PointFinder fails with AttributeError: 'Config' object has no attribute 'db_panels_file'

Issue #87 resolved
Marco van Zwetselaar created an issue

Hi Rolf,

Running PointFinder ‘standalone’ (i.e. with --point and without --acquired) errors out with:

Traceback (most recent call last):
  File "/opt/conda/lib/python3.9/runpy.py", line 197, in _run_module_as_main
    return _run_code(code, main_globals, None,
  File "/opt/conda/lib/python3.9/runpy.py", line 87, in _run_code
    exec(code, run_globals)
  File "/opt/conda/lib/python3.9/site-packages/resfinder/__main__.py", line 5, in <module>
    sys.exit(main())
  File "/opt/conda/lib/python3.9/site-packages/resfinder/run_resfinder.py", line 472, in main
    amr_panel_file=conf.db_panels_file)
AttributeError: 'Config' object has no attribute 'db_panels_file'

Passing --db-path-res in addition to --db-path-point doesn't resolve the issue. It does work when I add --acquired in addition to --point, i.e. run both ResFinder and PointFinder.

Cheers, Marco

Comments (3)

  1. Marco van Zwetselaar reporter

    Can add that running DisinfFinder standalone has the exact same issue, but with a twist that makes the workaround (= add --acquired) fail, for which I'll make yet a separate issue.

    The good thing is that you’ll probably be able to fix all in one swoop.

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