Results 10 comments of Chris Scheller

Main problem is seeing a message after alignment error to look for `Makefile.err`. Would be useful to see that output on STDERR. In a scheduler, pbs/slurm, it will be in...

Sorry, no, I haven't been able to switch to a dev branch on these runs.

I've been recommending putting the commands into a separate file, one per line, then using head/tail to pull lines out like this: ``` srun $(head -n $SLURM_ARRAY_TASK_ID cmds.txt | tail...

Also, using head/tail or sed makes it not bash specific.

In that case it is just a matter of developing appropriate abstractions for target platforms to support multiple platforms. On Jul 12, 2017, 3:19 PM -0400, abecasis , wrote: >...

The abstraction should be above the batch script not within it. At the level of what generates the batch script. Their could be platforms that don't even need a batch...

Is `sarray` still around, I should remove those docs. I recommend keeping it simple with head/tail or sed and explain how to use different `--array=` values.

No, sarray was something I wrote for the biostat cluster before slurm supported array jobs. It really shouldn't be used anymore. runslurm.pl is something @tpg wrote for the CSG cluster...

The cpanfile that is there now is for some code I added a while back thatbis probably not used.  I see no reason to limit yourself to core modules. The...

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