Internal BFSSI package for retrieving files from BaseMount
Project description
BaseMountRetrieve
Internal BFSSI package for retrieving files from BaseMount.
Requirements
- BaseMount
- Python 3.6
Usage
Usage: basemountretrieve.py [OPTIONS]
Options:
-p, --projectdir PATH Path to the directory on BaseMount for a particular
project. e.g. basemount/Projects/[your project].
-o, --outdir PATH Directory to dump all .fastq.gz files. Note that the
Sample ID will be appended to the beginning of the
copied .fastq.gz file, which normally only contains
the Sample Name. [required]
--miseqsim Specify this flag to simulate the MiSeq folder
structure when retrieving from BaseSpace
--version Specify this flag to print the version and exit.
--help Show this message and exit.
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