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eastgenomics / eggd_artemis

Creates download urls for files required and outpus in a text file to be shared with the scientists
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Error when running Artemis #10

Closed JasonLing95 closed 1 year ago

JasonLing95 commented 1 year ago 
Traceback (most recent call last):
  File "/home/dnanexus/job-GV17BFQ4FxPKgJK30J6KGV69", line 39, in <module>
    exec_code(job_code, _code_filename)
  File "/home/dnanexus/job-GV17BFQ4FxPKgJK30J6KGV69", line 25, in exec_code
    exec(compiled_code, globals())
  File "/home/dnanexus/job-GV17BFQ4FxPKgJK30J6KGV69.code.py", line 792, in <module>
    dxpy.run()
  File "/usr/local/lib/python3.8/dist-packages/dxpy/utils/exec_utils.py", line 150, in run
    result = ENTRY_POINT_TABLE[job['function']](**job['input'])
  File "/home/dnanexus/job-GV17BFQ4FxPKgJK30J6KGV69.code.py", line 665, in main
    multiqc = get_multiqc_report(snv_path.split(',')[0], DX_PROJECT)
  File "/home/dnanexus/job-GV17BFQ4FxPKgJK30J6KGV69.code.py", line 270, in get_multiqc_report
    return multiqc
UnboundLocalError: local variable 'multiqc' referenced before assignment

Link to job https://platform.dnanexus.com/projects/GV0YzGQ4FxPP79K4bGF4zqP4/monitor/job/GV17BFQ4FxPKgJK30J6KGV69

Addy81 commented 1 year ago

Closing this as it doesn't require any changes to artemis, this was due the little hack on adding single to comply with what dias batch expected the input folder to be called, but this is rectified at batch level.

Link to batch release: https://github.com/eastgenomics/dias_batch_running/releases/tag/v2.0.0