Commit d6f7e591 authored by Ryan Herbert's avatar Ryan Herbert
Browse files

task.py fix mixcr deleted files issue

as mentioned in #2185 MiXCR runs would display deleted in the
filenames/info field although the files did in fact exist.
This was due to the wrong value being stored in the original_names field
and therefore no match could be made with the sequence_file database
entries.
parent 6bbe5553
......@@ -354,7 +354,7 @@ def run_mixcr(id_file, id_config, id_data, clean_before=False, clean_after=False
align_report = get_file_content(align_report)
assembly_report = get_file_content(assembly_report)
reports = align_report + assembly_report
original_name = row[0].filename
original_name = row[0].data_file
totalReads = extract_total_reads(assembly_report)
with open(results_filepath, 'r') as json_file:
my_json = json.load(json_file)
......
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