/scratch/users/j/o/jody/MUFFIN/nextflow-autodownload-databases/checkm/db

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 [CheckM - data] Check for database updates. [setRoot]
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Traceback (most recent call last):
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/bin/checkm", line 708, in <module>
It seems that the CheckM data folder has not been set yet or has been removed. Running: 'checkm data setRoot'.
Where should CheckM store it's data?
Please specify a location or type 'abort' to stop trying: 

Path [/scratch/users/j/o/jody/MUFFIN/nextflow-autodownload-databases/checkm/db] exists and you have permission to write to this folder.
(re) creating manifest file (please be patient).
Where should CheckM store it's data?
Please specify a location or type 'abort' to stop trying: 

Unexpected error: <type 'exceptions.EOFError'>
    checkmParser.parseOptions(args)
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/lib/python2.7/site-packages/checkm/main.py", line 1227, in parseOptions
    self.updateCheckM_DB(options)
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/lib/python2.7/site-packages/checkm/main.py", line 82, in updateCheckM_DB
    DBM.runAction(options.action)
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/lib/python2.7/site-packages/checkm/checkmData.py", line 124, in runAction
    path = self.setRoot()
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/lib/python2.7/site-packages/checkm/checkmData.py", line 140, in setRoot
    path = self.confirmPath(path=path)
  File "/scratch/users/j/o/jody/MUFFIN/work/conda/env-365fdf3d23c18ec576559d837f2bcac1/lib/python2.7/site-packages/checkm/checkmData.py", line 162, in confirmPath
    path = raw_input("Where should CheckM store it's data?\n" \
EOFError: EOF when reading a line