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3021: Update bundle.
[arvados.git] / crunch_scripts /
2014-08-18 Tom Clegg3114: Merge branch 'master' into 3114-copy-to-project tree | commitdiff
2014-08-16 Tom CleggMerge branch '2800-python-global-state' into 2800-pgs tree | commitdiff
2014-08-14 Tom Clegg3551: Merge branch 'master' into 3551-go-layout tree | commitdiff
2014-08-14 radhikaMerge branch 'master' into 3112-report-bug tree | commitdiff
2014-08-14 Peter AmstutzMerge branch '3505-virtual-work-dir' refs #3505 tree | commitdiff
2014-08-14 Peter AmstutzMerge branch 'master' into 3505-virtual-work-dir tree | commitdiff
2014-08-14 Peter Amstutz3505: tinker with logging tree | commitdiff
2014-08-14 Peter Amstutz3505: Fix typo in run-command tree | commitdiff
2014-08-14 Peter Amstutz3505: Move helper scripts into crunchutil module. ... tree | commitdiff
2014-08-13 Tom Clegg3551: Merge branch 'master' into 3551-go-layout tree | commitdiff
2014-08-13 Peter Amstutz3505: Fixed typo comparison of list against 0 instead... tree | commitdiff
2014-08-13 Peter Amstutz3505: Adjust order of initialization to reflect potenti... tree | commitdiff
2014-08-13 Peter AmstutzAdded virtual working directory "task.vwd" option to... tree | commitdiff
2014-08-12 radhikaMerge branch 'master' into 3296-user-profile tree | commitdiff
2014-08-12 Tom CleggMerge branch '3531-sort-jobs-with-pipelines' closes... tree | commitdiff
2014-08-12 Peter AmstutzFix regular expression in decompress-all.py refs ... tree | commitdiff
2014-08-12 Peter AmstutzFix syntax error in decompress-all.py refs #3373 tree | commitdiff
2014-08-12 Peter AmstutzMerge branch '3373-improve-gatk3-snv-pipeline' closes... tree | commitdiff
2014-08-12 Peter Amstutz3373: Test filename extension before attempting to... tree | commitdiff
2014-08-08 Peter Amstutz3373: split-fastq: Fix loop tree | commitdiff
2014-08-08 Peter Amstutz3373: split-fastq: Fix regex again tree | commitdiff
2014-08-08 Peter Amstutz3373: Fix wrong regex group tree | commitdiff
2014-08-08 Peter Amstutz3373: Fix syntax error in split-fastq tree | commitdiff
2014-08-08 Peter Amstutz3373: more run-command cleanup, global p -> taskp,... tree | commitdiff
2014-08-08 Peter Amstutz3373: Switch run-command to use python logging instead... tree | commitdiff
2014-08-08 Peter Amstutz3373: split-fastq: merge loops to capture both single... tree | commitdiff
2014-08-08 Peter Amstutz3373: decompress-all: cleaned up code a bit. Fail... tree | commitdiff
2014-08-07 Peter AmstutzMerge branch 'master' into 3373-improve-gatk3-snv-pipeline tree | commitdiff
2014-08-06 Peter AmstutzMerge branch 'master' into 3373-improve-gatk3-snv-pipeline tree | commitdiff
2014-08-05 Peter AmstutzDisable chunking tree | commitdiff
2014-08-05 Peter AmstutzChunking fastq seems to work, but is very slow. tree | commitdiff
2014-08-05 Peter Amstutzarvados.LOCATOR tree | commitdiff
2014-08-05 Peter Amstutzimport string tree | commitdiff
2014-08-05 Peter AmstutzFix syntax error tree | commitdiff
2014-08-05 Peter AmstutzCheck for None tree | commitdiff
2014-08-05 Peter AmstutzWorking on split-fastq to actually split the fastq... tree | commitdiff
2014-08-05 Peter AmstutzRenamed "job.src" to "job.srcdir", "job.id" to "job... tree | commitdiff
2014-08-04 Peter Amstutz$(link ...) now expects complete path. tree | commitdiff
2014-08-04 Peter AmstutzMerge branch 'master' into 3373-improve-gatk3-snv-pipeline tree | commitdiff
2014-08-04 Peter AmstutzMerge branch '3373-improve-gatk3-snv-pipeline' of git... tree | commitdiff
2014-08-04 Peter AmstutzSimplified collection-merge. Added comments to collect... tree | commitdiff
2014-08-04 Peter AmstutzWorks now tree | commitdiff
2014-08-04 Peter Amstutzfix parameters tree | commitdiff
2014-08-04 Peter AmstutzDecompress-all wip tree | commitdiff
2014-08-01 Peter AmstutzAdded $(task.outdir) and $(job.src) tree | commitdiff
2014-07-30 Peter AmstutzFix $(node.cores) tree | commitdiff
2014-07-30 Peter Amstutzstr or unicode tree | commitdiff
2014-07-30 Peter Amstutzextra / after dir tree | commitdiff
2014-07-30 Peter AmstutzBetter error from glob tree | commitdiff
