Reading package lists... Building dependency tree... Reading state information... NOTICE: 'biojava3-live' packaging is maintained in the 'Svn' version control system at: svn://anonscm.debian.org/debian-med/trunk/packages/biojava3/trunk/ Need to get 7,196 kB of source archives. Get:1 http://urika:3142/ftp.debian.org/debian/ sid/main biojava3-live 3.1.0+dfsg-2 (dsc) [2,577 B] Get:2 http://urika:3142/ftp.debian.org/debian/ sid/main biojava3-live 3.1.0+dfsg-2 (tar) [7,184 kB] Get:3 http://urika:3142/ftp.debian.org/debian/ sid/main biojava3-live 3.1.0+dfsg-2 (diff) [9,948 B] gpgv: keyblock resource `/tmp/.gnupg/trustedkeys.gpg': file open error gpgv: Signature made Tue 18 Nov 2014 07:29:45 PM UTC using RSA key ID 326D8438 gpgv: Can't check signature: public key not found dpkg-source: warning: failed to verify signature on ./biojava3-live_3.1.0+dfsg-2.dsc dpkg-source: info: extracting biojava3-live in biojava3-live-3.1.0+dfsg dpkg-source: info: unpacking biojava3-live_3.1.0+dfsg.orig.tar.bz2 dpkg-source: info: unpacking biojava3-live_3.1.0+dfsg-2.debian.tar.xz dpkg-source: info: applying use_simple_json dpkg-source: info: applying fix_ascii_characters_mapping dpkg-source: info: applying skip_network_related_tests dpkg-source: info: applying fix_itext_class_updates dpkg-source: warning: unexpected end of diff 'biojava3-live-3.1.0+dfsg/debian/patches/java8_compatibility.patch' dpkg-source: info: applying java8_compatibility.patch Fetched 7,196 kB in 0s (27.0 MB/s) Reading package lists... Building dependency tree... Reading state information... The following NEW packages will be installed: icedtea-netx icedtea-netx-common libitext5-java libjmol-java libjson-simple-java openjdk-7-jre openjdk-7-jre-headless 0 upgraded, 7 newly installed, 0 to remove and 0 not upgraded. Need to get 11.6 MB/51.5 MB of archives. After this operation, 71.5 MB of additional disk space will be used. Get:1 http://urika:3142/ftp.debian.org/debian/ sid/main libitext5-java all 5.5.6-1 [2,154 kB] Get:2 http://urika:3142/ftp.debian.org/debian/ sid/main libjmol-java all 12.2.32+dfsg2-1 [8,308 kB] Get:3 http://urika:3142/ftp.debian.org/debian/ sid/main icedtea-netx-common all 1.5.2-1.1 [1,128 kB] Get:4 http://urika:3142/ftp.debian.org/debian/ sid/main icedtea-netx amd64 1.5.2-1.1 [25.0 kB] Get:5 http://urika:3142/ftp.debian.org/debian/ sid/main libjson-simple-java all 1.1.1-3 [26.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 11.6 MB in 0s (45.1 MB/s) Selecting previously unselected package openjdk-7-jre-headless: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 ... 82591 files and directories currently installed.) Preparing to unpack .../openjdk-7-jre-headless_7u79-2.5.6-1_amd64.deb ... Unpacking openjdk-7-jre-headless:amd64 (7u79-2.5.6-1) ... Selecting previously unselected package libitext5-java. Preparing to unpack .../libitext5-java_5.5.6-1_all.deb ... Unpacking libitext5-java (5.5.6-1) ... Selecting previously unselected package libjmol-java. Preparing to unpack .../libjmol-java_12.2.32+dfsg2-1_all.deb ... Unpacking libjmol-java (12.2.32+dfsg2-1) ... Selecting previously unselected package openjdk-7-jre:amd64. Preparing to unpack .../openjdk-7-jre_7u79-2.5.6-1_amd64.deb ... Unpacking openjdk-7-jre:amd64 (7u79-2.5.6-1) ... Selecting previously unselected package icedtea-netx-common. Preparing to unpack .../icedtea-netx-common_1.5.2-1.1_all.deb ... Unpacking icedtea-netx-common (1.5.2-1.1) ... Selecting previously unselected package icedtea-netx:amd64. Preparing to unpack .../icedtea-netx_1.5.2-1.1_amd64.deb ... Unpacking icedtea-netx:amd64 (1.5.2-1.1) ... Selecting previously unselected package libjson-simple-java. Preparing to unpack .../libjson-simple-java_1.1.1-3_all.deb ... Unpacking libjson-simple-java (1.1.1-3) ... Processing triggers for hicolor-icon-theme (0.13-1) ... Processing triggers for mime-support (3.59) ... Processing triggers for man-db (2.7.2-1) ... Setting up openjdk-7-jre-headless:amd64 (7u79-2.5.6-1) ... update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/rmid to provide /usr/bin/rmid (rmid) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/java to provide /usr/bin/java (java) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/keytool to provide /usr/bin/keytool (keytool) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/pack200 to provide /usr/bin/pack200 (pack200) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/rmiregistry to provide /usr/bin/rmiregistry (rmiregistry) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/unpack200 to provide /usr/bin/unpack200 (unpack200) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/orbd to provide /usr/bin/orbd (orbd) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/servertool to provide /usr/bin/servertool (servertool) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/tnameserv to provide /usr/bin/tnameserv (tnameserv) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/lib/jexec to provide /usr/bin/jexec (jexec) in auto mode mount: permission denied update-binfmts: warning: Couldn't mount the binfmt_misc filesystem on /proc/sys/fs/binfmt_misc. Setting up libitext5-java (5.5.6-1) ... Setting up libjmol-java (12.2.32+dfsg2-1) ... Setting up openjdk-7-jre:amd64 (7u79-2.5.6-1) ... update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/policytool to provide /usr/bin/policytool (policytool) in auto mode Setting up icedtea-netx-common (1.5.2-1.1) ... Setting up icedtea-netx:amd64 (1.5.2-1.1) ... update-alternatives: using /usr/lib/jvm/java-6-openjdk-amd64/jre/bin/javaws to provide /usr/bin/javaws (javaws) in auto mode update-alternatives: using /usr/lib/jvm/java-6-openjdk-amd64/jre/bin/itweb-settings to provide /usr/bin/itweb-settings (itweb-settings) in auto mode update-alternatives: warning: not replacing /usr/share/man/man1/itweb-settings.1.gz with a link update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/javaws to provide /usr/bin/javaws (javaws) in auto mode update-alternatives: using /usr/lib/jvm/java-7-openjdk-amd64/jre/bin/itweb-settings to provide /usr/bin/itweb-settings (itweb-settings) in auto mode update-alternatives: warning: not replacing /usr/share/man/man1/itweb-settings.1.gz with a link Setting up libjson-simple-java (1.1.1-3) ... Processing triggers for libc-bin (2.19-19) ... Killed old client process Internet Systems Consortium DHCP Client 4.3.2 Copyright 2004-2015 Internet Systems Consortium. All rights reserved. For info, please visit https://www.isc.org/software/dhcp/ Listening on LPF/eth0/66:ea:6c:75:f3:19 Sending on LPF/eth0/66:ea:6c:75:f3:19 Sending on Socket/fallback DHCPRELEASE on eth0 to 10.0.3.1 port 67 dpkg-buildpackage: source package biojava3-live dpkg-buildpackage: source version 3.1.0+dfsg-2 dpkg-buildpackage: source distribution unstable dpkg-buildpackage: source changed by Olivier Sallou dpkg-source --before-build biojava3-live-3.1.0+dfsg dpkg-buildpackage: host architecture amd64 debian/rules clean dh clean --with javahelper dh_testdir dh_auto_clean jh_clean debian/rules override_dh_clean make[1]: Entering directory '/biojava3-live-3.1.0+dfsg' dh_clean rm -rf build rm -rf dist rm -rf javadoc rm -rf test rm -f biojava3-*/build.xml rm -rf biojavadoc rm -rf doc make[1]: Leaving directory '/biojava3-live-3.1.0+dfsg' dpkg-source -b biojava3-live-3.1.0+dfsg dpkg-source: info: using source format '3.0 (quilt)' dpkg-source: info: building biojava3-live using existing ./biojava3-live_3.1.0+dfsg.orig.tar.bz2 dpkg-source: info: building biojava3-live in biojava3-live_3.1.0+dfsg-2.debian.tar.xz dpkg-source: info: building biojava3-live in biojava3-live_3.1.0+dfsg-2.dsc debian/rules build dh build --with javahelper dh_testdir debian/rules override_dh_auto_configure make[1]: Entering directory '/biojava3-live-3.1.0+dfsg' dh_auto_configure sed -e 's/BJLIB/biojava3-forester/g' debian/build.xml > biojava3-forester/build.xml sed -e 's/BJLIB/biojava3-aa-prop/g' debian/build.xml > biojava3-aa-prop/build.xml sed -e 's/BJLIB/biojava3-core/g' debian/build.xml > biojava3-core/build.xml sed -e 's/BJLIB/biojava3-alignment/g' debian/build.xml > biojava3-alignment/build.xml sed -e 's/BJLIB/biojava3-genome/g' debian/build.xml > biojava3-genome/build.xml sed -e 's/BJLIB/biojava3-modfinder/g' debian/build.xml > biojava3-modfinder/build.xml sed -e 's/BJLIB/biojava3-phylo/g' debian/build.xml > biojava3-phylo/build.xml sed -e 's/BJLIB/biojava3-sequencing/g' debian/build.xml > biojava3-sequencing/build.xml sed -e 's/BJLIB/biojava3-protein-disorder/g' debian/build.xml > biojava3-protein-disorder/build.xml sed -e 's/BJLIB/biojava3-structure/g' debian/build.xml > biojava3-structure/build.xml sed -e 's/BJLIB/biojava3-ws/g' debian/build.xml > biojava3-ws/build.xml sed -e 's/BJLIB/biojava3-structure-gui/g' debian/build.xml > biojava3-structure-gui/build.xml make[1]: Leaving directory '/biojava3-live-3.1.0+dfsg' jh_linkjars debian/rules override_dh_auto_build make[1]: Entering directory '/biojava3-live-3.1.0+dfsg' cd biojava3-forester && ant jar Unable to locate tools.jar. Expected to find it in /usr/lib/jvm/java-7-openjdk-amd64/lib/tools.jar Buildfile: /biojava3-live-3.1.0+dfsg/biojava3-forester/build.xml compile: [mkdir] Created dir: /biojava3-live-3.1.0+dfsg/build/biojava3-forester/classes [mkdir] Created dir: /biojava3-live-3.1.0+dfsg/dist [javac] /biojava3-live-3.1.0+dfsg/biojava3-forester/build.xml:72: warning: 'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to false for repeatable builds BUILD FAILED /biojava3-live-3.1.0+dfsg/biojava3-forester/build.xml:72: Unable to find a javac compiler; com.sun.tools.javac.Main is not on the classpath. Perhaps JAVA_HOME does not point to the JDK. It is currently set to "/usr/lib/jvm/java-7-openjdk-amd64/jre" Total time: 0 seconds debian/rules:28: recipe for target 'override_dh_auto_build' failed make[1]: *** [override_dh_auto_build] Error 1 make[1]: Leaving directory '/biojava3-live-3.1.0+dfsg' debian/rules:10: recipe for target 'build' failed make: *** [build] Error 2 dpkg-buildpackage: error: debian/rules build gave error exit status 2