base (1.12.1+dfsg-1.1) ... Setting up x11-common (1:7.7+23.1) ... Running in chroot, ignoring request. Setting up X socket directories... /tmp/.X11-unix /tmp/.ICE-unix. Setting up libtry-tiny-perl (0.32-1) ... Setting up libsensors-config (1:3.6.0-10) ... Setting up libdeflate0:amd64 (1.22-1) ... Setting up perl-openssl-defaults:amd64 (7+b2) ... Setting up liblog4j1.2-java (1.2.17-11) ... Setting up gettext-base (0.22.5-2) ... Setting up m4 (1.4.19-4) ... Setting up libel-api-java (3.0.0-3) ... Setting up xkb-data (2.42-1) ... Setting up libencode-locale-perl (1.05-3) ... Setting up libplexus-component-annotations-java (2.1.1-1) ... Setting up libantlr4-runtime-java (4.9.2-2) ... Setting up libxcb-shm0:amd64 (1.17.0-2+b1) ... Setting up libcom-err2:amd64 (1.47.1-1+b1) ... Setting up file (1:5.45-3+b1) ... Setting up libjson-simple-java (2.3.0-1) ... Setting up libunivocity-parsers-java (2.9.1-1) ... Setting up libjbig0:amd64 (2.1-6.1+b2) ... Setting up libelf1t64:amd64 (0.192-4) ... Setting up liboro-java (2.0.8a-14) ... Setting up libsnappy1v5:amd64 (1.2.1-1+b1) ... Setting up libcharts4j-java (1.3-4) ... Setting up libkrb5support0:amd64 (1.21.3-3) ... Setting up libexec-maven-plugin-java (3.1.0-2) ... Setting up libsasl2-modules-db:amd64 (2.1.28+dfsg1-8) ... Setting up tzdata (2024b-3) ... Current default time zone: 'Etc/UTC' Local time is now: Sun Dec 14 18:47:41 UTC 2025. Universal Time is now: Sun Dec 14 18:47:41 UTC 2025. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up libxcb-present0:amd64 (1.17.0-2+b1) ... Setting up libgeronimo-annotation-1.3-spec-java (1.3-1) ... Setting up libgeronimo-interceptor-3.0-spec-java (1.0.1-4) ... Setting up libcommons-collections3-java (3.2.2-3) ... Setting up libasound2-data (1.2.12-1) ... Setting up librhino-java (1.7.14-2.1) ... Setting up autotools-dev (20220109.1) ... Setting up libz3-4:amd64 (4.13.3-1) ... Setting up libglib2.0-0t64:amd64 (2.82.2-2) ... Setting up libasound2t64:amd64 (1.2.12-1+b1) ... Setting up libjpeg62-turbo:amd64 (1:2.1.5-3+b1) ... Setting up libjaxen-java (1.1.6-5) ... Setting up libapiguardian-java (1.1.2-1) ... Setting up libx11-data (2:1.8.10-2) ... Setting up libepoxy0:amd64 (1.5.10-2) ... Setting up libnspr4:amd64 (2:4.35-1.1+b1) ... Setting up gnupg-l10n (2.2.45-2) ... Setting up libxcb-sync1:amd64 (1.17.0-2+b1) ... Setting up libjtidy-java (7+svn20110807-5) ... Setting up libjansi-java (2.4.1-2) ... Setting up libapache-pom-java (33-2) ... Setting up libavahi-common-data:amd64 (0.8-13+b3) ... Setting up libatinject-jsr330-api-java (1.0+ds1-5) ... Setting up libdbus-1-3:amd64 (1.14.10-6) ... Setting up libwebsocket-api-java (1.1-2) ... Setting up libfribidi0:amd64 (1.0.15-1) ... Setting up libproc2-0:amd64 (2:4.0.4-6) ... Setting up libplexus-interpolation-java (1.27-1) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libitext5-java (5.5.13.3-4) ... Setting up libpng16-16t64:amd64 (1.6.44-2) ... Setting up libxml-commons-resolver1.1-java (1.2-11) ... Setting up libxz-java (1.9-1) ... Setting up libio-html-perl (1.004-3) ... Setting up autopoint (0.22.5-2) ... Setting up binfmt-support (2.2.2-7) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Created symlink '/etc/systemd/system/multi-user.target.wants/binfmt-support.service' -> '/usr/lib/systemd/system/binfmt-support.service'. Setting up libb-hooks-op-check-perl:amd64 (0.22-3+b2) ... Setting up fonts-dejavu-core (2.37-8) ... Setting up libipc-run-perl (20231003.0-2) ... Setting up libpcsclite1:amd64 (2.3.0-3) ... Setting up libtrove3-java-doc (3.0.3-5) ... Setting up libsensors5:amd64 (1:3.6.0-10+b1) ... Setting up libk5crypto3:amd64 (1.21.3-3) ... Setting up libactivation-java (1.2.0-2) ... Setting up libhamcrest-java (2.2-2) ... Setting up libglapi-mesa:amd64 (24.2.6-1) ... Setting up libbsh-java (2.0b4-20) ... Setting up libjsp-api-java (2.3.4-3) ... Setting up libsasl2-2:amd64 (2.1.28+dfsg1-8) ... Setting up libvulkan1:amd64 (1.3.296.0-1) ... Setting up autoconf (2.72-3) ... Setting up libapfloat-java (1.14.0-1) ... Setting up libwebp7:amd64 (1.4.0-0.1+b1) ... Setting up libtimedate-perl (2.3300-2) ... Setting up libxcb-dri2-0:amd64 (1.17.0-2+b1) ... Setting up libgif7:amd64 (5.2.2-1+b1) ... Setting up libtrove3-java (3.0.3-5) ... Setting up dwz (0.15-1+b1) ... Setting up libplexus-interactivity-api-java (1.3-1) ... Setting up libfreemarker-java (2.3.32-2) ... Setting up sensible-utils (0.0.24) ... Setting up libxshmfence1:amd64 (1.3-1+b2) ... Setting up libjsoup-java (1.15.3-1) ... Setting up at-spi2-common (2.54.0-1) ... Setting up libcommons-math-java (2.2-9) ... Setting up libtiff6:amd64 (4.5.1+git230720-5) ... Setting up libxcb-randr0:amd64 (1.17.0-2+b1) ... Setting up dbus-session-bus-common (1.14.10-6) ... Setting up libuchardet0:amd64 (0.0.8-1+b2) ... Setting up libassuan9:amd64 (3.0.1-2) ... Setting up libxml-commons-external-java (1.4.01-6) ... Setting up procps (2:4.0.4-6) ... Setting up libxbean-reflect-java (4.5-9) ... Setting up libservlet-api-java (4.0.1-2) ... Setting up libplexus-xml-java (3.0.1-2) ... Setting up librole-tiny-perl (2.002004-1) ... Setting up libopentest4j-java (1.2.0-4) ... Setting up libjackson2-core-java (2.14.1-1) ... Setting up libx11-6:amd64 (2:1.8.10-2) ... Setting up ncbi-vdb-data (3.0.2+dfsg-2) ... Setting up libthai-data (0.1.29-2) ... Setting up netbase (6.4) ... Setting up libcommons-math3-java (3.6.1-3) ... Setting up sgml-base (1.31) ... Setting up libsub-quote-perl (2.006008-1) ... Setting up libclass-xsaccessor-perl (1.19-4+b4) ... Setting up libkrb5-3:amd64 (1.21.3-3) ... Setting up libwagon-http-shaded-java (3.5.3-1) ... Setting up libwayland-egl1:amd64 (1.23.0-1+b1) ... Setting up libhttpcore-java (4.4.16-1) ... Setting up libjs-jquery (3.6.1+dfsg+~3.5.14-1) ... Setting up libxerces2-java (2.12.2-1) ... Setting up libfile-dirlist-perl (0.05-3) ... Setting up dbus-system-bus-common (1.14.10-6) ... useradd: Warning: missing or non-executable shell '/usr/sbin/nologin' Setting up libfile-homedir-perl (1.006-2) ... Setting up librelaxng-datatype-java (1.0+ds1-3.1) ... Setting up openssl (3.3.2-2) ... Setting up libinchi1.07 (1.07.1+dfsg-4) ... Setting up libdrm-common (2.4.123-1) ... Setting up libcdi-api-java (1.2-4) ... Setting up libsnappy-jni (1.1.10.5-2) ... Setting up libxcomposite1:amd64 (1:0.4.6-1) ... Setting up readline-common (8.2-5) ... Setting up libxml2:amd64 (2.12.7+dfsg+really2.9.14-0.1) ... Setting up liburi-perl (5.30-1) ... Setting up dbus-bin (1.14.10-6) ... Setting up libargs4j-java (2.33-2) ... Setting up libfile-touch-perl (0.12-2) ... Setting up dctrl-tools (2.24-3+b1) ... Setting up libxkbcommon0:amd64 (1.6.0-1+b2) ... Setting up libnaga-java (3.0+svn80-5) ... Setting up libwayland-client0:amd64 (1.23.0-1+b1) ... Setting up libnet-ssleay-perl:amd64 (1.94-2) ... Setting up automake (1:1.16.5-1.3) ... update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode Setting up pinentry-curses (1.2.1-4+b1) ... Setting up libdom4j-java (2.1.4-1) ... Setting up libjaxb-api-java (2.3.1-1) ... Setting up libfile-stripnondeterminism-perl (1.14.0-1) ... Setting up libxcb-dri3-0:amd64 (1.17.0-2+b1) ... Setting up libwagon-provider-api-java (3.5.3-1) ... Setting up libllvm19:amd64 (1:19.1.3-1) ... Setting up libx11-xcb1:amd64 (2:1.8.10-2) ... Setting up libhttp-date-perl (6.06-1) ... Setting up gettext (0.22.5-2) ... Setting up libmbedx509-1t64:amd64 (2.28.8-1) ... Setting up libjetty9-java (9.4.56-1) ... Setting up libxdamage1:amd64 (1:1.1.6-1+b2) ... Setting up libatk1.0-0t64:amd64 (2.54.0-1) ... Setting up libfile-listing-perl (6.16-1) ... Setting up libplexus-languages-java (1.1.1-2) ... Setting up libxrender1:amd64 (1:0.9.10-1.1+b2) ... Setting up jarwrapper (0.80) ... Setting up libtool (2.4.7-8) ... Setting up fontconfig-config (2.15.0-1.1+b1) ... Setting up libstax-ex-java (1.7.8-3) ... Setting up libmaven-parent-java (43-2) ... Setting up libcommons-parent-java (56-1) ... Setting up libavahi-common3:amd64 (0.8-13+b3) ... Setting up libcloudproviders0:amd64 (0.3.6-1+b1) ... Setting up libcommons-logging-java (1.3.0-1) ... Setting up libxext6:amd64 (2:1.3.4-1+b2) ... Setting up libnet-http-perl (6.23-1) ... Setting up libsisu-inject-java (0.3.4-2) ... Setting up libnss3:amd64 (2:3.105-2) ... Setting up libciftools-java (6.0.0-1) ... Setting up dbus-daemon (1.14.10-6) ... Setting up libdevel-callchecker-perl:amd64 (0.009-1+b1) ... Setting up libcommons-lang-java (2.6-10) ... Setting up libldap-2.5-0:amd64 (2.5.18+dfsg-3+b1) ... Setting up libcolord2:amd64 (1.4.7-1+b2) ... Setting up libjackson2-databind-java (2.14.0-1) ... Setting up libplexus-cipher-java (2.0-1) ... Setting up libxxf86vm1:amd64 (1:1.1.4-1+b3) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up libdconf1:amd64 (0.40.0-4+b3) ... Setting up dh-autoreconf (20) ... Setting up patchutils (0.4.2-1) ... Setting up libcommons-jexl2-java (2.1.1-6) ... Setting up libthai0:amd64 (0.1.29-2+b1) ... Setting up ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 146 added, 0 removed; done. Setting up libsisu-plexus-java (0.3.4-3) ... Setting up libjs-jquery-ui (1.13.2+dfsg-1) ... Setting up libfreetype6:amd64 (2.13.3+dfsg-1) ... Setting up libxfixes3:amd64 (1:6.0.0-2+b2) ... Setting up dbus (1.14.10-6) ... Running in chroot, ignoring request. invoke-rc.d: policy-rc.d denied execution of start. Setting up shared-mime-info (2.4-5+b1) ... Setting up libxinerama1:amd64 (2:1.1.4-3+b2) ... Setting up libstreambuffer-java (1.5.4-1.1) ... Setting up libgssapi-krb5-2:amd64 (1.21.3-3) ... Setting up libxrandr2:amd64 (2:1.5.4-1+b1) ... Setting up libcommons-lang3-java (3.17.0-1) ... Setting up libreadline8t64:amd64 (8.2-5) ... Setting up dh-strip-nondeterminism (1.14.0-1) ... Setting up libwww-robotrules-perl (6.02-1) ... Setting up librngom-java (2.3.0.1-11) ... Setting up libdrm2:amd64 (2.4.123-1) ... Setting up libjni-inchi-jni (0.8+dfsg-8) ... Setting up libjgraphx-java (2.1.0.7-4) ... Setting up libmbedtls14t64:amd64 (2.28.8-1) ... Setting up groff-base (1.23.0-5) ... Setting up libwayland-cursor0:amd64 (1.23.0-1+b1) ... Setting up libhtml-parser-perl:amd64 (3.83-1+b1) ... Setting up gpgconf (2.2.45-2) ... Setting up libpam-systemd:amd64 (256.7-3) ... Setting up libcommons-beanutils-java (1.9.4-2) ... Setting up libplexus-sec-dispatcher-java (2.0-3) ... Setting up libharfbuzz0b:amd64 (10.0.1-1) ... Setting up libgdk-pixbuf-2.0-0:amd64 (2.42.12+dfsg-1+b1) ... Setting up libsnappy-java (1.1.10.5-2) ... Setting up libfontconfig1:amd64 (2.15.0-1.1+b1) ... Setting up libxsom-java (2.3.0.1-11) ... Setting up ca-certificates-java (20240118) ... No JRE found. Skipping Java certificates setup. Setting up libwagon-file-java (3.5.3-1) ... Setting up libxml2-utils (2.12.7+dfsg+really2.9.14-0.1) ... Setting up libcommons-codec-java (1.17.1-1) ... Setting up libavahi-client3:amd64 (0.8-13+b3) ... Setting up libio-socket-ssl-perl (2.089-1) ... Setting up gpg (2.2.45-2) ... Setting up libhttp-message-perl (7.00-2) ... Setting up libdrm-amdgpu1:amd64 (2.4.123-1) ... Setting up gtk-update-icon-cache (4.16.3+ds-2) ... Setting up libhttp-negotiate-perl (6.01-2) ... Setting up velocity (1.7-7) ... Setting up fontconfig (2.15.0-1.1+b1) ... Regenerating fonts cache... done. Setting up gpg-agent (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-browser.socket' -> '/usr/lib/systemd/user/gpg-agent-browser.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-extra.socket' -> '/usr/lib/systemd/user/gpg-agent-extra.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent-ssh.socket' -> '/usr/lib/systemd/user/gpg-agent-ssh.socket'. Created symlink '/etc/systemd/user/sockets.target.wants/gpg-agent.socket' -> '/usr/lib/systemd/user/gpg-agent.socket'. Setting up openjdk-21-jre-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jpackage to provide /usr/bin/jpackage (jpackage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode Setting up libxi6:amd64 (2:1.8.2-1) ... Setting up libtirpc3t64:amd64 (1.3.4+ds-1.3+b1) ... Setting up libhttp-cookies-perl (6.11-1) ... Setting up libcommons-io-java (2.17.0-1) ... Setting up libdrm-radeon1:amd64 (2.4.123-1) ... Setting up libcommons-digester-java (1.8.1-7) ... Setting up libxtst6:amd64 (2:1.2.3-1.1+b2) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libhtml-tree-perl (5.07-3) ... Setting up libdistlib-java (1.0-5) ... Setting up libxcursor1:amd64 (1:1.2.2-1+b1) ... Setting up libparams-classify-perl:amd64 (0.015-2+b4) ... Setting up gpgsm (2.2.45-2) ... Setting up libpango-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libdrm-intel1:amd64 (2.4.123-1) ... Setting up libncbi-vdb3:amd64 (3.0.2+dfsg-2+b1) ... Setting up man-db (2.13.0-1) ... Not building database; man-db/auto-update is not 'true'. Created symlink '/etc/systemd/system/timers.target.wants/man-db.timer' -> '/usr/lib/systemd/system/man-db.timer'. Setting up libcairo2:amd64 (1.18.2-2) ... Setting up dirmngr (2.2.45-2) ... Created symlink '/etc/systemd/user/sockets.target.wants/dirmngr.socket' -> '/usr/lib/systemd/user/dirmngr.socket'. Setting up libmaven-filtering-java (3.4.0-1) ... Setting up openjdk-21-doc (21.0.5+11-1) ... Setting up dbus-user-session (1.14.10-6) ... Setting up libmaven-resolver-java (1.6.3-1) ... Setting up adwaita-icon-theme (47.0-2) ... update-alternatives: using /usr/share/icons/Adwaita/cursor.theme to provide /usr/share/icons/default/index.theme (x-cursor-theme) in auto mode Setting up libmodule-runtime-perl (0.016-2) ... Setting up libatspi2.0-0t64:amd64 (2.54.0-1) ... Setting up libhttpclient-java (4.5.14-1) ... Setting up libmaven-common-artifact-filters-java (3.4.0-1) ... Setting up libnsl2:amd64 (1.3.0-3+b3) ... Setting up gnupg (2.2.45-2) ... Setting up libwagon-http-java (3.5.3-1) ... Setting up libcairo-gobject2:amd64 (1.18.2-2) ... Setting up libmaven-shared-utils-java (3.4.2-1) ... Setting up libfastinfoset-java (1.2.12-3) ... Setting up libpangoft2-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libmaven-resources-plugin-java (3.3.1-1) ... Setting up libcups2t64:amd64 (2.4.10-2) ... Setting up libpangocairo-1.0-0:amd64 (1.54.0+ds-3) ... Setting up libncbi-ngs3:amd64 (3.0.3+dfsg-9) ... Setting up libatk-bridge2.0-0t64:amd64 (2.54.0-1) ... Setting up mesa-libgallium:amd64 (24.2.6-1) ... Setting up libngs-jni:amd64 (3.0.3+dfsg-9) ... Setting up libplexus-io-java (3.3.1-2) ... Setting up libpython3.12-stdlib:amd64 (3.12.7-3) ... Setting up libcommons-compress-java (1.27.1-2) ... Setting up libcommons-validator-java (1:1.7-1) ... Setting up libgbm1:amd64 (24.2.6-1) ... Setting up libimport-into-perl (1.002005-2) ... Setting up libmoo-perl (2.005005-1) ... Setting up python3.12 (3.12.7-3) ... Setting up libgl1-mesa-dri:amd64 (24.2.6-1) ... Setting up libmaven-invoker-java (3.3.0-1) ... Setting up debhelper (13.20) ... Setting up dconf-service (0.40.0-4+b3) ... Setting up default-jdk-doc (2:1.21-76) ... Setting up libmaven-clean-plugin-java (3.2.0-2) ... Setting up libplexus-archiver-java (4.6.1-1) ... Setting up libngs-java:amd64 (3.0.3+dfsg-9) ... Setting up libhtsjdk-java (4.1.0+dfsg-2) ... Setting up libpython3-stdlib:amd64 (3.12.6-1) ... Setting up libglx-mesa0:amd64 (24.2.6-1) ... Setting up libglx0:amd64 (1.7.0-1+b2) ... Setting up dconf-gsettings-backend:amd64 (0.40.0-4+b3) ... Setting up libmaven-archiver-java (3.6.2-1) ... Setting up python3 (3.12.6-1) ... Setting up libbiojava6-java-doc (6.1.0+dfsg-5) ... Setting up libgl1:amd64 (1.7.0-1+b2) ... Setting up libgtk-3-common (3.24.43-4) ... Setting up libgtk-3-0t64:amd64 (3.24.43-4) ... Setting up liberror-prone-java (2.18.0-1) ... Setting up libwww-perl (6.77-1) ... Setting up devscripts (2.24.2) ... Setting up libguava-java (32.0.1-1) ... Setting up javahelper (0.80) ... Setting up libplexus-container-default-java (2.1.1-1) ... Setting up liblwp-protocol-https-perl (6.14-1) ... Setting up libguice-java (4.2.3-2) ... Setting up libplexus-i18n-java (1.0-beta-10-6) ... Setting up libplexus-container-default1.5-java (2.1.1-1) ... Setting up libplexus-velocity-java (1.2-4) ... Setting up libmaven3-core-java (3.8.8-1) ... Setting up libmaven-shared-incremental-java (1.1-6) ... Setting up libmaven-shared-io-java (3.0.0-4) ... Setting up libplexus-bsh-factory-java (1.0~alpha7-5) ... Setting up libplexus-compiler-java (2.13.0-1) ... Setting up libmaven-compiler-plugin-java (3.13.0-1) ... Setting up libjni-inchi-java (0.8+dfsg-8) ... Setting up libmaven-artifact-transfer-java (0.13.1-2) ... Setting up libmaven-file-management-java (3.0.0-1) ... Setting up libjmol-java (16.2.33+dfsg-1) ... Setting up libmaven-jar-plugin-java (3.3.0-2) ... Setting up libmaven-assembly-plugin-java (3.4.2-2) ... Setting up libcommons-text-java (1.12.0-1) ... Setting up libmsgpack-java (0.9.6-1) ... Setting up libmmtf-java (1.0.11-1) ... Setting up libjgrapht-java (1.5.2-1) ... Setting up libdoxia-core-java (2.0.0-1) ... Setting up libdoxia-java (2.0.0-1) ... Setting up libmaven-reporting-api-java (4.0.0-1) ... Setting up libmaven-reporting-exec-java (2.0.0-1) ... Processing triggers for libc-bin (2.40-3) ... Processing triggers for systemd (256.7-3) ... Processing triggers for ca-certificates-java (20240118) ... Adding debian:ACCVRAIZ1.pem Adding debian:AC_RAIZ_FNMT-RCM.pem Adding debian:AC_RAIZ_FNMT-RCM_SERVIDORES_SEGUROS.pem Adding debian:ANF_Secure_Server_Root_CA.pem Adding debian:Actalis_Authentication_Root_CA.pem Adding debian:AffirmTrust_Commercial.pem Adding debian:AffirmTrust_Networking.pem Adding debian:AffirmTrust_Premium.pem Adding debian:AffirmTrust_Premium_ECC.pem Adding debian:Amazon_Root_CA_1.pem Adding debian:Amazon_Root_CA_2.pem Adding debian:Amazon_Root_CA_3.pem Adding debian:Amazon_Root_CA_4.pem Adding debian:Atos_TrustedRoot_2011.pem Adding debian:Atos_TrustedRoot_Root_CA_ECC_TLS_2021.pem Adding debian:Atos_TrustedRoot_Root_CA_RSA_TLS_2021.pem Adding debian:Autoridad_de_Certificacion_Firmaprofesional_CIF_A62634068.pem Adding debian:BJCA_Global_Root_CA1.pem Adding debian:BJCA_Global_Root_CA2.pem Adding debian:Baltimore_CyberTrust_Root.pem Adding debian:Buypass_Class_2_Root_CA.pem Adding debian:Buypass_Class_3_Root_CA.pem Adding debian:CA_Disig_Root_R2.pem Adding debian:CFCA_EV_ROOT.pem Adding debian:COMODO_Certification_Authority.pem Adding debian:COMODO_ECC_Certification_Authority.pem Adding debian:COMODO_RSA_Certification_Authority.pem Adding debian:Certainly_Root_E1.pem Adding debian:Certainly_Root_R1.pem Adding debian:Certigna.pem Adding debian:Certigna_Root_CA.pem Adding debian:Certum_EC-384_CA.pem Adding debian:Certum_Trusted_Network_CA.pem Adding debian:Certum_Trusted_Network_CA_2.pem Adding debian:Certum_Trusted_Root_CA.pem Adding debian:CommScope_Public_Trust_ECC_Root-01.pem Adding debian:CommScope_Public_Trust_ECC_Root-02.pem Adding debian:CommScope_Public_Trust_RSA_Root-01.pem Adding debian:CommScope_Public_Trust_RSA_Root-02.pem Adding debian:Comodo_AAA_Services_root.pem Adding debian:D-TRUST_BR_Root_CA_1_2020.pem Adding debian:D-TRUST_EV_Root_CA_1_2020.pem Adding debian:D-TRUST_Root_Class_3_CA_2_2009.pem Adding debian:D-TRUST_Root_Class_3_CA_2_EV_2009.pem Adding debian:DigiCert_Assured_ID_Root_CA.pem Adding debian:DigiCert_Assured_ID_Root_G2.pem Adding debian:DigiCert_Assured_ID_Root_G3.pem Adding debian:DigiCert_Global_Root_CA.pem Adding debian:DigiCert_Global_Root_G2.pem Adding debian:DigiCert_Global_Root_G3.pem Adding debian:DigiCert_High_Assurance_EV_Root_CA.pem Adding debian:DigiCert_TLS_ECC_P384_Root_G5.pem Adding debian:DigiCert_TLS_RSA4096_Root_G5.pem Adding debian:DigiCert_Trusted_Root_G4.pem Adding debian:Entrust.net_Premium_2048_Secure_Server_CA.pem Adding debian:Entrust_Root_Certification_Authority.pem Adding debian:Entrust_Root_Certification_Authority_-_EC1.pem Adding debian:Entrust_Root_Certification_Authority_-_G2.pem Adding debian:Entrust_Root_Certification_Authority_-_G4.pem Adding debian:GDCA_TrustAUTH_R5_ROOT.pem Adding debian:GLOBALTRUST_2020.pem Adding debian:GTS_Root_R1.pem Adding debian:GTS_Root_R2.pem Adding debian:GTS_Root_R3.pem Adding debian:GTS_Root_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R4.pem Adding debian:GlobalSign_ECC_Root_CA_-_R5.pem Adding debian:GlobalSign_Root_CA.pem Adding debian:GlobalSign_Root_CA_-_R3.pem Adding debian:GlobalSign_Root_CA_-_R6.pem Adding debian:GlobalSign_Root_E46.pem Adding debian:GlobalSign_Root_R46.pem Adding debian:Go_Daddy_Class_2_CA.pem Adding debian:Go_Daddy_Root_Certificate_Authority_-_G2.pem Adding debian:HARICA_TLS_ECC_Root_CA_2021.pem Adding debian:HARICA_TLS_RSA_Root_CA_2021.pem Adding debian:Hellenic_Academic_and_Research_Institutions_ECC_RootCA_2015.pem Adding debian:Hellenic_Academic_and_Research_Institutions_RootCA_2015.pem Adding debian:HiPKI_Root_CA_-_G1.pem Adding debian:Hongkong_Post_Root_CA_3.pem Adding debian:ISRG_Root_X1.pem Adding debian:ISRG_Root_X2.pem Adding debian:IdenTrust_Commercial_Root_CA_1.pem Adding debian:IdenTrust_Public_Sector_Root_CA_1.pem Adding debian:Izenpe.com.pem Adding debian:Microsec_e-Szigno_Root_CA_2009.pem Adding debian:Microsoft_ECC_Root_Certificate_Authority_2017.pem Adding debian:Microsoft_RSA_Root_Certificate_Authority_2017.pem Adding debian:NAVER_Global_Root_Certification_Authority.pem Adding debian:NetLock_Arany_=Class_Gold=_Főtanúsítvány.pem Adding debian:OISTE_WISeKey_Global_Root_GB_CA.pem Adding debian:OISTE_WISeKey_Global_Root_GC_CA.pem Adding debian:QuoVadis_Root_CA_1_G3.pem Adding debian:QuoVadis_Root_CA_2.pem Adding debian:QuoVadis_Root_CA_2_G3.pem Adding debian:QuoVadis_Root_CA_3.pem Adding debian:QuoVadis_Root_CA_3_G3.pem Adding debian:SSL.com_EV_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_EV_Root_Certification_Authority_RSA_R2.pem Adding debian:SSL.com_Root_Certification_Authority_ECC.pem Adding debian:SSL.com_Root_Certification_Authority_RSA.pem Adding debian:SSL.com_TLS_ECC_Root_CA_2022.pem Adding debian:SSL.com_TLS_RSA_Root_CA_2022.pem Adding debian:SZAFIR_ROOT_CA2.pem Adding debian:Sectigo_Public_Server_Authentication_Root_E46.pem Adding debian:Sectigo_Public_Server_Authentication_Root_R46.pem Adding debian:SecureSign_RootCA11.pem Adding debian:SecureTrust_CA.pem Adding debian:Secure_Global_CA.pem Adding debian:Security_Communication_ECC_RootCA1.pem Adding debian:Security_Communication_RootCA2.pem Adding debian:Security_Communication_RootCA3.pem Adding debian:Security_Communication_Root_CA.pem Adding debian:Starfield_Class_2_CA.pem Adding debian:Starfield_Root_Certificate_Authority_-_G2.pem Adding debian:Starfield_Services_Root_Certificate_Authority_-_G2.pem Adding debian:SwissSign_Gold_CA_-_G2.pem Adding debian:SwissSign_Silver_CA_-_G2.pem Adding debian:T-TeleSec_GlobalRoot_Class_2.pem Adding debian:T-TeleSec_GlobalRoot_Class_3.pem Adding debian:TUBITAK_Kamu_SM_SSL_Kok_Sertifikasi_-_Surum_1.pem Adding debian:TWCA_Global_Root_CA.pem Adding debian:TWCA_Root_Certification_Authority.pem Adding debian:TeliaSonera_Root_CA_v1.pem Adding debian:Telia_Root_CA_v2.pem Adding debian:TrustAsia_Global_Root_CA_G3.pem Adding debian:TrustAsia_Global_Root_CA_G4.pem Adding debian:Trustwave_Global_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P256_Certification_Authority.pem Adding debian:Trustwave_Global_ECC_P384_Certification_Authority.pem Adding debian:TunTrust_Root_CA.pem Adding debian:UCA_Extended_Validation_Root.pem Adding debian:UCA_Global_G2_Root.pem Adding debian:USERTrust_ECC_Certification_Authority.pem Adding debian:USERTrust_RSA_Certification_Authority.pem Adding debian:XRamp_Global_CA_Root.pem Adding debian:certSIGN_ROOT_CA.pem Adding debian:certSIGN_Root_CA_G2.pem Adding debian:e-Szigno_Root_CA_2017.pem Adding debian:ePKI_Root_Certification_Authority.pem Adding debian:emSign_ECC_Root_CA_-_C3.pem Adding debian:emSign_ECC_Root_CA_-_G3.pem Adding debian:emSign_Root_CA_-_C1.pem Adding debian:emSign_Root_CA_-_G1.pem Adding debian:vTrus_ECC_Root_CA.pem Adding debian:vTrus_Root_CA.pem done. Setting up maven (3.8.8-1) ... update-alternatives: using /usr/share/maven/bin/mvn to provide /usr/bin/mvn (mvn) in auto mode Setting up openjdk-21-jre:amd64 (21.0.5+11-1) ... Setting up ant (1.10.15-1) ... Setting up junit4 (4.13.2-5) ... Setting up openjdk-21-jdk-headless:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jar to provide /usr/bin/jar (jar) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jarsigner to provide /usr/bin/jarsigner (jarsigner) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javac to provide /usr/bin/javac (javac) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javadoc to provide /usr/bin/javadoc (javadoc) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/javap to provide /usr/bin/javap (javap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jcmd to provide /usr/bin/jcmd (jcmd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdb to provide /usr/bin/jdb (jdb) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeprscan to provide /usr/bin/jdeprscan (jdeprscan) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jdeps to provide /usr/bin/jdeps (jdeps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jfr to provide /usr/bin/jfr (jfr) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jimage to provide /usr/bin/jimage (jimage) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jinfo to provide /usr/bin/jinfo (jinfo) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jlink to provide /usr/bin/jlink (jlink) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmap to provide /usr/bin/jmap (jmap) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jmod to provide /usr/bin/jmod (jmod) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jps to provide /usr/bin/jps (jps) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jrunscript to provide /usr/bin/jrunscript (jrunscript) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jshell to provide /usr/bin/jshell (jshell) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstack to provide /usr/bin/jstack (jstack) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstat to provide /usr/bin/jstat (jstat) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jstatd to provide /usr/bin/jstatd (jstatd) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jwebserver to provide /usr/bin/jwebserver (jwebserver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/serialver to provide /usr/bin/serialver (serialver) in auto mode update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jhsdb to provide /usr/bin/jhsdb (jhsdb) in auto mode Setting up default-jre-headless (2:1.21-76) ... Setting up maven-repo-helper (1.11) ... Setting up default-jre (2:1.21-76) ... Setting up libplexus-ant-factory-java (1.0~alpha2.1-4) ... Setting up ant-optional (1.10.15-1) ... Setting up openjdk-21-jdk:amd64 (21.0.5+11-1) ... update-alternatives: using /usr/lib/jvm/java-21-openjdk-amd64/bin/jconsole to provide /usr/bin/jconsole (jconsole) in auto mode Setting up default-jdk-headless (2:1.21-76) ... Setting up junit5 (5.10.3-1) ... Setting up libmaven-plugin-tools-java (3.10.2-1) ... Setting up libistack-commons-java (3.0.6-5) ... Setting up default-jdk (2:1.21-76) ... Setting up libsurefire-java (2.22.3-3) ... Setting up libcodemodel-java (2.6+jaxb2.3.0.1-11) ... Setting up libtxw2-java (2.3.0.1-11) ... Setting up libjaxb-java (2.3.0.1-11) ... Setting up libbiojava6-java (6.1.0+dfsg-5) ... Processing triggers for sgml-base (1.31) ... Setting up libvelocity-tools-java (2.0-9) ... Setting up libdoxia-sitetools-java (2.0.0-1) ... Setting up libmaven-site-plugin-java (3.21.0-1) ... Setting up maven-debian-helper (2.6.5) ... Setting up libmaven-javadoc-plugin-java (3.10.1-2) ... Processing triggers for ca-certificates (20240203) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Processing triggers for ca-certificates-java (20240118) ... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/snpeff-5.2.e+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../snpeff_5.2.e+dfsg-1_source.changes dpkg-buildpackage: info: source package snpeff dpkg-buildpackage: info: source version 5.2.e+dfsg-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Pierre Gruet dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --with javahelper debian/rules override_dh_auto_clean make[1]: Entering directory '/build/reproducible-path/snpeff-5.2.e+dfsg' dh_auto_clean bash -c "for dir in \$(find . -name target -type d); do if [ -f \$(echo \$dir | sed -e s/target\$/pom.xml/) ]; then rm -Rf \$dir; fi done" mh_unpatchpoms -plibsnpeff-java # Replacing our modified org/snpeff/SnpEff.java with the original one. if [ -e SnpEff.java.old ]; then \ mv SnpEff.java.old src/main/java/org/snpeff/SnpEff.java; \ fi make[1]: Leaving directory '/build/reproducible-path/snpeff-5.2.e+dfsg' jh_clean Duplicate specification "u=s" for option "u" dh_clean debian/rules binary dh binary --with javahelper dh_update_autotools_config dh_autoreconf debian/rules override_dh_auto_configure make[1]: Entering directory '/build/reproducible-path/snpeff-5.2.e+dfsg' # We replace the compiling timestamp by the one in d/changelog to enhance # build reproducibility. cp src/main/java/org/snpeff/SnpEff.java SnpEff.java.old sed "s/Gpr\.compile.*/\"$(date --utc --date="@1728161934" +"%Y-%m-%d %H:%M" )\";/" SnpEff.java.old > src/main/java/org/snpeff/SnpEff.java dh_auto_configure mh_patchpoms -plibsnpeff-java --debian-build --keep-pom-version --maven-repo=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian/maven-repo Failed to parse /build/reproducible-path/snpeff-5.2.e+dfsg/debian/maven-repo/org/biojava/biojava-structure/6.1.0/biojava-structure-6.1.0.