Ability to specify time limit (-W)

[funnell]

Hello, it would be nice to be able to set the job time limit (-W).
It seems like this would require adding an entry to a rule's resources, but it's not clear to me that there is a standard key for this in snakemake.

[mbhall88]

Hi @funnell I am in the process of adding the ability to specify "non-standard" LSF parameters for rules. Follow #7 for updates. I should hopefully have it implemented today or tomorrow. The idea will be that you can specify additional cluster parameters in a special cluster-specific config file lsf.yaml. Say you have a rule foo and you want to indicate this job should only run for an hour and 5 minutes and should only run on a specific project (say bigmem) you could do

lsf.yaml

foo:
  - "-W 1:05"
  - "-P bigmem"