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[arvados.git] / crunch_scripts /
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
2014-07-04 Peter AmstutzMerge branch '2991-job-docker-images' refs #2991 tree | commitdiff
2014-07-04 Peter AmstutzMerge branch '2342-run-command-wrapper' refs #2342 tree | commitdiff
2014-07-03 Tim PierceMerge branch '2873-permission-links-ownership' tree | commitdiff
2014-07-03 Peter Amstutzfix bwa_index tree | commitdiff
2014-07-02 Peter AmstutzBacked that out, make a symlink to tool-data instead tree | commitdiff
2014-07-02 Peter Amstutztool-data in work tree | commitdiff
2014-07-02 Peter Amstutzfix sub R1 R2 tree | commitdiff
2014-07-02 Peter Amstutzrefer template directly tree | commitdiff
2014-07-02 Peter Amstutzwrite template tree | commitdiff
2014-07-02 Peter Amstutzopen for writing tree | commitdiff
2014-07-02 Peter Amstutzfix config copy tree | commitdiff
2014-07-02 Peter Amstutzfixed syntax error tree | commitdiff
2014-07-02 Peter AmstutzFixed +x tree | commitdiff
2014-07-02 Peter AmstutzFirst try at bcbio-nextgen script tree | commitdiff
2014-07-02 Peter AmstutzImprove output messages a bit tree | commitdiff
2014-07-01 Peter Amstutzfix find tree | commitdiff
2014-07-01 Peter AmstutzMore clever find tree | commitdiff
2014-07-01 Peter Amstutzmore status messages tree | commitdiff
2014-07-01 Peter AmstutzImprove error messages tree | commitdiff
2014-07-01 Peter AmstutzSet success/failed flag explicitly based on return... tree | commitdiff
2014-07-01 Peter AmstutzMake sure set return code non-zero. tree | commitdiff
2014-07-01 Tom CleggMerge branch '3099-spinner-assets' closes #3099 tree | commitdiff
2014-06-30 Ward VandewegeMerge branch 'master' into 3118-docker-fixes tree | commitdiff
2014-06-30 radhikaMerge branch 'master' into 3076-topnav-help tree | commitdiff
2014-06-30 radhikaMerge branch 'master' into 3088-project-chooser-on... tree | commitdiff
2014-06-30 radhikaMerge branch 'master' into 2659-anonymous-server-side tree | commitdiff
2014-06-30 Peter AmstutzAdd 'run-command' generic crunch command wrapper. ... tree | commitdiff
2014-02-25 Tom CleggMerge branch 'master' into 2060-edit-tags-in-workbench tree | commitdiff
2014-02-21 Peter AmstutzMerge branch 'master' of git.clinicalfuture.com:arvados tree | commitdiff
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