Date: Wed, 25 Sep 2013 07:49:38 GMT From: pkg-fallout@FreeBSD.org To: pkg-fallout@FreeBSD.org Subject: [REL - 83i386-default][science/jmol] Failed for jmol-12.2.23 in build Message-ID: <201309250749.r8P7nchA049547@beefy1.isc.freebsd.org>
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You are receiving this mail as a port that you maintain is failing to build on the FreeBSD package build server. Please investigate the failure and submit a PR to fix build. Maintainer: ports@FreeBSD.org Last committer: bapt@FreeBSD.org Ident: $FreeBSD: head/science/jmol/Makefile 327767 2013-09-20 22:48:30Z bapt $ Log URL: http://beefy1.isc.freebsd.org/bulk/83i386-default/2013-09-25_01h04m56s/logs/jmol-12.2.23.log Build URL: http://beefy1.isc.freebsd.org/bulk/83i386-default/2013-09-25_01h04m56s Log: ====>> Building science/jmol build started at Wed Sep 25 07:48:18 UTC 2013 port directory: /usr/ports/science/jmol building for: FreeBSD 83i386-default-job-03 8.3-RELEASE FreeBSD 8.3-RELEASE i386 maintained by: ports@FreeBSD.org Makefile ident: $FreeBSD: head/science/jmol/Makefile 327767 2013-09-20 22:48:30Z bapt $ Poudriere version: 3.1-pre ---Begin Environment--- UNAME_m=i386 UNAME_p=i386 OSVERSION=803000 UNAME_v=FreeBSD 8.3-RELEASE UNAME_r=8.3-RELEASE FTP_PASSIVE_MODE=YES BLOCKSIZE=K MAIL=/var/mail/root PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/games:/usr/local/sbin:/usr/local/bin:/root/bin STATUS=1 MASTERMNT=/usr/local/poudriere/data/build/83i386-default/ref PKG_EXT=txz tpid=92253 POUDRIERE_BUILD_TYPE=bulk NBPARALLEL=24 PKGNG=1 PKGNAME=jmol-12.2.23 PKG_DELETE=/usr/local/sbin/pkg-static delete -y -f PKG_ADD=/usr/local/sbin/pkg-static add PWD=/root MASTERNAME=83i386-default USER=root HOME=/root POUDRIERE_VERSION=3.1-pre LOCALBASE=/usr/local PACKAGE_BUILDING=yes PKG_VERSION=/poudriere/pkg-static version ---End Environment--- ---Begin OPTIONS List--- ---End OPTIONS List--- --CONFIGURE_ARGS-- --End CONFIGURE_ARGS-- --CONFIGURE_ENV-- TMPDIR="/tmp" TMPDIR="/tmp" SHELL=/bin/sh CONFIG_SHELL=/bin/sh --End CONFIGURE_ENV-- --MAKE_ENV-- TMPDIR="/tmp" JAVA_HOME=/usr/local/openjdk6 TMPDIR="/tmp" SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local LOCALBASE=/usr/local LIBDIR="/usr/lib" CC="cc" CFLAGS="-O2 -pipe -fno-strict-aliasing" CPP="cpp" CPPFLAGS="" LDFLAGS="" CXX="c++" CXXFLAGS="-O2 -pipe -fno-strict-aliasing" MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install -s -o root -g wheel -m 555" BSD_INSTALL_LIB="install -s -o root -g wheel -m 444" BSD_INSTALL_SCRIPT="install -o root -g wheel -m 555" BSD_INSTALL_DATA="install -o root -g wheel -m 444" BSD_INSTALL_MAN="install -o root -g wheel -m 444" --End MAKE_ENV-- --SUB_LIST-- JAVASHAREDIR="/usr/local/share/java" JAVAJARDIR="/usr/local/share/java/classes" JAVALIBDIR="/usr/local/share/java/classes" JAVA_VERSION="1.6+" PREFIX=/usr/local LOCALBASE=/usr/local DATADIR=/usr/local/share/jmol DOCSDIR=/usr/local/share/doc/jmol EXAMPLESDIR=/usr/local/share/examples/jmol WWWDIR=/usr/local/www/jmol ETCDIR=/usr/local/etc/jmol --End SUB_LIST-- ---Begin make.conf--- ARCH=i386 MACHINE=i386 MACHINE_ARCH=i386 USE_PACKAGE_DEPENDS=yes BATCH=yes WRKDIRPREFIX=/wrkdirs PACKAGES=/packages DISTDIR=/distfiles #### /usr/local/etc/poudriere.d/make.conf #### WITH_PKGNG=yes NO_RESTRICTED=yes DISABLE_MAKE_JOBS=yes ---End make.conf--- ===> Cleaning for jmol-12.2.23 =======================<phase: check-config >============================ =========================================================================== =======================<phase: pkg-depends >============================ ===> jmol-12.2.23 depends on file: /usr/local/sbin/pkg - not found ===> Verifying install for /usr/local/sbin/pkg in /usr/ports/ports-mgmt/pkg ===> Installing existing package /packages/All/pkg-1.1.4_5.txz Installing pkg-1.1.4_5... done If you are upgrading from the old package format, first run: # pkg2ng ===> Returning to build of jmol-12.2.23 =========================================================================== =======================<phase: fetch-depends >============================ =========================================================================== =======================<phase: fetch >============================ You may use the following build options: WITHOUT_COMPILE=yes Install the pre-compiled .jar file ===> Fetching all distfiles required by jmol-12.2.23 for building =========================================================================== =======================<phase: