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Published 20 hours ago • verified publisher icon snakemake-workflows

config.yaml defaults

Open neavemj opened this issue 3 years ago • 0 comments

Good afternoon, thanks for the workflow!

In the default config.yaml on github, there is an example option like so:

config.yaml, line 37: star: "--outSAMtype BAM Unsorted"

However, if left in the config file it causes an error because then the STAR step gets two "--outSAMtype" flags. I realise defaults are meant to be changed, but I don't think this particular example can ever be used (because the flag is already hard-coded into the workflow).

Thanks again!

Matt.

neavemj avatar Oct 04 '21 02:10 neavemj