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.repo.Repository.scanOnce(Repository.java:196) at org.debian.maven.repo.POMTransformer.usePluginVersionsFromRepository(POMTransformer.java:107) at org.debian.maven.repo.POMTransformer.main(POMTransformer.java:779) Failed to parse /build/reproducible-path/snpeff-5.2.e+dfsg/debian/maven-repo/org/biojava/biojava-structure/6.x/biojava-structure-6.x.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.repo.Repository.scanOnce(Repository.java:196) at org.debian.maven.repo.POMTransformer.usePluginVersionsFromRepository(POMTransformer.java:107) at org.debian.maven.repo.POMTransformer.main(POMTransformer.java:779) make[1]: Leaving directory '/build/reproducible-path/snpeff-5.2.e+dfsg' jh_linkjars dh_auto_build /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/snpeff-5.2.e\+dfsg -Dclassworlds.conf=/etc/maven/m2-debian.conf org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian -Dmaven.repo.local=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian/maven-repo --batch-mode package javadoc:jar javadoc:aggregate -DskipTests -Dnotimestamp=true -Dlocale=en_US OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] -------------------------< org.snpeff:snpeff >-------------------------- [INFO] Building SnpEff 5.2 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The artifact org.apache.maven.plugins:maven-jar-plugin:jar:2.4 has been relocated to org.apache.maven.plugins:maven-jar-plugin:jar:3.3.0 [WARNING] The POM for org.biojava:biojava-structure:jar:6.x is invalid, transitive dependencies (if any) will not be available, enable debug logging for more details [INFO] [INFO] --- maven-resources-plugin:3.3.1:resources (default-resources) @ snpeff --- [INFO] Copying 5 resources from src/main/resources to target/classes [INFO] [INFO] --- maven-compiler-plugin:3.13.0:compile (default-compile) @ snpeff --- [INFO] Recompiling the module because of changed source code. [INFO] Compiling 416 source files with javac [debug deprecation release 21] to target/classes [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/Config.java:[263,20] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/Config.java:[396,20] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Download.java:[73,23] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Download.java:[104,31] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Download.java:[211,19] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdGsa.java:[159,63] exec(java.lang.String) in java.lang.Runtime has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdEff.java:[941,45] Configuration() in freemarker.template.Configuration has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdEff.java:[947,46] DefaultObjectWrapper() in freemarker.template.DefaultObjectWrapper has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/logStatsServer/LogStats.java:[173,24] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nextProt/NextProtDb.java:[122,28] ReaderInputStream(java.io.Reader) in org.apache.commons.io.input.ReaderInputStream has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdTranslocationsReport.java:[265,45] Configuration() in freemarker.template.Configuration has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdTranslocationsReport.java:[271,46] DefaultObjectWrapper() in freemarker.template.DefaultObjectWrapper has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/logStatsServer/VersionCheck.java:[64,28] URL(java.lang.String) in java.net.URL has been deprecated [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/snpEffect/commandLine/SnpEffCmdDownload.java:[145,19] URL(java.lang.String) in java.net.URL has been deprecated [INFO] [INFO] --- maven-resources-plugin:3.3.1:testResources (default-testResources) @ snpeff --- [INFO] skip non existing resourceDirectory /build/reproducible-path/snpeff-5.2.e+dfsg/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.13.0:testCompile (default-testCompile) @ snpeff --- [INFO] Recompiling the module because of changed dependency. [INFO] Compiling 140 source files with javac [debug deprecation release 21] to target/test-classes [INFO] [INFO] --- maven-surefire-plugin:2.22.3:test (default-test) @ snpeff --- [INFO] Tests are skipped. [INFO] [INFO] --- maven-jar-plugin:3.3.0:jar (default-jar) @ snpeff --- [INFO] Building jar: /build/reproducible-path/snpeff-5.2.e+dfsg/target/snpeff-5.2.jar [INFO] [INFO] --- maven-javadoc-plugin:3.10.1:jar (default-cli) @ snpeff --- [INFO] Adding the --ignore-source-errors option [INFO] No previous run data found, generating javadoc. [WARNING] Javadoc Warnings [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/Binomial.java:34: warning: invalid input: '<' [WARNING] * P( K <= k ) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/Binomial.java:34: warning: invalid input: '<' [WARNING] * P( K <= k ) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/BitUtil.java:216: warning: invalid input: '&' [WARNING] /** Returns the popcount or cardinality of A & ~B [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/BitUtil.java:216: warning: invalid input: '&' [WARNING] /** Returns the popcount or cardinality of A & ~B [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gsa/ChrPosScoreList.java:11: warning: invalid input: '<' [WARNING] * A list of [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ChrPosStats.java:67: warning: @param argument "num" is not a parameter name. [WARNING] * @param num [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:6: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:57: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:66: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:81: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTable.java:126: warning: @param argument "Amino" is not a parameter name. [WARNING] * @param Amino acid in three letter code [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTables.java:95: warning: invalid input: '&' [WARNING] * Set a codon table for a given genome & chromosome [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTables.java:95: warning: invalid input: '&' [WARNING] * Set a codon table for a given genome & chromosome [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:21: warning: invalid input: '<' [WARNING] * - Two bits for the base {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:245: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:261: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequenceWithId.java:42: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:8: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:12: warning: invalid input: '<' [WARNING] * It stores DNA bases into 2 bits {a,c,g,t} <-> {0,1,2,3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:290: warning: @param argument "linearIndex" is not a parameter name. [WARNING] * @param linearIndex [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:4: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:9: warning: invalid input: '<' [WARNING] * - Two bits for the base {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:59: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequence.java:16: warning: invalid input: '<' [WARNING] * - Every base is encoded in 2 bits {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceByte.java:8: warning: invalid input: '<' [WARNING] * - Every base is encoded in 2 bits {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceId.java:68: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceId.java:84: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequencePe.java:109: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequencePe.java:125: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/genBank/Embl.java:19: warning: @param argument "fileName" is not a parameter name. [WARNING] * @param fileName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/genBank/Embl.java:120: warning: @param argument "fileName" is not a parameter name. [WARNING] * @param fileName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/fastq/FastqTrimmerAdrian.java:29: warning: invalid input: '<' [WARNING] * if v(3)<25 then exit [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/FileIndexChrPos.java:246: warning: invalid input: '<' [WARNING] * @return An array of 'len' bytes. null if either end of file (len > 0) or beginning of file (len < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:170: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:249: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:315: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:336: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/GeneCountByTypeTable.java:114: warning: invalid input: '<' [WARNING] * Sample this tuple to update statistics [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/GeneCountByTypeTable.java:114: warning: invalid input: '<' [WARNING] * Sample this tuple to update statistics [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:136: warning: invalid input: '<' [WARNING] * Note: If upDownLength <=0 no interval is created [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:121: warning: @param argument "createIfMissing" is not a parameter name. [WARNING] * @param createIfMissing : If true, create canonical splice sites if they are missing. [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:136: warning: invalid input: '<' [WARNING] * Note: If upDownLength <=0 no interval is created [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSets.java:89: warning: @param argument "geneSetName" is not a parameter name. [WARNING] * @param geneSetName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSets.java:466: warning: @param argument "geneSetType" is not a parameter name. [WARNING] * @param geneSetType [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSetsRanked.java:128: warning: invalid input: '<' [WARNING] * Get geneId <-> Rank mapping [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSetsRanked.java:128: warning: invalid input: '<' [WARNING] * Get geneId <-> Rank mapping [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:420: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:428: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:420: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:428: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerm.java:95: warning: @param argument "goTermAcc" is not a parameter name. [WARNING] * @param goTermAcc [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:102: warning: @param argument "symbolName" is not a parameter name. [WARNING] * @param symbolName : Symbol's name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:107: warning: @return tag cannot be used in method with void return type. [WARNING] public void addInterestingSymbol(String symbolId, int rank, HashSet noGoTermFound) { [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:116: warning: @param argument "goTermAcc" is not a parameter name. [WARNING] * @param goTermAcc [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:118: warning: @param argument "symbolName" is not a parameter name. [WARNING] * @param symbolName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:119: warning: @param argument "goTermType" is not a parameter name. [WARNING] * @param goTermType [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:120: warning: @param argument "description" is not a parameter name. [WARNING] * @param description [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:458: warning: @return tag cannot be used in method with void return type. [WARNING] public void readInterestingSymbolIdsFile(String fileName) { [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:501: warning: @param argument "nameSpace" is not a parameter name. [WARNING] * @param nameSpace [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:532: warning: @param argument "showExceptions" is not a parameter name. [WARNING] * @param showExceptions : show exceptions if true [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:543: warning: @param argument "showExceptions" is not a parameter name. [WARNING] * @param showExceptions : show exceptions if true [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:704: warning: @param argument "count" is not a parameter name. [WARNING] * @param count [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:6: warning: invalid input: '<' [WARNING] * A Hash using primitive types instead or warped object [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:9: warning: invalid input: '<' [WARNING] * This could be implemented by simply doing HashMap > (but it [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:120: warning: invalid input: '<' [WARNING] * Insert a pair [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:120: warning: invalid input: '<' [WARNING] * Insert a pair [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:10: warning: invalid input: '<' [WARNING] * I.e. a mapping id <-> name where neither is unique [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:25: warning: invalid input: '<' [WARNING] * Add a mapping id <-> name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:25: warning: invalid input: '<' [WARNING] * Add a mapping id <-> name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:49: warning: @param argument "name" is not a parameter name. [WARNING] * @param name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/IntervalAndSubIntervals.java:268: warning: invalid input: '<' [WARNING] * by reverse end position (if strand < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/IntervalAndSubIntervals.java:268: warning: invalid input: '<' [WARNING] * by reverse end position (if strand < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/tree/IntervalNode.java:85: warning: @param argument "queryMarker" is not a parameter name. [WARNING] * @param queryMarker: The interval to intersect [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/logStatsServer/LogStats.java:61: warning: invalid input: '<' [WARNING] * @param reportValues : A hash containing pairs to report [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Marker.java:660: warning: @param argument "variantEndPoint" is not a parameter name. [WARNING] * @param variantEndPoint : Before analyzing results, we have to change markers using variantrRef [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/Nmer.java:47: warning: @param argument "nmer" is not a parameter name. [WARNING] * @param nmer [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/Nmer.java:83: warning: @param argument "cq" is not a parameter name. [WARNING] * @param cq [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:34: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:87: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:105: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:177: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/NormalDistribution.java:9: warning: invalid input: '&' [WARNING] * Calculate Normal distribution (PDF & CDF) using more precision if required [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:31: warning: @param argument "t" is not a parameter name. [WARNING] * @param t : Transcript [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:131: warning: @param argument "Exon" is not a parameter name. [WARNING] * @param Exon [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:140: warning: @param argument "Gene" is not a parameter name. [WARNING] * @param Gene [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:160: warning: @param argument "Transcript" is not a parameter name. [WARNING] * @param Transcript [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/OpenBitSet.java:159: warning: invalid input: '<' [WARNING] * numWords should be <= bits.length, and [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/OpenBitSet.java:160: warning: invalid input: '>' [WARNING] * any existing words in the array at position >= numWords should be zero. [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/overlap/Overlap.java:30: warning: Parameter "seq1" is documented more than once. [WARNING] * @param seq1 [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/PedigreeEntry.java:9: warning: invalid input: '<' [WARNING] * ##PEDIGREE= [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/PedigreeEntry.java:12: warning: invalid input: '<' [WARNING] * ##PEDIGREE= [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/ped/PlinkMap.java:65: warning: @param argument "dataFileName" is not a parameter name. [WARNING] * @param dataFileName [WARNING] ^ [WARNING] 100 warnings [INFO] Building jar: /build/reproducible-path/snpeff-5.2.e+dfsg/target/snpeff-5.2-javadoc.jar [INFO] [INFO] -------------------------< org.snpeff:snpeff >-------------------------- [INFO] Building SnpEff 5.2 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] >>> maven-javadoc-plugin:3.10.1:aggregate (default-cli) > compile @ snpeff >>> [INFO] [INFO] --- maven-resources-plugin:3.3.1:resources (default-resources) @ snpeff --- [INFO] Copying 5 resources from src/main/resources to target/classes [INFO] [INFO] --- maven-compiler-plugin:3.13.0:compile (default-compile) @ snpeff --- [INFO] Nothing to compile - all classes are up to date. [WARNING] Overwriting artifact's file from /build/reproducible-path/snpeff-5.2.e+dfsg/target/snpeff-5.2.jar to /build/reproducible-path/snpeff-5.2.e+dfsg/target/classes [INFO] [INFO] <<< maven-javadoc-plugin:3.10.1:aggregate (default-cli) < compile @ snpeff <<< [INFO] [INFO] [INFO] --- maven-javadoc-plugin:3.10.1:aggregate (default-cli) @ snpeff --- [INFO] Adding the --ignore-source-errors option [INFO] Configuration changed, re-generating javadoc. [WARNING] Javadoc Warnings [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/Binomial.java:34: warning: invalid input: '<' [WARNING] * P( K <= k ) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/Binomial.java:34: warning: invalid input: '<' [WARNING] * P( K <= k ) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/BitUtil.java:216: warning: invalid input: '&' [WARNING] /** Returns the popcount or cardinality of A & ~B [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/BitUtil.java:216: warning: invalid input: '&' [WARNING] /** Returns the popcount or cardinality of A & ~B [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gsa/ChrPosScoreList.java:11: warning: invalid input: '<' [WARNING] * A list of [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ChrPosStats.java:67: warning: @param argument "num" is not a parameter name. [WARNING] * @param num [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:6: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:57: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:66: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/Coder.java:81: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTable.java:126: warning: @param argument "Amino" is not a parameter name. [WARNING] * @param Amino acid in three letter code [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTables.java:95: warning: invalid input: '&' [WARNING] * Set a codon table for a given genome & chromosome [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/codons/CodonTables.java:95: warning: invalid input: '&' [WARNING] * Set a codon table for a given genome & chromosome [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:21: warning: invalid input: '<' [WARNING] * - Two bits for the base {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:245: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequence.java:261: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaAndQualitySequenceWithId.java:42: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:8: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:12: warning: invalid input: '<' [WARNING] * It stores DNA bases into 2 bits {a,c,g,t} <-> {0,1,2,3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaCoder.java:290: warning: @param argument "linearIndex" is not a parameter name. [WARNING] * @param linearIndex [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:4: warning: invalid input: '&' [WARNING] * Class used to encode & decode sequences into binary and vice-versa [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:9: warning: invalid input: '<' [WARNING] * - Two bits for the base {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/coder/DnaQualityCoder.java:59: warning: @param argument "c" is not a parameter name. [WARNING] * @param c [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequence.java:16: warning: invalid input: '<' [WARNING] * - Every base is encoded in 2 bits {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceByte.java:8: warning: invalid input: '<' [WARNING] * - Every base is encoded in 2 bits {a, c, g, t} <=> {0, 1, 2, 3} [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceId.java:68: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequenceId.java:84: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/BinarySequence.java:43: warning: invalid input: '&' [WARNING] * Get sequence encoder & decoder [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequencePe.java:109: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/binseq/DnaSequencePe.java:125: warning: @param argument "dataOutStream" is not a parameter name. [WARNING] * @param dataOutStream [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/genBank/Embl.java:19: warning: @param argument "fileName" is not a parameter name. [WARNING] * @param fileName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/genBank/Embl.java:120: warning: @param argument "fileName" is not a parameter name. [WARNING] * @param fileName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/fastq/FastqTrimmerAdrian.java:29: warning: invalid input: '<' [WARNING] * if v(3)<25 then exit [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/FileIndexChrPos.java:246: warning: invalid input: '<' [WARNING] * @return An array of 'len' bytes. null if either end of file (len > 0) or beginning of file (len < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:170: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:249: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:315: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/FisherExactTest.java:336: warning: @param argument "theshold" is not a parameter name. [WARNING] * @param theshold Threshold value [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/GeneCountByTypeTable.java:114: warning: invalid input: '<' [WARNING] * Sample this tuple to update statistics [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/GeneCountByTypeTable.java:114: warning: invalid input: '<' [WARNING] * Sample this tuple to update statistics [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:136: warning: invalid input: '<' [WARNING] * Note: If upDownLength <=0 no interval is created [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:121: warning: @param argument "createIfMissing" is not a parameter name. [WARNING] * @param createIfMissing : If true, create canonical splice sites if they are missing. [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genes.java:136: warning: invalid input: '<' [WARNING] * Note: If upDownLength <=0 no interval is created [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSets.java:89: warning: @param argument "geneSetName" is not a parameter name. [WARNING] * @param geneSetName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSets.java:466: warning: @param argument "geneSetType" is not a parameter name. [WARNING] * @param geneSetType [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSetsRanked.java:128: warning: invalid input: '<' [WARNING] * Get geneId <-> Rank mapping [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneSets/GeneSetsRanked.java:128: warning: invalid input: '<' [WARNING] * Get geneId <-> Rank mapping [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:420: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:428: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:420: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Genome.java:428: warning: invalid input: '&' [WARNING] * Show number of genes, transcripts & exons [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerm.java:95: warning: @param argument "goTermAcc" is not a parameter name. [WARNING] * @param goTermAcc [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:102: warning: @param argument "symbolName" is not a parameter name. [WARNING] * @param symbolName : Symbol's name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:107: warning: @return tag cannot be used in method with void return type. [WARNING] public void addInterestingSymbol(String symbolId, int rank, HashSet noGoTermFound) { [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:116: warning: @param argument "goTermAcc" is not a parameter name. [WARNING] * @param goTermAcc [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:118: warning: @param argument "symbolName" is not a parameter name. [WARNING] * @param symbolName [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:119: warning: @param argument "goTermType" is not a parameter name. [WARNING] * @param goTermType [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:120: warning: @param argument "description" is not a parameter name. [WARNING] * @param description [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:458: warning: @return tag cannot be used in method with void return type. [WARNING] public void readInterestingSymbolIdsFile(String fileName) { [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/geneOntology/GoTerms.java:501: warning: @param argument "nameSpace" is not a parameter name. [WARNING] * @param nameSpace [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:532: warning: @param argument "showExceptions" is not a parameter name. [WARNING] * @param showExceptions : show exceptions if true [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:543: warning: @param argument "showExceptions" is not a parameter name. [WARNING] * @param showExceptions : show exceptions if true [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/util/Gpr.java:704: warning: @param argument "count" is not a parameter name. [WARNING] * @param count [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:6: warning: invalid input: '<' [WARNING] * A Hash using primitive types instead or warped object [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:9: warning: invalid input: '<' [WARNING] * This could be implemented by simply doing HashMap > (but it [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:120: warning: invalid input: '<' [WARNING] * Insert a pair [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/HashLongLongArray.java:120: warning: invalid input: '<' [WARNING] * Insert a pair [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:10: warning: invalid input: '<' [WARNING] * I.e. a mapping id <-> name where neither is unique [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:25: warning: invalid input: '<' [WARNING] * Add a mapping id <-> name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:25: warning: invalid input: '<' [WARNING] * Add a mapping id <-> name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/gtex/IdMap.java:49: warning: @param argument "name" is not a parameter name. [WARNING] * @param name [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/IntervalAndSubIntervals.java:268: warning: invalid input: '<' [WARNING] * by reverse end position (if strand < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/IntervalAndSubIntervals.java:268: warning: invalid input: '<' [WARNING] * by reverse end position (if strand < 0) [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/tree/IntervalNode.java:85: warning: @param argument "queryMarker" is not a parameter name. [WARNING] * @param queryMarker: The interval to intersect [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/logStatsServer/LogStats.java:61: warning: invalid input: '<' [WARNING] * @param reportValues : A hash containing pairs to report [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/interval/Marker.java:660: warning: @param argument "variantEndPoint" is not a parameter name. [WARNING] * @param variantEndPoint : Before analyzing results, we have to change markers using variantrRef [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/Nmer.java:47: warning: @param argument "nmer" is not a parameter name. [WARNING] * @param nmer [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/Nmer.java:83: warning: @param argument "cq" is not a parameter name. [WARNING] * @param cq [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:34: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:87: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:105: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/nmer/NmerCount.java:177: warning: @param argument "threshold" is not a parameter name. [WARNING] * @param threshold [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/probablility/NormalDistribution.java:9: warning: invalid input: '&' [WARNING] * Calculate Normal distribution (PDF & CDF) using more precision if required [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:31: warning: @param argument "t" is not a parameter name. [WARNING] * @param t : Transcript [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:131: warning: @param argument "Exon" is not a parameter name. [WARNING] * @param Exon [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:140: warning: @param argument "Gene" is not a parameter name. [WARNING] * @param Gene [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/stats/ObservedOverExpected.java:160: warning: @param argument "Transcript" is not a parameter name. [WARNING] * @param Transcript [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/OpenBitSet.java:159: warning: invalid input: '<' [WARNING] * numWords should be <= bits.length, and [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/collections/OpenBitSet.java:160: warning: invalid input: '>' [WARNING] * any existing words in the array at position >= numWords should be zero. [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/overlap/Overlap.java:30: warning: Parameter "seq1" is documented more than once. [WARNING] * @param seq1 [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/PedigreeEntry.java:9: warning: invalid input: '<' [WARNING] * ##PEDIGREE= [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/vcf/PedigreeEntry.java:12: warning: invalid input: '<' [WARNING] * ##PEDIGREE= [WARNING] ^ [WARNING] /build/reproducible-path/snpeff-5.2.e+dfsg/src/main/java/org/snpeff/ped/PlinkMap.java:65: warning: @param argument "dataFileName" is not a parameter name. [WARNING] * @param dataFileName [WARNING] ^ [WARNING] 100 warnings [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 33.609 s [INFO] Finished at: 2025-12-14T06:48:54-12:00 [INFO] ------------------------------------------------------------------------ dh_auto_test /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/snpeff-5.2.e\+dfsg -Dclassworlds.conf=/etc/maven/m2-debian.conf org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian -Dmaven.repo.local=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian/maven-repo --batch-mode test OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] -------------------------< org.snpeff:snpeff >-------------------------- [INFO] Building SnpEff 5.2 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [WARNING] The POM for org.biojava:biojava-structure:jar:6.x is invalid, transitive dependencies (if any) will not be available, enable debug logging for more details [INFO] [INFO] --- maven-resources-plugin:3.3.1:resources (default-resources) @ snpeff --- [INFO] Copying 5 resources from src/main/resources to target/classes [INFO] [INFO] --- maven-compiler-plugin:3.13.0:compile (default-compile) @ snpeff --- [INFO] Nothing to compile - all classes are up to date. [INFO] [INFO] --- maven-resources-plugin:3.3.1:testResources (default-testResources) @ snpeff --- [INFO] skip non existing resourceDirectory /build/reproducible-path/snpeff-5.2.e+dfsg/src/test/resources [INFO] [INFO] --- maven-compiler-plugin:3.13.0:testCompile (default-testCompile) @ snpeff --- [INFO] Nothing to compile - all classes are up to date. [INFO] [INFO] --- maven-surefire-plugin:2.22.3:test (default-test) @ snpeff --- [INFO] [INFO] ------------------------------------------------------- [INFO] T E S T S [INFO] ------------------------------------------------------- [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvsIntron TestCasesHgvsIntron.test_01_intron(23): Test ............................................................... 100 ............................................................ 200 ................................................................ 300 ......................................................... 400 ......................................................................................................................... 600 ......................................................................................................... 800 ....................................................... 900 .................................................................. 1000 ............................................................. 1100 .................................................................. 1200 ......................................................... 1300 ........................................................................................................... 1500 ....................................................... 1600 ............................................................... [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.456 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvsIntron [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesApplyIns TestCasesApplyIns.test_apply_variant_01(21): Test TestCasesApplyIns.test_apply_variant_02(32): Test TestCasesApplyIns.test_apply_variant_03(43): Test TestCasesApplyIns.test_apply_variant_04(54): Test TestCasesApplyIns.test_apply_variant_05(72): Test TestCasesApplyIns.test_apply_variant_06(90): Test TestCasesApplyIns.test_apply_variant_07(108): Test TestCasesApplyIns.test_apply_variant_08(126): Test TestCasesApplyIns.test_apply_variant_09(137): Test TestCasesApplyIns.test_apply_variant_10(148): Test TestCasesApplyIns.test_apply_variant_11(159): Test TestCasesApplyIns.test_apply_variant_12(178): Test TestCasesApplyIns.test_apply_variant_13(192): Test [INFO] Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.961 s - in org.snpeff.snpEffect.testCases.unity.TestCasesApplyIns [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesMarkerUtils TestCasesMarkerUtils.test_collapseZeroGap(107): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.107 s - in org.snpeff.snpEffect.testCases.unity.TestCasesMarkerUtils [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesSpliceSite TestCasesSpliceSite.test_01(34): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.694 s - in org.snpeff.snpEffect.testCases.unity.TestCasesSpliceSite [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntervalVariant TestCasesIntervalVariant.test_01(36): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.386 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntervalVariant [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesBuild TestCasesBuild.test_01_chromoNamesDoNotMatch_Gff(18): Test TestCasesBuild.test_02_chromoNamesDoNotMatch_GffFasta(54): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.009 s - in org.snpeff.snpEffect.testCases.unity.TestCasesBuild [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvsExon TestCasesHgvsExon.test_01_coding(27): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.001 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvsExon [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesStructuralInv TestCasesStructuralInv.test01_invGene(214): Test TestCasesStructuralInv.test02(249): Test TestCasesStructuralInv.test03(266): Test TestCasesStructuralInv.test04(283): Test TestCasesStructuralInv.test05(300): Test TestCasesStructuralInv.test06(317): Test TestCasesStructuralInv.test07(334): Test TestCasesStructuralInv.test08(352): Test TestCasesStructuralInv.test09(370): Test TestCasesStructuralInv.test10(387): Test TestCasesStructuralInv.test01_invTr(231): Test [INFO] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.614 s - in org.snpeff.snpEffect.testCases.unity.TestCasesStructuralInv [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesCytoBands [WARNING] Tests run: 2, Failures: 0, Errors: 0, Skipped: 2, Time elapsed: 0 s - in org.snpeff.snpEffect.testCases.unity.TestCasesCytoBands [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIns TestCasesIns.test_01(38): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.404 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIns [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesVariantRealignment TestCasesVariantRealignment.test_07_savant(203): Test TestCasesVariantRealignment.test_01(56): Test TestCasesVariantRealignment.test_02(82): Test TestCasesVariantRealignment.test_03(105): Test TestCasesVariantRealignment.test_05_savant(157): Test TestCasesVariantRealignment.test_04_Intron(131): Test TestCasesVariantRealignment.test_06_savant(194): Test TestCasesVariantRealignment.test_09_reallyLongRealign(224): Test TestCasesVariantRealignment.test_05_savant_opposite(174): Test TestCasesVariantRealignment.test_08_reallyLongRealign(213): Test [INFO] Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 17.818 s - in org.snpeff.snpEffect.testCases.unity.TestCasesVariantRealignment [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesReactome TestCasesReactome.test_01(32): Test TestCasesReactome.test_02(56): Test TestCasesReactome.test_03(86): Test TestCasesReactome.test_04(114): Test TestCasesReactome.test_05(142): Test [INFO] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.007 s - in org.snpeff.snpEffect.testCases.unity.TestCasesReactome [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIubString TestCasesIubString.test_01(29): Test TestCasesIubString.test_02(39): Test TestCasesIubString.test_03(49): Test TestCasesIubString.test_04(68): Test [INFO] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIubString [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesFileIndexChrPos TestCasesFileIndexChrPos.test_00_short_file(79): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ................................................................................................... TestCasesFileIndexChrPos.test_01(88): Test TestCasesFileIndexChrPos.test_02(109): Test TestCasesFileIndexChrPos.test_03(131): Test TestCasesFileIndexChrPos.test_04(158): Test TestCasesFileIndexChrPos.test_05(186): Test TestCasesFileIndexChrPos.test_06(214): Test TestCasesFileIndexChrPos.test_07(242): Test TestCasesFileIndexChrPos.test_10(267): Test TestCasesFileIndexChrPos.test_11(300): Test TestCasesFileIndexChrPos.test_20(347): Test TestCasesFileIndexChrPos.test_21(369): Test TestCasesFileIndexChrPos.test_22(391): Test TestCasesFileIndexChrPos.test_23(413): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ................................................................................................... TestCasesFileIndexChrPos.test_24(477): Test .................................................................................................... 100 TestCasesFileIndexChrPos.test_00_long_file(70): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ................................................................................................... [INFO] Tests run: 16, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 29.308 s - in org.snpeff.snpEffect.testCases.unity.TestCasesFileIndexChrPos [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvs TestCasesHgvs.test_01(56): Test TestCasesHgvs.test_02(69): Test TestCasesHgvs.test_03(83): Test [INFO] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.485 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvs [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTreeArray TestCasesIntervalTree.test_01(141): Test . 0 .................................................................................................... 10000 .................................................................................................... 20000 .................................................................................................... 30000 .................................................................................................... 40000 .................................................................................................... 50000 .................................................................................................... 60000 .................................................................................................... 70000 .................................................................................................... 80000 .................................................................................................... 90000 ................................................................................................... TestCasesIntervalTree.test_02(164): Test . 0 .................................................................................................... 1000 .................................................................................................... 2000 .................................................................................................... 3000 .................................................................................................... 4000 .................................................................................................... 5000 .................................................................................................... 6000 .................................................................................................... 7000 .................................................................................................... 8000 .................................................................................................... 