aaron
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eb90e5c4d7
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changes to VCF output, and updated MD5's in the integration tests
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1836 348d0f76-0448-11de-a6fe-93d51630548a
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2009-10-14 18:42:48 +00:00 |
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aaron
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b1c321f161
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Adjusted Genotype concordance to more accurately use the new Genotyping code, fixed the VCF rod, and temp. fix the build by reintroducing Shermans ReadCigarFormatter
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1745 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-29 21:28:21 +00:00 |
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aaron
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7ffc1d97ef
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Cut DeNovoSNPWalker over to the new Variation system, some renaming of methods on the Variation interface, and some corrections on the interface.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1724 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-25 04:35:52 +00:00 |
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aaron
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d262cbd41c
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changes to add VCF to the rod system, fix VCF output in VariantsToVCF, and some other minor changes
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1715 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-24 15:16:11 +00:00 |
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aaron
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f783cb30e0
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adding an interface so that the current @Requires with ROD annotations work in walkers like VariantEval
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1700 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-23 18:24:05 +00:00 |
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aaron
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3a487dd64e
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little fixes; also fixed a tyPo
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1662 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-18 22:38:51 +00:00 |
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aaron
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b6d7d6acc6
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fix for the eval tests, and a change to the backedbygenotypes interface, more changes to come
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1661 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-18 22:25:16 +00:00 |
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aaron
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7b39aa4966
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Adding the VCF ROD. Also changed the VCF objects to much more user friendly.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@1658 348d0f76-0448-11de-a6fe-93d51630548a
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2009-09-18 20:19:34 +00:00 |