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Merge pull request #684 from broadinstitute/ks_add_cofoja_to_gatk_packages 

Added cofoja to the gatk packages for tests to pass.
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droazen 2014-07-14 11:15:49 -04:00
parent 2138aa135c c7e357eb59
commit db53d096c9
1 changed files with 12 additions and 0 deletions
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12
protected/gatk-package-distribution/pom.xml
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@ -58,6 +58,18 @@
<groupId>commons-httpclient</groupId> <groupId>commons-httpclient</groupId>
<artifactId>commons-httpclient</artifactId> <artifactId>commons-httpclient</artifactId>
</dependency> </dependency>
<!--
Some cofoja annotations (ex: PreconditionError) are ONLY in used tests.
They are not picked up by shade, not required during normal runs, but are important for tests to avoid
the cryptic ArrayStoreExceptions. See also: http://bugs.java.com/view_bug.do?bug_id=7183985
If added as scope test, they are not included during runtime compilation.
So, as a workaround, could configure shade to just include the classes, but our
standard operating procedure so far has been to include classes as full artifacts.
-->
<dependency>
<groupId>com.google.code.cofoja</groupId>
<artifactId>cofoja</artifactId>
</dependency>
<!-- Required for binary-dist assembly, excluded by shade --> <!-- Required for binary-dist assembly, excluded by shade -->
<dependency> <dependency>
<groupId>${project.groupId}</groupId> <groupId>${project.groupId}</groupId>