9000 ................................................................................................... [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 8.541 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTreeArray [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesApplyMixed TestCasesApplyMixed.test_apply_variant_04_shorter(116): Test TestCasesApplyMixed.test_apply_variant_06_longer(169): Test TestCasesApplyMixed.test_apply_variant_06_shorter(186): Test TestCasesApplyMixed.test_apply_variant_04_longer(98): Test TestCasesApplyMixed.test_apply_variant_09_longer(259): Test TestCasesApplyMixed.test_apply_variant_01_shorter(32): Test TestCasesApplyMixed.test_apply_variant_08_shorter(248): Test TestCasesApplyMixed.test_apply_variant_02_longer(42): Test TestCasesApplyMixed.test_apply_variant_07_longer(203): Test TestCasesApplyMixed.test_apply_variant_03_shorter(81): Test TestCasesApplyMixed.test_apply_variant_05_shorter(152): Test TestCasesApplyMixed.test_apply_variant_05_longer(134): Test TestCasesApplyMixed.test_apply_variant_07_shorter(220): Test TestCasesApplyMixed.test_apply_variant_03_longer(64): Test TestCasesApplyMixed.test_apply_variant_08_longer(237): Test TestCasesApplyMixed.test_apply_variant_02_shorter(53): Test TestCasesApplyMixed.test_apply_variant_09_shorter(270): Test TestCasesApplyMixed.test_apply_variant_01_longer(22): Test [INFO] Tests run: 18, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 29.484 s - in org.snpeff.snpEffect.testCases.unity.TestCasesApplyMixed [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDel [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.041 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDel [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesApplyMnp TestCasesApplyMnp.test_apply_variant_01(22): Test TestCasesApplyMnp.test_apply_variant_02(33): Test TestCasesApplyMnp.test_apply_variant_03(44): Test TestCasesApplyMnp.test_apply_variant_04(61): Test TestCasesApplyMnp.test_apply_variant_05(79): Test TestCasesApplyMnp.test_apply_variant_06(97): Test TestCasesApplyMnp.test_apply_variant_07(115): Test TestCasesApplyMnp.test_apply_variant_08(133): Test TestCasesApplyMnp.test_apply_variant_09(144): Test TestCasesApplyMnp.test_apply_variant_10(155): Test TestCasesApplyMnp.test_apply_variant_11(176): Test TestCasesApplyMnp.test_apply_variant_12(197): Test TestCasesApplyMnp.test_apply_variant_13(219): Test [INFO] Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.517 s - in org.snpeff.snpEffect.testCases.unity.TestCasesApplyMnp [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesProteinInteraction TestCasesProteinInteraction.test_02_split_codon_base(58): Test TestCasesProteinInteraction.test_01_split_codon_base(26): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.996 s - in org.snpeff.snpEffect.testCases.unity.TestCasesProteinInteraction [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTree TestCasesIntervalTree.test_01(141): Test . 0 .................................................................................................... 10000 .................................................................................................... 20000 .................................................................................................... 30000 .................................................................................................... 40000 .................................................................................................... 50000 .................................................................................................... 60000 .................................................................................................... 70000 .................................................................................................... 80000 .................................................................................................... 90000 ................................................................................................... TestCasesIntervalTree.test_02(164): Test . 0 .................................................................................................... 1000 .................................................................................................... 2000 .................................................................................................... 3000 .................................................................................................... 4000 .................................................................................................... 5000 .................................................................................................... 6000 .................................................................................................... 7000 .................................................................................................... 8000 .................................................................................................... 9000 ................................................................................................... [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.684 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTree [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesSnps TestCasesSnps.test_01(43): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.119 s - in org.snpeff.snpEffect.testCases.unity.TestCasesSnps [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesGenePvalueList TestCasesGenePvalueList.test_01(28): Test TestCasesGenePvalueList.test_02(46): Test TestCasesGenePvalueList.test_03(64): Test TestCasesGenePvalueList.test_04(82): Test TestCasesGenePvalueList.test_05(111): Test TestCasesGenePvalueList.test_06(129): Test TestCasesGenePvalueList.test_07(155): Test TestCasesGenePvalueList.test_08(187): Test TestCasesGenePvalueList.test_09(209): Test [INFO] Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 4.197 s - in org.snpeff.snpEffect.testCases.unity.TestCasesGenePvalueList [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvsProtDup TestCasesHgvsProtDup.test_01(31): Test TestCasesHgvsProtDup.test_02(70): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.14 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvsProtDup [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesAlign TestCasesAlign.test_01(23): Test TestCasesAlign.test_02(112): Test [INFO] Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.004 s - in org.snpeff.snpEffect.testCases.unity.TestCasesAlign [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesNmers TestCasesNmers.test_03_Nmers(33): Test [WARNING] Tests run: 2, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 0.004 s - in org.snpeff.snpEffect.testCases.unity.TestCasesNmers [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesCds TestCasesCds.test_CdsPos(35): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 TestCasesCds.test_cdsStartEnd_1(73): Test TestCasesCds.test_cdsStartEnd_2(96): Test WARNING_EXON_NOT_FOUND: WARNING: Cannot find first exonic position after 101 for transcript 'tr1' [INFO] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 2.321 s - in org.snpeff.snpEffect.testCases.unity.TestCasesCds [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesVcf [INFO] Tests run: 44, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 59.145 s - in org.snpeff.snpEffect.testCases.unity.TestCasesVcf [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesStructuralDup TestCasesStructuralDup.test01_dupGene(157): Test TestCasesStructuralDup.test02(194): Test TestCasesStructuralDup.test03(212): Test TestCasesStructuralDup.test04(229): Test TestCasesStructuralDup.test05(247): Test TestCasesStructuralDup.test06(265): Test TestCasesStructuralDup.test07(286): Test TestCasesStructuralDup.test08(303): Test TestCasesStructuralDup.test09(324): Test TestCasesStructuralDup.test10(345): Test TestCasesStructuralDup.test01_dupTr(175): Test [INFO] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 12.793 s - in org.snpeff.snpEffect.testCases.unity.TestCasesStructuralDup [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesFasta TestCasesFasta.test_01(23): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.689 s - in org.snpeff.snpEffect.testCases.unity.TestCasesFasta [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvsDnaDup TestCasesHgvsDnaDup.test_01(31): Test TestCasesHgvsDnaDup.test_02(54): Test TestCasesHgvsDnaDup.test_03(81): Test TestCasesHgvsDnaDup.test_04(111): Test TestCasesHgvsDnaDup.test_05(141): Test TestCasesHgvsDnaDup.test_06(167): Test TestCasesHgvsDnaDup.test_07(195): Test TestCasesHgvsDnaDup.test_08(221): Test TestCasesHgvsDnaDup.test_09(247): Test TestCasesHgvsDnaDup.test_10(277): Test TestCasesHgvsDnaDup.test_11(308): Test [INFO] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 13.257 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvsDnaDup [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesCodonTable TestCasesCodonTable.test_01(28): Test TestCasesCodonTable.test_02(59): Test 00:03:41 Codon table 'Blepharisma_Macronuclear' for genome 'test_ctab' [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.018 s - in org.snpeff.snpEffect.testCases.unity.TestCasesCodonTable [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesApplySnp TestCasesApplySnp.test_apply_variant_01(21): Test TestCasesApplySnp.test_apply_variant_02(31): Test TestCasesApplySnp.test_apply_variant_04(41): Test TestCasesApplySnp.test_apply_variant_05(59): Test TestCasesApplySnp.test_apply_variant_06(77): Test TestCasesApplySnp.test_apply_variant_08(95): Test TestCasesApplySnp.test_apply_variant_09(106): Test [INFO] Tests run: 7, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 11.743 s - in org.snpeff.snpEffect.testCases.unity.TestCasesApplySnp [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesFisherExactTest TestCasesFisherExactTest.test_05_fisher(313): Test TestCasesFisherExactTest.test_0(97): Test TestCasesFisherExactTest.test_03_fisher(103): Test TestCasesFisherExactTest.test_06_fisher_vs_chi2(352): Test TestCasesFisherExactTest.test_04_fisher(208): Test [INFO] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.009 s - in org.snpeff.snpEffect.testCases.unity.TestCasesFisherExactTest [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesSequenceIndexer TestCasesSequenceIndexer.test_01(69): Test TestCasesSequenceIndexer.test_02(100): Test TestCasesSequenceIndexer.test_03(125): Test TestCasesSequenceIndexer.test_04(152): Test TestCasesSequenceIndexer.test_05(182): Test TestCasesSequenceIndexer.test_06(207): Test TestCasesSequenceIndexer.test_07(225): Test TestCasesSequenceIndexer.test_08(247): Test TestCasesSequenceIndexer.test_09(267): Test TestCasesSequenceIndexer.test_10(287): Test [INFO] Tests run: 10, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 13.219 s - in org.snpeff.snpEffect.testCases.unity.TestCasesSequenceIndexer [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntStats TestCasesIntStats.test_01(31): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 4.395 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntStats [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesEffectCollapse TestCasesEffectCollapse.test_01(68): Test TestCasesEffectCollapse.test_02(74): Test TestCasesEffectCollapse.test_03(80): Test TestCasesEffectCollapse.test_04(86): Test TestCasesEffectCollapse.test_05(92): Test [INFO] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 16.158 s - in org.snpeff.snpEffect.testCases.unity.TestCasesEffectCollapse [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesOverlap TestCasesOverlap.test_binSeq_01(26): Test TestCasesOverlap.test_binSeq_02(32): Test TestCasesOverlap.test_binSeq_03(38): Test TestCasesOverlap.test_binSeq_04(44): Test TestCasesOverlap.test_binSeq_05(50): Test TestCasesOverlap.test_binSeq_06(56): Test TestCasesOverlap.test_binSeq_07(62): Test TestCasesOverlap.test_binSeq_08(68): Test TestCasesOverlap.test_binSeq_09(74): Test TestCasesOverlap.test_binSeq_10(80): Test TestCasesOverlap.test_binSeq_11(87): Test TestCasesOverlap.test_binSeq_12(94): Test TestCasesOverlap.test_binSeq_13(100): Test [INFO] Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.002 s - in org.snpeff.snpEffect.testCases.unity.TestCasesOverlap [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesStructuralTranslocations TestCasesStructuralTranslocations.test02_2_nonFs(532): Test TestCasesStructuralTranslocations.test01_0_nonFs(286): Test TestCasesStructuralTranslocations.test01_0(260): Test TestCasesStructuralTranslocations.test01_1(314): Test TestCasesStructuralTranslocations.test01_2(341): Test TestCasesStructuralTranslocations.test01_3(368): Test TestCasesStructuralTranslocations.test02_0(423): Test TestCasesStructuralTranslocations.test02_1(450): Test TestCasesStructuralTranslocations.test02_2(505): Test TestCasesStructuralTranslocations.test02_3(560): Test TestCasesStructuralTranslocations.test03_0(587): Test TestCasesStructuralTranslocations.test03_1(614): Test TestCasesStructuralTranslocations.test03_2(669): Test TestCasesStructuralTranslocations.test03_3(724): Test TestCasesStructuralTranslocations.test04_0(751): Test TestCasesStructuralTranslocations.test04_1(806): Test TestCasesStructuralTranslocations.test04_2(833): Test TestCasesStructuralTranslocations.test04_3(860): Test TestCasesStructuralTranslocations.test05_2_one_gene(951): Test TestCasesStructuralTranslocations.test04_3_nonFs(887): Test TestCasesStructuralTranslocations.test03_1_nonFs(641): Test TestCasesStructuralTranslocations.test05_1_one_gene(919): Test TestCasesStructuralTranslocations.test03_2_nonFs(696): Test TestCasesStructuralTranslocations.test01_3_noFs(395): Test TestCasesStructuralTranslocations.test04_0_nonFs(778): Test TestCasesStructuralTranslocations.test02_1_nonFs(477): Test TestCasesStructuralTranslocations.test06_no_gene(981): Test [INFO] Tests run: 27, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 43.434 s - in org.snpeff.snpEffect.testCases.unity.TestCasesStructuralTranslocations [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntervals TestCasesIntervals.test_00(140): Test TestCasesIntervals.test_01(152): Test TestCasesIntervals.test_02(163): Test TestCasesIntervals.test_03(175): Test TestCasesIntervals.test_04(187): Test TestCasesIntervals.test_05(200): Test TestCasesIntervals.test_06(231): Test TestCasesIntervals.test_08(392): Test TestCasesIntervals.test_10_chrOrder(475): Test TestCasesIntervals.test_09_chrOrder(460): Test TestCasesIntervals.test_07_01(271): Test TestCasesIntervals.test_07_02(292): Test TestCasesIntervals.test_07_03(313): Test TestCasesIntervals.test_07_04(337): Test TestCasesIntervals.test_07_05(362): Test TestCasesIntervals.test_08_02(413): Test TestCasesIntervals.test_08_03(438): Test [INFO] Tests run: 17, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 12.737 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntervals [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHgvsDnaDupNegative TestCasesHgvsDnaDupNegative.test_01(34): Test TestCasesHgvsDnaDupNegative.test_02(61): Test TestCasesHgvsDnaDupNegative.test_03(91): Test TestCasesHgvsDnaDupNegative.test_04(122): Test [INFO] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.854 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHgvsDnaDupNegative [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDnaOverlap TestCasesDnaOverlap.test_10_overlap(332): Test TestCasesDnaOverlap.test_07_overlap(297): Test TestCasesDnaOverlap.test_12_overlap(356): Test TestCasesDnaOverlap.test_09_overlap(320): Test TestCasesDnaOverlap.test_17_overlap_rand(459): Test Overlap random test: .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ................................................................................................... Done. TestCasesDnaOverlap.test_15_DnaCoder_copy_1(380): Test .........TestCasesDnaOverlap.test_11_overlap(344): Test TestCasesDnaOverlap.test_08_overlap(308): Test TestCasesDnaOverlap.test_18_DnaCoder_score_rand(474): Test DnaCoder.score test: .