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print out important snakemake args when invoking genome-grist --help #239

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clb21565 opened this issue Nov 3, 2022 · 1 comment
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@clb21565
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clb21565 commented Nov 3, 2022

genome-grist run [ <target 2>... ] [ snakemake args ]

i had to look around to find what the appropriate snakemake args were (-j and -p) as i could not quickly* figure out what they were

also, genome-grist --help prints the correct menu, but doing:
genome-grist run --help errors out for lack of a config file input:
(grist) genome-grist run --help
Usage: genome-grist run [OPTIONS] CONFIGFILE [SNAKEMAKE_ARGS]...

Error: Missing argument 'CONFIGFILE'.

thus, it might be more intuitive to change that

@ctb
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ctb commented Nov 12, 2022

great idea! thank you!

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