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phac-nml / staramr

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Apache License 2.0
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Output to individual files is raising an exception (development) #72

Closed apetkau closed 5 years ago

apetkau commented 5 years ago

When running with output to single files --output-summary summary.tsv I get the following exception:

2019-04-12 11:00:20,475 ERROR: 'Namespace' object has no attribute 'output_detailed_summary'
Traceback (most recent call last):
  File "/home/CSCScience.ca/apetkau/workspace/staramr/bin/staramr", line 68, in <module>
    args.run_command(args)
  File "/home/CSCScience.ca/apetkau/workspace/staramr/staramr/subcommand/Search.py", line 375, in run
    output_detailed_summary = args.output_detailed_summary
AttributeError: 'Namespace' object has no attribute 'output_detailed_summary'

I think an argument for --output-detailed-summary is missing.

apetkau commented 5 years ago

Fixed in #73