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ...................................................................................................Done. TestCasesDnaOverlap.test_13_overlap(368): Test TestCasesDnaOverlap.test_19_score_threshold_rand(493): Test Score (threshold) random test: .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 ................................................................................................... Done. TestCasesDnaOverlap.test_16_DnaCoder_copy_2(438): Test .................................................................................[INFO] Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 14.938 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDnaOverlap [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesBinomial TestCasesBinomial.test_01(86): Test TestCasesBinomial.test_02(191): Test TestCasesBinomial.test_03(299): Test [INFO] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.008 s - in org.snpeff.snpEffect.testCases.unity.TestCasesBinomial [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDnaSequence TestCasesDnaSequence.test_02_long_replaceBase(277): Test TestCasesDnaSequence.test_05_fastqReader(320): Test TestCasesDnaSequence.test_06_quality_long(349): Test TestCasesDnaSequence.test_02_long_getBases(267): Test TestCasesDnaSequence.test_01_short_getBases(228): Test TestCasesDnaSequence.test_01_short(209): Test TestCasesDnaSequence.test_02_long(248): Test TestCasesDnaSequence.test_05_quality_short(340): Test TestCasesDnaSequence.test_02_long_getBase(257): Test TestCasesDnaSequence.test_01_short_getBase(218): Test TestCasesDnaSequence.test_04_Pe(287): Test TestCasesDnaSequence.test_01_short_replaceBase(238): Test [INFO] Tests run: 12, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 7.507 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDnaSequence [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesSpliceRegion TestCasesSpliceRegion.test_01(33): Test ..................[INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.52 s - in org.snpeff.snpEffect.testCases.unity.TestCasesSpliceRegion [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesNextProt TestCasesNextProt.test_10_nextprotFactory(205): Test TestCasesNextProt.test_09_nextprotFactory(182): Test TestCasesNextProt.test_06_nextprotFactory(116): Test TestCasesNextProt.test_14(304): Test TestCasesNextProt.test_15(322): Test TestCasesNextProt.test_16(340): Test TestCasesNextProt.test_17(358): Test TestCasesNextProt.test_18(376): Test TestCasesNextProt.test_19(394): Test TestCasesNextProt.test_03_nextprotFactory(60): Test TestCasesNextProt.test_11_nextprotFactory(228): Test TestCasesNextProt.test_07_nextprotFactory(136): Test TestCasesNextProt.test_04_nextprotFactory(80): Test TestCasesNextProt.test_01_nextprotFactory(24): Test TestCasesNextProt.test_12_nextprotFactory(251): Test TestCasesNextProt.test_08_nextprotFactory(159): Test TestCasesNextProt.test_05_nextprotFactory(98): Test TestCasesNextProt.test_02_nextprotFactory(42): Test TestCasesNextProt.test_13_nextprotFactory(277): Test [INFO] Tests run: 19, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.02 s - in org.snpeff.snpEffect.testCases.unity.TestCasesNextProt [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesApplyDel TestCasesApplyDel.test_apply_variant_01(21): Test TestCasesApplyDel.test_apply_variant_02(31): Test TestCasesApplyDel.test_apply_variant_03(42): Test TestCasesApplyDel.test_apply_variant_04(59): Test TestCasesApplyDel.test_apply_variant_05(77): Test TestCasesApplyDel.test_apply_variant_06(95): Test TestCasesApplyDel.test_apply_variant_07(113): Test TestCasesApplyDel.test_apply_variant_08(131): Test TestCasesApplyDel.test_apply_variant_09(142): Test TestCasesApplyDel.test_apply_variant_10(153): Test TestCasesApplyDel.test_apply_variant_11(176): Test TestCasesApplyDel.test_apply_variant_12(199): Test TestCasesApplyDel.test_apply_variant_13(223): Test [INFO] Tests run: 13, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.459 s - in org.snpeff.snpEffect.testCases.unity.TestCasesApplyDel [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDels TestCasesDels.test_01(138): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.66 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDels [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesMnps TestCasesMnps.test_01(187): Test .................................................................................................... 100 .................................................................................................... 200 .................................................................................................... 300 .................................................................................................... 400 .................................................................................................... 500 .................................................................................................... 600 .................................................................................................... 700 .................................................................................................... 800 .................................................................................................... 900 .................................................................................................... 1000 [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 14.82 s - in org.snpeff.snpEffect.testCases.unity.TestCasesMnps [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesGenotypeVector TestCasesGenotypeVector.test_01(23): Test TestCasesGenotypeVector.test_02(48): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 s - in org.snpeff.snpEffect.testCases.unity.TestCasesGenotypeVector [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesCochranArmitage TestCasesCochranArmitage.test_01(18): Test TestCasesCochranArmitage.test_02(28): Test TestCasesCochranArmitage.test_03(37): Test TestCasesCochranArmitage.test_04(46): Test TestCasesCochranArmitage.test_05(57): Test [INFO] Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 s - in org.snpeff.snpEffect.testCases.unity.TestCasesCochranArmitage [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesSeekableReader TestCasesSeekableReader.test_00(59): Test TestCasesSeekableReader.test_01(71): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.072 s - in org.snpeff.snpEffect.testCases.unity.TestCasesSeekableReader [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesChiSquare TestCasesChiSquare.test_1(26): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 s - in org.snpeff.snpEffect.testCases.unity.TestCasesChiSquare [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTreeOri TestCasesIntervalTree.test_01(141): Test . 0 .................................................................................................... 10000 .................................................................................................... 20000 .................................................................................................... 30000 .................................................................................................... 40000 .................................................................................................... 50000 .................................................................................................... 60000 .................................................................................................... 70000 .................................................................................................... 80000 .................................................................................................... 90000 ................................................................................................... TestCasesIntervalTree.test_02(164): Test . 0 .................................................................................................... 1000 .................................................................................................... 2000 .................................................................................................... 3000 .................................................................................................... 4000 .................................................................................................... 5000 .................................................................................................... 6000 .................................................................................................... 7000 .................................................................................................... 8000 .................................................................................................... 9000 ................................................................................................... [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 6.627 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntervalTreeOri [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesGenomicSequences [WARNING] Tests run: 2, Failures: 0, Errors: 0, Skipped: 2, Time elapsed: 0 s - in org.snpeff.snpEffect.testCases.unity.TestCasesGenomicSequences [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesAnnParse TestCasesAnnParse.test_EffectType(29): Test TestCasesAnnParse.test_old_SO(45): Test TestCasesAnnParse.test_old_SO_vcf(53): Test TestCasesAnnParse.testCase_tfbs_ablation(71): Test [INFO] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.843 s - in org.snpeff.snpEffect.testCases.unity.TestCasesAnnParse [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesJaspar TestCasesJaspar.test_01(22): Test TestCasesJaspar.test_02(56): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.033 s - in org.snpeff.snpEffect.testCases.unity.TestCasesJaspar [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesEffectCollapse2 TestCasesEffectCollapse2.test_01(40): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.464 s - in org.snpeff.snpEffect.testCases.unity.TestCasesEffectCollapse2 [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesVariantDecompose TestCasesVariantDecompose.test_00_decomposeVariant_01(35): Test TestCasesVariantDecompose.test_00_decomposeVariant_02(45): Test [INFO] Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 s - in org.snpeff.snpEffect.testCases.unity.TestCasesVariantDecompose [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesCircular TestCasesCircular.test_circular_01(26): Test TestCasesCircular.test_circular_02(54): Test TestCasesCircular.test_circular_03(83): Test TestCasesCircular.test_circular_04(103): Test [INFO] Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 s - in org.snpeff.snpEffect.testCases.unity.TestCasesCircular [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDnaNSequence TestCasesDnaNSequence.test_02_long_replaceBase(243): Test TestCasesDnaNSequence.test_13_reverseWc(253): Test TestCasesDnaNSequence.test_02_long_getBases(233): Test TestCasesDnaNSequence.test_01_short_getBases(194): Test TestCasesDnaNSequence.test_01_short(175): Test TestCasesDnaNSequence.test_02_long(214): Test TestCasesDnaNSequence.test_02_long_getBase(223): Test TestCasesDnaNSequence.test_01_short_getBase(184): Test TestCasesDnaNSequence.test_01_short_replaceBase(204): Test [INFO] Tests run: 9, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 4.202 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDnaNSequence [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesHypergeometric TestCasesHypergeometric.test_0(77): Test TestCasesHypergeometric.test_01_hyper(83): Test TestCasesHypergeometric.test_02_hyper(202): Test [INFO] Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.001 s - in org.snpeff.snpEffect.testCases.unity.TestCasesHypergeometric [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesIntergenic TestCasesIntergenic.test_01(30): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.479 s - in org.snpeff.snpEffect.testCases.unity.TestCasesIntergenic [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesDnaSequenceByte TestCasesDnaSequenceByte.test_01(18): Test [INFO] Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.112 s - in org.snpeff.snpEffect.testCases.unity.TestCasesDnaSequenceByte [INFO] Running org.snpeff.snpEffect.testCases.unity.TestCasesStructuralDel TestCasesStructuralDel.test02(249): Test TestCasesStructuralDel.test03(266): Test TestCasesStructuralDel.test04(283): Test TestCasesStructuralDel.test05(302): Test TestCasesStructuralDel.test06(321): Test TestCasesStructuralDel.test07(342): Test TestCasesStructuralDel.test08(360): Test TestCasesStructuralDel.test09(379): Test TestCasesStructuralDel.test10(398): Test TestCasesStructuralDel.test01_delTr(230): Test TestCasesStructuralDel.test01_delGene(212): Test [INFO] Tests run: 11, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 5.176 s - in org.snpeff.snpEffect.testCases.unity.TestCasesStructuralDel [INFO] [INFO] Results: [INFO] [WARNING] Tests run: 408, Failures: 0, Errors: 0, Skipped: 5 [INFO] [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 07:10 min [INFO] Finished at: 2025-12-14T06:56:06-12:00 [INFO] ------------------------------------------------------------------------ create-stamp debian/debhelper-build-stamp dh_prep dh_auto_install /usr/lib/jvm/default-java/bin/java -noverify -cp /usr/share/maven/boot/plexus-classworlds-2.x.jar -Dmaven.home=/usr/share/maven -Dmaven.multiModuleProjectDirectory=/build/reproducible-path/snpeff-5.2.e\+dfsg -Dclassworlds.conf=/etc/maven/m2-debian.conf org.codehaus.plexus.classworlds.launcher.Launcher -s/etc/maven/settings-debian.xml -Ddebian.dir=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian -Dmaven.repo.local=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian/maven-repo --batch-mode -Ddebian.dir=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian -Ddebian.package=libsnpeff-java -Dmaven.repo.local=/build/reproducible-path/snpeff-5.2.e\+dfsg/debian/maven-repo -Dinstall.to.usj=true org.debian.maven:debian-maven-plugin:2.6:install OpenJDK 64-Bit Server VM warning: Options -Xverify:none and -noverify were deprecated in JDK 13 and will likely be removed in a future release. [INFO] Scanning for projects... [INFO] [INFO] -------------------------< org.snpeff:snpeff >-------------------------- [INFO] Building SnpEff 5.2 [INFO] from pom.xml [INFO] --------------------------------[ jar ]--------------------------------- [INFO] [INFO] --- debian-maven-plugin:2.6:install (default-cli) @ snpeff --- [INFO] Cleaning pom file: /build/reproducible-path/snpeff-5.2.e+dfsg/pom.xml.save with options: [INFO] --keep-pom-version --package=libsnpeff-java [INFO] --rules=/build/reproducible-path/snpeff-5.2.e+dfsg/debian/maven.rules [INFO] --ignore-rules=/build/reproducible-path/snpeff-5.2.e+dfsg/debian/maven.ignoreRules [INFO] --published-rules=/build/reproducible-path/snpeff-5.2.e+dfsg/debian/maven.publishedRules [INFO] Install jar for snpeff into /usr/share/java [INFO] ------------------------------------------------------------------------ [INFO] BUILD SUCCESS [INFO] ------------------------------------------------------------------------ [INFO] Total time: 0.426 s [INFO] Finished at: 2025-12-14T06:56:07-12:00 [INFO] ------------------------------------------------------------------------ mh_resolve_dependencies --non-interactive --offline --build -plibsnpeff-java --javadoc --base-directory=/build/reproducible-path/snpeff-5.2.e\+dfsg --non-explore Failed to parse /usr/share/maven-repo/org/biojava/biojava-structure/6.1.0/biojava-structure-6.1.0.