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nmdp-bioinformatics / ngs

Next generation sequencing (NGS/HTS) tools.
GNU Lesser General Public License v3.0
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Maven assembly plugin complains about group id on OSX #78

Closed ghost closed 9 years ago

ghost commented 9 years ago

With version 2.5.1 of the maven-assembly-plugin, building on OSX results in the following error

$ mvn install
...
INFO] <<< maven-assembly-plugin:2.5.1:assembly (default) < package @ ngs-tools <<<
[INFO] 
[INFO] --- maven-assembly-plugin:2.5.1:assembly (default) @ ngs-tools ---
[INFO] Reading assembly descriptor: src/main/assembly/assembly.xml
[INFO] Building tar: ngs/tools/target/ngs-tools-1.5-SNAPSHOT-bin.tar.gz
[INFO] ------------------------------------------------------------------------
[INFO] Reactor Summary:
[INFO] 
[INFO] ngs-multimodule .................................... SUCCESS [  3.126 s]
[INFO] ngs-align .......................................... SUCCESS [ 11.713 s]
[INFO] ngs-variant ........................................ SUCCESS [  1.935 s]
[INFO] ngs-feature ........................................ SUCCESS [  3.248 s]
[INFO] ngs-gtr ............................................ SUCCESS [  9.387 s]
[INFO] ngs-hml ............................................ SUCCESS [  2.234 s]
[INFO] ngs-range .......................................... SUCCESS [  3.639 s]
[INFO] ngs-reads .......................................... SUCCESS [  1.092 s]
[INFO] ngs-xjc-plugins .................................... SUCCESS [  0.357 s]
[INFO] ngs-sra ............................................ SUCCESS [  6.662 s]
[INFO] ngs-tools .......................................... FAILURE [ 11.730 s]
[INFO] ------------------------------------------------------------------------
[INFO] BUILD FAILURE
[INFO] ------------------------------------------------------------------------
[INFO] Total time: 55.648 s
[INFO] Finished at: 2014-11-13T10:37:46-06:00
[INFO] Final Memory: 52M/379M
[INFO] ------------------------------------------------------------------------
[ERROR] Failed to execute goal org.apache.maven.plugins:maven-assembly-plugin:2.5.1:assembly (default) on project ngs-tools: Execution default of goal org.apache.maven.plugins:maven-assembly-plugin:2.5.1:assembly failed: group id '827464065' is too big ( > 2097151 ) -> [Help 1]

This is a known issue with maven-assembly-plugin

Assembly plugin >= 2.5 thinks my group ID is too big http://jira.codehaus.org/browse/MASSEMBLY-728

The workaround is to use posix mode tar extensions (tarLongFileMode=posix); I don't know what effect that will have on our assemblies if any.

ghost commented 9 years ago

This fix prevents the bin directory from being included in the tar.gz assembly.