2014-07-30 Peter AmstutzPretty print tree | commitdiff
2014-07-30 Peter AmstutzRearranged exception handling a little more tree | commitdiff
2014-07-30 Peter AmstutzMore logging tree | commitdiff
2014-07-30 Peter AmstutzPrint traceback on exception tree | commitdiff
2014-07-30 Peter AmstutzSet first task to success tree | commitdiff
2014-07-30 Peter Amstutzimport copy tree | commitdiff
2014-07-30 Peter Amstutz.st_mode tree | commitdiff
2014-07-30 Peter Amstutzimport stat tree | commitdiff
2014-07-30 Peter AmstutzFix syntax error tree | commitdiff
2014-07-30 Peter AmstutzRefactored and generalized list expansion, can use... tree | commitdiff
2014-07-30 Peter AmstutzSimpler split-fastq, doesn't try to upload the collecti... tree | commitdiff
2014-07-29 Peter AmstutzChange collection create request tree | commitdiff
2014-07-29 Peter AmstutzDebug manifest format to see why api server is rejecting it tree | commitdiff
2014-07-29 Peter Amstutzdebug print manifest_text tree | commitdiff
2014-07-29 Peter AmstutzLeft debugging in by accident tree | commitdiff
2014-07-29 Peter AmstutzSame bug, different place tree | commitdiff
2014-07-29 Peter AmstutzInput is "reads" not "input" tree | commitdiff
2014-07-29 Peter Amstutztypo fix get_job_param() -> getjobparam() tree | commitdiff
2014-07-29 Peter Amstutzforeach just refers to other parameter to use as iterat... tree | commitdiff
2014-07-29 Peter AmstutzAdded "foreach" to run-command wrapper. Needs testing. tree | commitdiff
2014-07-29 Peter AmstutzDon't split fastq, just organize into directories. tree | commitdiff
2014-07-29 Peter AmstutzFull split-fastq wip tree | commitdiff
2014-07-09 radhikaMerge branch 'master' into 3106-modal-loading-indicator tree | commitdiff
2014-07-08 Peter AmstutzMerge branch 'resumable-output-upload'. Adds signal... tree | commitdiff
2014-07-08 Peter AmstutzActually use the resume cache tree | commitdiff
2014-07-08 radhikaMerge branch 'master' into 3203-workbench-tutorial tree | commitdiff
2014-07-08 Peter AmstutzTurns out sys.exit runs finally: blocks. tree | commitdiff
2014-07-08 Peter AmstutzAdd debugging tree | commitdiff
2014-07-08 Peter AmstutzWrong num args tree | commitdiff
2014-07-08 Peter AmstutzSigHandler object tree | commitdiff
2014-07-08 Peter AmstutzStill messing with signals. tree | commitdiff
2014-07-08 Peter AmstutzFix wrong number of parameters tree | commitdiff
2014-07-08 Peter AmstutzRecord signals a different way tree | commitdiff
2014-07-08 Peter AmstutzMore work on signal handling tree | commitdiff
2014-07-08 Peter AmstutzForward signals to process. tree | commitdiff
2014-07-08 Peter AmstutzUse resumable upload writing output in run-command tree | commitdiff
2014-07-08 radhikaMerge branch 'master' into 2380-ssh-doc tree | commitdiff
2014-07-08 Peter Amstutzmissing paren typo in arvados-bcbio-nextgen.py. refs... tree | commitdiff
2014-07-08 Peter Amstutzbc-bio script links gemini reference data. refs #2991 tree | commitdiff
2014-07-07 Peter Amstutzadd 'import sys' to arvados-bcbio-nextgen. no issue # tree | commitdiff
2014-07-07 radhikaMerge branch 'master' into 3140-project-content-tabs tree | commitdiff
2014-07-07 radhikaMerge branch 'master' into 2380-ssh-doc tree | commitdiff
2014-07-07 radhikaMerge branch 'master' into 3106-modal-loading-indicator tree | commitdiff
2014-07-07 Peter AmstutzDefault arvados-bcbio-nextgen pipeline to use freebayes... tree | commitdiff
2014-07-07 radhikaMerge branch 'master' into 3106-modal-loading-indicator tree | commitdiff
2014-07-07 Peter Amstutzarvados-bcbio-nextgen writes output now. Put write_dir... tree | commitdiff
2014-07-07 Peter AmstutzBugfix os.environ() -> os.environ[] no issue # tree | commitdiff
2014-07-07 Peter AmstutzMerge branch 'bcbio-nextgen' refs #2991 tree | commitdiff
2014-07-07 Peter AmstutzAdd -n cores to run bcbio in parallel on a multicore... tree | commitdiff
2014-07-07 Peter AmstutzAdd $(node.cores) substitution to run-program, and... tree | commitdiff
2014-07-07 Peter Amstutzrun-command retry after exception when writing output... tree | commitdiff
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