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ntanmayee / decoden

🌊 Analyse experimental conditions and replicates jointly to remove cell-type specific bias in multi-condition ChIP-Seq
GNU General Public License v3.0
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pd.read_csv warnings #4

Closed MarekGierlinski closed 1 year ago

MarekGierlinski commented 1 year ago

When running run_decoden I receive mixed types warnings:

/cluster/gjb_lab/mgierlinski/projects/decoden_test/decoden/utils.py:55: DtypeWarning: Columns (0) have mixed types. Specify dtype option on import or set low_memory=False.
  df = pd.read_csv(os.path.join(data_folder, fname), sep="\t", names=["seqnames", "start", "end", colname])

Must be easy to fix.

gvisona commented 1 year ago

Thanks for the patience, the repository was completely reworked to be a CLI tool and I am now going through the issues. The warning was fixed in commit ac5e4437ac477dcb90624ae386eeecc0b33fbf61 by adding default dtypes to the read_csv call.