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LiverPDO drug generation Failed in Build 2.2 #429

@jjacobson95

Description

@jjacobson95

LiverPDO drug generation is searching for a list of files but the files are not separated during read-in.

Error:

Traceback (most recent call last):
  File "/app/03-drug-liverpdo.py", line 107, in <module>
    create_liverpdo_drug_data(drug_info_path = "/tmp/raw_druginfo.csv", prevDrugFilepath = args.PrevDrugs, output_drug_data_path = "/tmp/liverpdo_drugs.tsv")
  File "/app/03-drug-liverpdo.py", line 60, in create_liverpdo_drug_data
    prev_drug_df = pd.read_csv(prevDrugFilepath, sep='\t')
  File "/usr/local/lib/python3.10/site-packages/pandas/io/parsers/readers.py", line 1026, in read_csv
    return _read(filepath_or_buffer, kwds)
  File "/usr/local/lib/python3.10/site-packages/pandas/io/parsers/readers.py", line 620, in _read
    parser = TextFileReader(filepath_or_buffer, **kwds)
  File "/usr/local/lib/python3.10/site-packages/pandas/io/parsers/readers.py", line 1620, in __init__
    self._engine = self._make_engine(f, self.engine)
  File "/usr/local/lib/python3.10/site-packages/pandas/io/parsers/readers.py", line 1880, in _make_engine
    self.handles = get_handle(
  File "/usr/local/lib/python3.10/site-packages/pandas/io/common.py", line 873, in get_handle
    handle = open(
FileNotFoundError: [Errno 2] No such file or directory: '/tmp/broad_sanger_drugs.tsv,/tmp/beataml_drugs.tsv,/tmp/pancpdo_drugs.tsv,/tmp/bladderpdo_drugs.tsv,/tmp/sarcpdo_drugs.tsv'

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