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.repo.Repository.scanOnce(Repository.java:196) at org.debian.maven.repo.POMTransformer.usePluginVersionsFromRepository(POMTransformer.java:107) at org.debian.maven.packager.DependenciesSolver.main(DependenciesSolver.java:907) Failed to parse /usr/share/maven-repo/org/biojava/biojava-structure/6.x/biojava-structure-6.x.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.repo.Repository.scanOnce(Repository.java:196) at org.debian.maven.repo.POMTransformer.usePluginVersionsFromRepository(POMTransformer.java:107) at org.debian.maven.packager.DependenciesSolver.main(DependenciesSolver.java:907) Failed to parse /usr/share/maven-repo/org/biojava/biojava-structure/6.1.0/biojava-structure-6.1.0.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.packager.DependenciesSolver.getRepository(DependenciesSolver.java:231) at org.debian.maven.packager.DependenciesSolver.solveDependencies(DependenciesSolver.java:237) at org.debian.maven.packager.DependenciesSolver.main(DependenciesSolver.java:922) Failed to parse /usr/share/maven-repo/org/biojava/biojava-structure/6.x/biojava-structure-6.x.pom javax.xml.stream.XMLStreamException: ParseError at [row,col]:[117,21] Message: Element type "debian.org.rcsb." must be followed by either attribute specifications, ">" or "/>". at java.xml/com.sun.org.apache.xerces.internal.impl.XMLStreamReaderImpl.next(XMLStreamReaderImpl.java:652) at org.debian.maven.repo.POMReader.readPom(POMReader.java:82) at org.debian.maven.repo.POMReader.readPom(POMReader.java:57) at org.debian.maven.repo.Repository.scan(Repository.java:397) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:394) at org.debian.maven.repo.Repository.scan(Repository.java:201) at org.debian.maven.packager.DependenciesSolver.getRepository(DependenciesSolver.java:231) at org.debian.maven.packager.DependenciesSolver.solveDependencies(DependenciesSolver.java:237) at org.debian.maven.packager.DependenciesSolver.main(DependenciesSolver.java:922) Analysing pom.xml... > dpkg --search /usr/share/maven-repo/org/biojava/biojava-structure/*/* Found /usr/share/maven-repo/org/biojava/biojava-structure/6.x/biojava-structure-6.x.pom in libbiojava6-java Found /usr/share/maven-repo/org/biojava/biojava-structure/6.1.0/biojava-structure-6.1.0.pom in libbiojava6-java > dpkg --status libbiojava6-java [error] Package libbiojava6-java (6.1.0+dfsg) is already installed and contains a possible match, but I cannot resolve library org.biojava:biojava-structure:jar:6.x in it. [error] Please check manually that the library is up to date, otherwise it may be necessary to package version 6.x in Debian. Dec 14, 2025 6:56:18 AM org.debian.maven.packager.DependenciesSolver$ToResolve resolve SEVERE: Cannot resolve dependencies in /build/reproducible-path/snpeff-5.2.e+dfsg/pom.xml: Dependency not found org.biojava:biojava-structure:jar:6.x ERROR: pom.xml: dependency is not packaged in the Maven repository for Debian: org.biojava:biojava-structure:6.x -------- Checking dependencies for documentation packages... > dpkg --search /usr/share/doc/libapfloat-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libapfloat-java/api/index.html > dpkg --search /usr/share/doc/libapfloat-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libapfloat-java-doc/api/index.html > dpkg --search /usr/share/doc/libapfloat-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libapfloat-java/apidocs/index.html > dpkg --search /usr/share/doc/libapfloat-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libapfloat-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libbiojava6-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libbiojava6-java/api/index.html > dpkg --search /usr/share/doc/libbiojava6-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libbiojava6-java-doc/api/index.html > dpkg --search /usr/share/doc/libbiojava6-java/apidocs/index.html Found libbiojava6-java-doc > dpkg --search /usr/share/doc/libcharts4j-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcharts4j-java/api/index.html > dpkg --search /usr/share/doc/libcharts4j-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcharts4j-java-doc/api/index.html > dpkg --search /usr/share/doc/libcharts4j-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcharts4j-java/apidocs/index.html > dpkg --search /usr/share/doc/libcharts4j-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcharts4j-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-cli-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-cli-java/api/index.html > dpkg --search /usr/share/doc/libcommons-cli-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-cli-java-doc/api/index.html > dpkg --search /usr/share/doc/libcommons-cli-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-cli-java/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-cli-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-cli-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-codec-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-codec-java/api/index.html > dpkg --search /usr/share/doc/libcommons-codec-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-codec-java-doc/api/index.html > dpkg --search /usr/share/doc/libcommons-codec-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-codec-java/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-codec-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-codec-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-io-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-io-java/api/index.html > dpkg --search /usr/share/doc/libcommons-io-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-io-java-doc/api/index.html > dpkg --search /usr/share/doc/libcommons-io-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-io-java/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-io-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-io-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-math3-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-math3-java/api/index.html > dpkg --search /usr/share/doc/libcommons-math3-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-math3-java-doc/api/index.html > dpkg --search /usr/share/doc/libcommons-math3-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-math3-java/apidocs/index.html > dpkg --search /usr/share/doc/libcommons-math3-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libcommons-math3-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libdistlib-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libdistlib-java/api/index.html > dpkg --search /usr/share/doc/libdistlib-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libdistlib-java-doc/api/index.html > dpkg --search /usr/share/doc/libdistlib-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libdistlib-java/apidocs/index.html > dpkg --search /usr/share/doc/libdistlib-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libdistlib-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libfreemarker-java/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libfreemarker-java/api/index.html > dpkg --search /usr/share/doc/libfreemarker-java-doc/api/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libfreemarker-java-doc/api/index.html > dpkg --search /usr/share/doc/libfreemarker-java/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libfreemarker-java/apidocs/index.html > dpkg --search /usr/share/doc/libfreemarker-java-doc/apidocs/index.html dpkg failed to execute successfully Offline mode. Give up looking for package containing /usr/share/doc/libfreemarker-java-doc/apidocs/index.html > dpkg --search /usr/share/doc/libtrove3-java/api/index.html Found libtrove3-java-doc Some problems were found in this project, exiting... bash -c "rm -f target/apidocs/*.sh target/apidocs/options" mh_unpatchpoms -plibsnpeff-java dh_install jh_installjavadoc dh_installdocs dh_installchangelogs dh_installman dh_lintian dh_perl dh_link jh_installlibs jh_classpath jh_manifest jh_exec jh_depends dh_strip_nondeterminism dh_compress dh_fixperms dh_missing dh_installdeb dh_gencontrol dpkg-gencontrol: warning: package libsnpeff-java: substitution variable ${java:Depends} unused, but is defined dpkg-gencontrol: warning: package libsnpeff-java: substitution variable ${maven:CompileDepends} unused, but is defined dpkg-gencontrol: warning: package libsnpeff-java: substitution variable ${maven:DocDepends} unused, but is defined dpkg-gencontrol: warning: package libsnpeff-java-doc: substitution variable ${maven:CompileDepends} unused, but is defined dpkg-gencontrol: warning: package libsnpeff-java-doc: substitution variable ${maven:Depends} unused, but is defined dpkg-gencontrol: warning: package libsnpeff-java-doc: substitution variable ${maven:DocDepends} unused, but is defined dh_md5sums dh_builddeb dpkg-deb: building package 'libsnpeff-java' in '../libsnpeff-java_5.2.e+dfsg-1_all.deb'. dpkg-deb: building package 'snpeff' in '../snpeff_5.2.e+dfsg-1_all.deb'. dpkg-deb: building package 'libsnpeff-java-doc' in '../libsnpeff-java-doc_5.2.e+dfsg-1_all.deb'. dpkg-genbuildinfo --build=binary -O../snpeff_5.2.e+dfsg-1_amd64.buildinfo dpkg-genchanges --build=binary -O../snpeff_5.2.e+dfsg-1_amd64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: including full source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/921916 and its subdirectories I: Current time: Sun Dec 14 06:59:39 -12 2025 I: pbuilder-time-stamp: 1765738779 Mon Nov 11 12:36:41 UTC 2024 I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net. Mon Nov 11 12:36:41 UTC 2024 I: Preparing to do remote build '2' on ionos1-amd64.debian.net. Mon Nov 11 13:27:00 UTC 2024 I: Deleting $TMPDIR on ionos1-amd64.debian.net. Mon Nov 11 13:27:01 UTC 2024 I: snpeff_5.2.e+dfsg-1_amd64.changes: Format: 1.8 Date: Sat, 05 Oct 2024 22:58:54 +0200 Source: snpeff Binary: libsnpeff-java libsnpeff-java-doc snpeff Architecture: all Version: 5.2.e+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team Changed-By: Pierre Gruet Description: libsnpeff-java - genetic variant annotation and effect prediction toolbox - lib libsnpeff-java-doc - Documentation for Snp Effect snpeff - genetic variant annotation and effect prediction toolbox - tool Changes: snpeff (5.2.e+dfsg-1) unstable; urgency=medium . * New upstream version 5.2.e+dfsg * Refreshing patches * Raising Standards version to 4.7.0 (no change) * Updating the list of files to remove when repacking Checksums-Sha1: 94ad456baf838f565335bfe3622342482b5528a9 1295320 libsnpeff-java-doc_5.2.e+dfsg-1_all.deb 98759bce8435eab6bdeb06f448490ed1c657bd12 2156680 libsnpeff-java_5.2.e+dfsg-1_all.deb bbee30fdef9ded36d4645b0afca4cdb886c79eb5 7200 snpeff_5.2.e+dfsg-1_all.deb 84d6ad6b757cd4b6930baa4d50ed1bbc660e669f 18882 snpeff_5.2.e+dfsg-1_amd64.buildinfo Checksums-Sha256: 5b3a22146f5e52177369c106cf659d5c7d5338a5ac7d8b17f494e7ceac525c78 1295320 libsnpeff-java-doc_5.2.e+dfsg-1_all.deb fd64d995caf6c62caf977f99d25b8c898f9dc9ca5eb241cbc6810ca02c7e00b0 2156680 libsnpeff-java_5.2.e+dfsg-1_all.deb b8db14e0b4becc31bbb9d81de8e45f63c0f836a24bc2b5cfcda6efeb88d71ea5 7200 snpeff_5.2.e+dfsg-1_all.deb ae52b040323542716a664eaa2e77b1af899112410f565a2dcc6fe36760915d5a 18882 snpeff_5.2.e+dfsg-1_amd64.buildinfo Files: f4827a583717b69f2b975cb08d605d20 1295320 doc optional libsnpeff-java-doc_5.2.e+dfsg-1_all.deb dedc074ed6635c251642b0f708af939c 2156680 java optional libsnpeff-java_5.2.e+dfsg-1_all.deb fafc1461e175421c7515c220ab6f3a44 7200 java optional snpeff_5.2.e+dfsg-1_all.deb f4c27a59310135fa98167837339454c3 18882 java optional snpeff_5.2.e+dfsg-1_amd64.buildinfo Mon Nov 11 13:27:03 UTC 2024 I: diffoscope 283 will be used to compare the two builds: Running as unit: rb-diffoscope-amd64_20-35606.service # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/snpeff_5.2.e+dfsg-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/snpeff_5.2.e+dfsg-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/snpeff_5.2.e+dfsg-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/b1/snpeff_5.2.e+dfsg-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.TBcunwYl/b2/snpeff_5.2.e+dfsg-1_amd64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call abc.DotChangesFile ## main (total time: 0.455s) 0.455s 2 calls outputs 0.000s 1 call cleanup ## recognizes (total time: 0.055s) 0.055s 12 calls diffoscope.comparators.binary.FilesystemFile ## specialize (total time: 0.000s) 0.000s 1 call specialize Finished with result: success Main processes terminated with: code=exited/status=0 Service runtime: 814ms CPU time consumed: 815ms Mon Nov 11 13:27:06 UTC 2024 I: diffoscope 283 found no differences in the changes files, and a .buildinfo file also exists. Mon Nov 11 13:27:06 UTC 2024 I: snpeff from trixie built successfully and reproducibly on amd64. Mon Nov 11 13:27:07 UTC 2024 I: Submitting .buildinfo files to external archives: Mon Nov 11 13:27:07 UTC 2024 I: Submitting 20K b1/snpeff_5.2.e+dfsg-1_amd64.buildinfo.asc Mon Nov 11 13:27:08 UTC 2024 I: Submitting 20K b2/snpeff_5.2.e+dfsg-1_amd64.buildinfo.asc Mon Nov 11 13:27:09 UTC 2024 I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit. Mon Nov 11 13:27:09 UTC 2024 I: Done submitting .buildinfo files. Mon Nov 11 13:27:09 UTC 2024 I: Removing signed snpeff_5.2.e+dfsg-1_amd64.buildinfo.asc files: removed './b1/snpeff_5.2.e+dfsg-1_amd64.buildinfo.asc' removed './b2/snpeff_5.2.e+dfsg-1_amd64.buildinfo.asc'