8eff1cc436
Extract and include only the Tim Fennell-approved parts of picard private.
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Hopefully this is a temporary solution and these classes will be migrated
into picard-public.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2041 348d0f76-0448-11de-a6fe-93d51630548a
2009-11-13 19:42:33 +00:00
3928751bf5
Fail for missing resource files / scripts.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1692 348d0f76-0448-11de-a6fe-93d51630548a
2009-09-22 21:31:01 +00:00
eebe2978a1
Add code to fail if any of the classes explicitly listed as a dependency is not found. Will still *not* fail if a package or script or resource file is missing.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1691 348d0f76-0448-11de-a6fe-93d51630548a
2009-09-22 21:22:27 +00:00
e2ec703a32
Added indel cleaner and quality scores recalibrator to the GATK package.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1311 348d0f76-0448-11de-a6fe-93d51630548a
2009-07-24 16:20:38 +00:00
af7a759ba4
Convert the somatic coverage tool to output from the packaging tool rather than from the dist target.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1050 348d0f76-0448-11de-a6fe-93d51630548a
2009-06-18 21:29:30 +00:00
ed7fac1c90
Add bcel and cleanup.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1032 348d0f76-0448-11de-a6fe-93d51630548a
2009-06-17 19:28:04 +00:00
e2ccea4883
Cleanup. Move output of packaging to dist directory. Don't always create resources directory. Make jar take on the package name.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1023 348d0f76-0448-11de-a6fe-93d51630548a
2009-06-16 22:47:23 +00:00
29df74ae23
Plumbed packaging support into build.xml and added package for GATK.
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git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1012 348d0f76-0448-11de-a6fe-93d51630548a
2009-06-15 19:41:16 +00:00
93dc2cdc70
Start of a 'package' format for xml files which should be distributed together.
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Uses xslt scripts to transform packages into build scripts.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1005 348d0f76-0448-11de-a6fe-93d51630548a
2009-06-15 00:52:48 +00:00
hanna