- Registered on: 06/29/2014
- Last connection: 06/02/2017
- Arvados (Hacker, 06/29/2014)
Reported issues: 13
- 12:27 am Arvados Bug #11495: bcbio NA12878 validation runs: job re-use failure with non-existant collection
- Thanks Bryan for the digging on this. I didn't intentionally delete any log files but am not sure if the failed retri...
- 01:46 pm Arvados Bug #11495 (New): bcbio NA12878 validation runs: job re-use failure with non-existant collection
- Due to failures reported in #11494 I tried to re-run the bcbio CWL validation pipeline with re-use enabled and I get ...
- 01:43 pm Arvados Bug #11494 (New): bcbio NA12878 validation runs: failed steps due to being unable to setup container
- I'm running bcbio CWL validation workflows on NA12878 chr20 in preparation for the GA4GH workflow challenge:
- 05:16 pm Arvados Bug #10292 (Resolved): [CWL] Sometimes deadlocks on completion of subworkflow
This is a ticket to follow up on our discussion about deadlocks during bcbio CWL runs. These are intermitte...
- 03:21 pm Arvados Bug #9485: [bcbio] Changing truth vcf/bed prevents variant calling jobs being reused in bcbio cwl...
- You're right sorry for giving you the wrong answer on this before. The reason for this is that we pack the inputs int...
- 10:38 am Arvados Bug #9361 (Resolved): [CWL] arvados-cwl-runner unknown issue of job reuse
Thanks for the report. This was a bug from me when we moved to CWL definitions that enable re-use and requi...
- 01:54 pm Arvados Task #8636 (Resolved): bcbio CWL variant call run problem: workflow cannot make any more progress
- bcbio/CWL/Arvados process moved to use uploading of inputs and reference data:
- 01:46 pm Arvados Task #8521 (Resolved): Review 8488-cwl-crunchrunner-collection
- Arvados/bcbio/CWL working well on comprehensive test runs, including full re-use of steps. Looks great:
- 06:29 pm Arvados Task #8636: bcbio CWL variant call run problem: workflow cannot make any more progress
For help with debugging here are two pipelines run with the same CWL, bcbio image and cwl-runner. The first f...
- 02:36 pm Arvados Task #8636: bcbio CWL variant call run problem: workflow cannot make any more progress
We have a successful run. Awesome work:
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