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'list index out of range' error in 'download_proteins' process #65

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skrakau opened this issue Jan 22, 2021 · 0 comments
Open

'list index out of range' error in 'download_proteins' process #65

skrakau opened this issue Jan 22, 2021 · 0 comments
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@skrakau
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skrakau commented Jan 22, 2021

I tried to run the pipeline with human as taxa input. The following error occurs:

Command output:
  Processing the following taxonmy IDs:
  ['9606']
  # taxa:  1
  for each taxon retrieve assembly IDs ...
  get assembly lengths and select largest assembly for each taxon ...
  # selected assemblies:  1
  for each assembly get nucloetide sequence IDs...

Command error:
  Traceback (most recent call last):
    File "/home-link/qeakr01/development/metapep/bin/download_proteins_entrez.py", line 298, in <module>
      sys.exit(main())
    File "/home-link/qeakr01/development/metapep/bin/download_proteins_entrez.py", line 179, in main
      for record in assembly_record["LinkSetDb"][0]["Link"]:
  IndexError: list index out of range

should be investigated.

@skrakau skrakau added the bug Something isn't working label Jan 22, 2021
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