global report investigating novel coronavirus haplotypes
usage: grinch -i <config.yaml> [options]
optional arguments:
-h, --help show this help message and exit
input output options:
-i CONFIG, --config CONFIG
Input config file
-j JSON, --json JSON Input json file
--outdir OUTDIR Output directory. Default: current working directory
-o OUTPUT_PREFIX, --output-prefix OUTPUT_PREFIX
Output prefix. Default: grinch
misc options:
--tempdir TEMPDIR Specify where you want the temporary stuff to go
Default: $TMPDIR
--no-temp Output all intermediate files
--verbose Print lots of stuff to screen
--no-force Dont force run rules
-t THREADS, --threads THREADS
Number of threads
-v, --version show program's version number and exit