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SemiQuant / PrimerJinn

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keyError "start" #6

Closed chan-98 closed 3 months ago

chan-98 commented 3 months ago

Hello, I was just testing out the tool today with a regions (TSV) file and a FASTA file using the basic command for running, and got this error:

Traceback (most recent call last):
  File "/home/chandini/Documents/Chandini/PRIMER_DESIGN/PRIMERJINN/venv/bin/getMultiPrimerSet", line 8, in <module>
    sys.exit(main())
  File "/home/chandini/Documents/Chandini/PRIMER_DESIGN/PRIMERJINN/venv/lib/python3.10/site-packages/primerJinn/getMultiPrimerSet.py", line 368, in main
    df = df.sort_values(by='start')
  File "/home/chandini/Documents/Chandini/PRIMER_DESIGN/PRIMERJINN/venv/lib/python3.10/site-packages/pandas/core/frame.py", line 7189, in sort_values
    k = self._get_label_or_level_values(by[0], axis=axis)
  File "/home/chandini/Documents/Chandini/PRIMER_DESIGN/PRIMERJINN/venv/lib/python3.10/site-packages/pandas/core/generic.py", line 1911, in _get_label_or_level_values
    raise KeyError(key)
KeyError: 'start'

This is the command I used:

getMultiPrimerSet --input_file INPUTS/NC_000003.12_GRCh38.p14.Homo_sapiens_chromosome_3.fasta --region_file INPUTS/pik3ca.regions.tsv

I do want to emphasize that my regions file contains only a single entry as I am still testing the tool. Is that the reason for the issue?