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Is it possible to use "immediate-submit" and "job dependencies"?

Open kimin0402 opened this issue 4 years ago • 7 comments

Hi,

Thank you for this wonderful profile. I was wondering whether it is possible to set "immediate-submit: true" in config.yaml file and still use job dependencies setting for LSF profile.

This kind of setting worked well in PBS profile but seems to trouble LSF profile as lsf-submit.py file cannot deal with -w options of LSF.

How can I use this profile so that my snakemake script submits multiple job command with specified dependency options?

kimin0402 avatar Apr 05 '20 08:04 kimin0402