depristo
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85553cf5cb
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V2 cleaner, easily testing, shared memory and distributed GATK job management. Serious unit testing. Very much cleaner processing. Some code cleanup remains in removing now unused classes but the system is ready for general testing. Confirmed that one can run the UG 100 ways parallel without error, but edge cases may remain.
See documentation at:
http://www.broadinstitute.org/gsa/wiki/index.php/Parallelism_and_the_GATK#Distributed_Parallelism_.28Experimental.29
for examples on how to run this, or the testing Scala script
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5032 348d0f76-0448-11de-a6fe-93d51630548a
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2011-01-20 12:58:13 +00:00 |
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depristo
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f8ba76d87c
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Incremental commit for distributed computation. Appears to work but has potential deadlock situation not yet debugged. Do not use yet.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5010 348d0f76-0448-11de-a6fe-93d51630548a
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2011-01-17 21:23:09 +00:00 |
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depristo
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af1bce3492
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Longer wait time for threading test (5 min now) and an assertion to ensure that all jobs finished. Should probably just remove the longer running test so this becoming a non-issue
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4999 348d0f76-0448-11de-a6fe-93d51630548a
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2011-01-14 13:09:31 +00:00 |
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depristo
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afbea9ce59
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SharedMemory and SharedFile implementations of GenomeLocProcessingTracker, along with serious unit tests that both pass. Slightly inefficient implementation but sufficient for further testing.
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4998 348d0f76-0448-11de-a6fe-93d51630548a
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2011-01-14 03:14:24 +00:00 |