checksum >============================ You may use the following build options: WITHOUT_COMPILE=yes Install the pre-compiled .jar file ===> Fetching all distfiles required by jmol-12.2.23 for building => SHA256 Checksum OK for Jmol-12.2.23-full.tar.gz. => SHA256 Checksum OK for selfSignedCertificate.cer. => SHA256 Checksum OK for selfSignedCertificate.store. =========================================================================== =======================<phase: extract-depends>============================ =========================================================================== =======================<phase: extract >============================ You may use the following build options: WITHOUT_COMPILE=yes Install the pre-compiled .jar file ===> Fetching all distfiles required by jmol-12.2.23 for building ===> Extracting for jmol-12.2.23 => SHA256 Checksum OK for Jmol-12.2.23-full.tar.gz. => SHA256 Checksum OK for selfSignedCertificate.cer. => SHA256 Checksum OK for selfSignedCertificate.store. =========================================================================== =======================<phase: patch-depends >============================ =========================================================================== =======================<phase: patch >============================ ===> Patching for jmol-12.2.23 =========================================================================== =======================<phase: build-depends >============================ ===> jmol-12.2.23 depends on file: /usr/local/openjdk6/bin/java - not found ===> Verifying install for /usr/local/openjdk6/bin/java in /usr/ports/java/openjdk6 ===> Installing existing package /packages/All/openjdk6-b27_7.txz Installing openjdk6-b27_7...Installing xproto-7.0.24... done Installing xextproto-7.2.1... done Installing xbitmaps-1.1.1... done Installing renderproto-0.11.1... done Installing recordproto-1.14.2... done Installing printproto-1.0.5... done Installing libxcb-1.9.1...Installing libXdmcp-1.1.1... done Installing libXau-1.0.8... done Installing libxml2-2.8.0_2...Installing pkgconf-0.9.3... done Installing libiconv-1.14_1... done done Installing libpthread-stubs-0.3_3... done done Installing libXtst-1.2.2...Installing libXi-1.7.2,1...Installing libXfixes-5.0.1...Installing libX11-1.6.1,1...Installing kbproto-1.0.6... done done Installing fixesproto-5.0... done done Installing libXext-1.3.2,1... done Installing inputproto-2.3... done done done Installing libXrender-0.9.8... done Installing libXpm-3.5.10...Installing libSM-1.2.1,1...Installing libICE-1.0.8,1... done done Installing libXt-1.1.4,1... done done Installing libXp-1.0.2,1... done Installing open-motif-2.3.4...Installing libXmu-1.1.1,1... done Installing libXaw-1.0.11,2... done Installing libXft-2.3.1...Installing fontconfig-2.10.95,1...Installing expat-2.1.0... done Installing freetype2-2.5.0.1... done Running fc-cache to build fontconfig cache... /usr/local/share/fonts: skipping, no such directory /usr/local/lib/X11/fonts: caching, new cache contents: 0 fonts, 1 dirs /usr/local/lib/X11/fonts/local: caching, new cache contents: 0 fonts, 0 dirs /root/.local/share/fonts: skipping, no such directory /root/.fonts: skipping, no such directory /var/db/fontconfig: cleaning cache directory /root/.cache/fontconfig: not cleaning non-existent cache directory /root/.fontconfig: not cleaning non-existent cache directory fc-cache: succeeded done done Installing png-1.5.17... done Installing jpeg-8_4... done done Installing dejavu-2.34... done Installing javavmwrapper-2.4_3... done Installing java-zoneinfo-2013.d... done mkdir: /usr/local/openjdk6/jre/lib/applet: File exists done Make sure that the freetype module is loaded. If it is not, add the following line to the "Modules" section of your X Windows configuration file: Load "freetype" Add the following line to the "Files" section of X Windows configuration file: FontPath "/usr/local/lib/X11/fonts/dejavu/" Note: your X Windows configuration file is typically /etc/X11/XF86Config if you are using XFree86, and /etc/X11/xorg.conf if you are using X.Org. ====================================================================== This OpenJDK implementation requires fdescfs(5) mounted on /dev/fd and procfs(5) mounted on /proc. If you have not done it yet, please do the following: mount -t fdescfs fdesc /dev/fd mount -t procfs proc /proc To make it permanent, you need the following