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epilog cmd doesn't provide a target #14

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nsheff opened this issue Nov 6, 2018 · 2 comments
Closed

epilog cmd doesn't provide a target #14

nsheff opened this issue Nov 6, 2018 · 2 comments

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@nsheff
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nsheff commented Nov 6, 2018

Changed status from running to failed.
Traceback (most recent call last):
  File "/home/ns5bc/code/dnameth_pipelines/src/rrbs.py", line 677, in <module>
    main(sys.argv[1:])
  File "/home/ns5bc/code/dnameth_pipelines/src/rrbs.py", line 569, in main
    pm.run(epi_cmd, nofail=True)
  File "/home/ns5bc/.local/lib/python2.7/site-packages/pypiper/manager.py", line 611, in run
    "You must provide either a target or a lock_name."))
  File "/home/ns5bc/.local/lib/python2.7/site-packages/pypiper/manager.py", line 1575, in fail_pipeline
    raise e
Exception: You must provide either a target or a lock_name.
@vreuter
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vreuter commented Nov 6, 2018

Yeah the eventual solution will rely on what's implemented in the tool itself. In the meantime, the solution would be something like os.path.join(<outfolder>, "all_calls.txt") as the target

@vreuter
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vreuter commented Nov 13, 2018

Reraised in #20

@vreuter vreuter closed this as completed Nov 13, 2018
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