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MDU-PHL / bohra

A pipeline for bioinformatics analysis of bacterial genomes
GNU General Public License v3.0
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What is --workdir ? #26

Closed tseemann closed 5 years ago

tseemann commented 5 years ago 
  --workdir WORKDIR, -w WORKDIR
                        Working directory, default is current directory
                        (default: /home/linuxbrew)

If this is meant to be fast scratch, please use os.tempdir instead, which will use $TMPDIR.

kristyhoran commented 5 years ago

@tseemann workdir is the directory you are currently in. It is assumed that this would be the directory that the user wished to run bohra in I will alter the help to make this clearer