lines in /etc/fstab: fdesc /dev/fd fdescfs rw 0 0 proc /proc procfs rw 0 0 ====================================================================== ===> Returning to build of jmol-12.2.23 ===> jmol-12.2.23 depends on file: /usr/local/bin/ant - not found ===> Verifying install for /usr/local/bin/ant in /usr/ports/devel/apache-ant ===> Installing existing package /packages/All/apache-ant-1.8.4.txz Installing apache-ant-1.8.4... done ===> Returning to build of jmol-12.2.23 =========================================================================== =======================<phase: lib-depends >============================ =========================================================================== =======================<phase: configure >============================ ===> Configuring for jmol-12.2.23 =========================================================================== =======================<phase: build >============================ ===> Building for jmol-12.2.23 Buildfile: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build.xml init: classes: [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes [javac] Compiling 575 source files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes [javac] Note: Some input files use or override a deprecated API. [javac] Note: Recompile with -Xlint:deprecation for details. [copy] Copying 142 files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes setup: check.docbook-xml: [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/docbook-xml [unzip] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/doc/docbook-xml-4.4.zip into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/docbook-xml [touch] Creating /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/docbook-xml.timestamp check.docbook-xsl: [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/docbook-xsl-1.75.2 [untar] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/doc/docbook-xsl-1.75.2.tar.gz into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build [touch] Creating /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/docbook-xsl-1.75.2.timestamp check.xsl: initdoc: jmolGuide: [echo] Generating user's guide [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/doc/JmolUserGuide [java] Writing ch01.html for chapter(intro) [java] Writing ch02s02.html for section(OptionScript) [java] Writing ch02s03.html for section(OptionGeometry) [java] Writing ch02s04.html for section(OptionLanguage) [java] Writing ch02s05.html for section(OptionSpeed) [java] Writing ch02s06.html for section(OptionPluginDir) [java] Writing ch02s07.html for section(OptionXmx) [java] Writing ch02.html for chapter(commandlineoptions) [java] Writing ch03s02.html for section(EditMenu) [java] Writing ch03s03.html for section(DisplayMenu) [java] Writing ch03s04.html for section(ViewMenu) [java] Writing ch03s05.html for section(HelpMenu) [java] Writing ch03.html for chapter(menudesc) [java] Element img in namespace '' encountered in para, but no template matches. [java] Element img in namespace '' encountered in para, but no template matches. [java] Element img in namespace '' encountered in para, but no template matches. [java] Writing ch04.html for chapter(rasmol) [java] Writing index.html for book [echo] Generating user's guide (fr) [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/doc/JmolUserGuide_fr [java] Writing ch01.html for chapter(intro) [java] Writing ch02s02.html for section(OptionLanguage) [java] Writing ch02s03.html for section(OptionSpeed) [java] Writing ch02s04.html for section(OptionXmx) [java] Writing ch02.html for chapter(commandlineoptions) [java] Writing ch03s02.html for section(EditMenu) [java] Writing ch03s03.html for section(DisplayMenu) [java] Writing ch03s04.html for section(ViewMenu) [java] Writing ch03s05.html for section(HelpMenu) [java] Writing ch03.html for chapter(menudesc) [java] Element img in namespace '' encountered in para, but no template matches. [java] Element img in namespace '' encountered in para, but no template matches. [java] Element img in namespace '' encountered in para, but no template matches. [java] Writing ch04.html for chapter(rasmol) [java] Writing index.html for book jmolHistory: [echo] Generating history of changes [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/doc/JmolHistory [echo] Generating history of changes (fr) [echo] Generating history of changes (nl) jmolDevelopersGuide: [echo] Generating developer's guide [echo] Generating developer's guide (fr) [echo] Generating developer's guide (de) check.libjars: libjars: [mkdir] Created dir: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/appjars [unjar] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/jars/vecmath1.2-1.14.jar into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/appjars [unjar] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/jars/naga-2_1-r42.jar into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/appjars [unjar] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/jars/itext-1.4.5.jar into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/appjars [unjar] Expanding: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/jars/commons-cli-1.0.jar into /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/appjars [touch] Creating /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/libjars.timestamp main-i18n: init-i18n: check-executables: [exec] Execute failed: java.io.IOException: Cannot run program "xgettext" (in directory "/wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/src"): java.io.IOException: error=2, No such file or directory [exec] Execute failed: java.io.IOException: Cannot run program "msgmerge" (in directory "/wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/src"): java.io.IOException: error=2, No such file or directory [exec] Execute failed: java.io.IOException: Cannot run program "msgfmt" (in directory "/wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/src"): java.io.IOException: error=2, No such file or directory [echo] [echo] The gettext tools are not available. [echo] They are needed if you want to build a version of Jmol with translations in other languages. [echo] Otherwise, you dont need them. [echo] ---------------------------------------------- [echo] Homepage: http://www.gnu.org/software/gettext/ [echo] Win32: http://gnuwin32.sourceforge.net/packages/gettext.htm [echo] check-uptodate-application-pot: create-application-pot: check-uptodate-applet-pot: create-applet-pot: update-pot: update-application-po: update-applet-po: update-po: update-application-catalog: update-applet-catalog: update-catalog: tar-i18n: [delete] Deleting: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/src/org/jmol/translation/translations.tgz [tar] Building tar: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/src/org/jmol/translation/translations.tgz main-i18n: jar: [copy] Copying 15 files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes/org/openscience/jmol/Data/guide [copy] Copying 12 files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes/org/openscience/jmol/Data/guide_fr [copy] Copying 3 files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/classes/org/openscience/jmol/Data [jar] Building jar: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsigned.jar [signjar] Signing JAR: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsigned.jar to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/Jmol.jar as selfSignedCertificate [delete] Deleting: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsigned.jar [jar] Building jar: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsignedF.jar [signjar] Signing JAR: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsignedF.jar to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolData.jar as selfSignedCertificate [delete] Deleting: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JmolUnsignedF.jar [copy] Copying 3 files to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build [jar] Building jar: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JvxlUnsigned.jar [signjar] Signing JAR: /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/JvxlUnsigned.jar to /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/build/Jvxl.jar as selfSignedCertificate # # A fatal error has been detected by the Java Runtime Environment: # # SIGSEGV (0xb) at pc=0x28760a35, pid=4307, tid=690081344 # # JRE version: 6.0_32-b27 # Java VM: OpenJDK Server VM (20.0-b12 mixed mode bsd-x86 ) # Problematic frame: # V [libjvm.so+0x360a35] +0x28ff05 # # An error report file with more information is saved as: # /wrkdirs/usr/ports/science/jmol/work/jmol-12.2.23/hs_err_pid4307.log # # If you would like to submit a bug report, please visit: # http://java.sun.com/webapps/bugreport/crash.jsp # *** Signal 6 Stop in /usr/ports/science/jmol. ===> Cleaning for jmol-12.2.23
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