Hi,
I'm lost again with a Java package: gatk[1]. The confusing part from
the build log is:
...
/usr/lib/jvm/default-java/bin/java -noverify -cp
/usr/share/maven/boot/plexus-classworlds-2.x.jar:/usr/lib/jvm/default-java/lib/tools.jar
-Dmaven.home=/usr/share/maven -Dmaven.
multiModuleProjectDirectory=/build/gatk-3.5\+dfsg
-Dclassworlds.conf=/etc/maven/m2-debian.conf
org.codehaus.plexus.classworlds.launcher.Launcher
-s/etc/maven/settings-debian.xml -Ddebian.dir=/build/gatk-3.5\+ dfsg/debian
-Dmaven.repo.local=/build/gatk-3.5\+dfsg/debian/maven-repo package -DskipTests
-Dnotimestamp=true -Dlocale=en_US
[INFO] Scanning for projects...
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gsalib:pom:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-utils:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-engine:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-tools-public:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-queue:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-resources-plugin is missing. @ line 42, column 12
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-queue-extensions-generator:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-queue-extensions-public:jar:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @
org.broadinstitute.gatk:gatk-aggregator:3.5, /build/gatk-3.5+dfsg/pom.xml, line
421, column 12
[WARNING]
[WARNING] Some problems were encountered while building the effective model for
org.broadinstitute.gatk:gatk-aggregator:pom:3.5
[WARNING] 'build.plugins.plugin.version' for
org.apache.maven.plugins:maven-clean-plugin is missing. @ line 421, column 12
[WARNING]
[WARNING] It is highly recommended to fix these problems because they threaten
the stability of your build.
[WARNING]
[WARNING] For this reason, future Maven versions might no longer support
building such malformed projects.
[WARNING]
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Build Order:
[INFO]
[INFO] GATK Root
[INFO] GATK Aggregator
[INFO] GATK GSALib
[INFO] GATK Utils
[INFO] GATK Engine
[INFO] GATK Tools Public
[INFO] External Example
[INFO] GATK Queue
[INFO] GATK Queue Extensions Generator
[INFO] GATK Queue Extensions Public
[INFO] GATK Aggregator Public
[INFO]
[INFO] ------------------------------------------------------------------------
[INFO] Building GATK Root 3.5
[INFO] ------------------------------------------------------------------------
[WARNING] The POM for org.apache.maven.plugins:maven-install-plugin:jar:2.5 is
missing, no dependency information available
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO]
[INFO] GATK Root .......................................... FAILURE [ 0.008 s]
I think the code for those missing JARs is in dir public - but I have no
idea how to tell this to the build system. Any hint or commit to Git
would be really appreciated.
Kind regards
Andreas.
[1] git://anonscm.debian.org/debian-med/gatk.git
--
http://fam-tille.de
