galaxytools: can we somehow capture and show trimgalore's errors?

original shared history https://usegalaxy.org/u/bradlanghorst/h/custom-adapter-trimming

there was an error fetching fastqs and the inputs contained only HTML so trim galore failed, however it provided this useless message:

Trim Galore! on data 2 and data 1: trimmed reads pair 2
An error occurred with this dataset:
1.8
Cutadapt terminated with exit signal: '256'.
Terminating Trim Galore run, please check error message(s) to get an idea what went wrong...

About this issue

  • Original URL
  • State: open
  • Created 8 years ago
  • Reactions: 1
  • Comments: 15 (14 by maintainers)

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I think this is ready to go now - tests pass.