Eric Banks
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761347b8d5
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The VariantContext utility method used by SelectVariants wasn't checking the filter status (unfiltered vs. passing filters) and always returned a VC that was passing filters. This is fixed and the md5 from the VCF Streaming test has been re-updated.
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2011-06-30 15:26:09 -04:00 |
Mauricio Carneiro
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867056af51
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Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/stable
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2011-06-30 15:03:18 -04:00 |
Mark A. DePristo
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defa3cfe85
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Moved around private walkers into appropriate directories in private gatk.walkers. Moved a few public walkers into private qc package, and some private qc walkers into the public directory. Removed several obviously broken and/or unused walkers.
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2011-06-30 14:59:58 -04:00 |
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Mauricio Carneiro
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2cb1376ed0
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VCFStreaming was failing integration tests because now select variants outputs the samples in alphabetical order, instead of random as before. Fixed the MD5.
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2011-06-30 14:55:39 -04:00 |
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Eric Banks
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352c38fc0b
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Updated to reflect dbsnp conversion fix
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2011-06-30 11:55:56 -04:00 |
David Roazen
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f18fffd625
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Fixing broken paths to the testdata directory throughout the codebase.
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2011-06-29 17:36:47 -04:00 |
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Eric Banks
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33c67a139c
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Wrong package; this should have been moved when VC got moved in from Tribble
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2011-06-29 14:56:02 -04:00 |
Guillermo del Angel
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dee10140dd
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Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/stable
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2011-06-29 13:58:04 -04:00 |
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Eric Banks
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8586c86bc4
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My commit from last week to fix the old dbsnp rod conversion only worked for locus traversals. Updated now to work for all traversals.
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2011-06-29 13:56:37 -04:00 |
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Guillermo del Angel
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f736a1d61b
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Updated md5's from previous checkin
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2011-06-29 13:37:15 -04:00 |
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David Roazen
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3c9497788e
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Reorganized the codebase beneath top-level public and private directories,
removing the playground and oneoffprojects directories in the process. Updated
build.xml accordingly.
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2011-06-28 06:55:19 -04:00 |