Christian Meesters

Thank you, looks great. I have not yet found the time to scrutinize everything, but stumbled across the out commented group-job lines in the slurm_jobstep-executor. The comment there is one...

Or perhaps I overlooked "This branch is out-of-date with the base branch" and the merge with main needs to performed, first?

Thank you, @pvandyken. However, I am not sure what to think and here is why: What is the purpose of job arrays? "Historically" it was a convenience feature for people...

Ah, so there are two issues here: - I/O and - pooling a.k.a. node level scheduling. snakemake can be a remedy for certain I/O issues, by doing some stage-in and...

THAT might be a work-around, but not really a solution within snakemake. Is there a published workflow, such that the scenario can be traced in the code?

This is exactly, the scenario I have in mind: like in a group job, snakemake would need to be aware of the number of job-items, then submit **1** job, which...

Do not use a (sequential) pipeline in the first place! ;-) On a more serious note: The I/O issue might be far more important. Assuming the reference is bigger than...

I'm afraid, no. Awaiting the release of Snakemake 8 (and with it restructuring Snakemake Executor Plugins) and tons of others work items, no work on this has started, yet. However,...

We are currently consolidating the changes introduced with v8, I'm afraid. > Could you elaborate on how stage-in / -out might alleviate the problem which job arrays address? Not at...

Dear Gabriel, Congratulations! For the Makefile, I might find the time for patch. For the other issue (#12), probably not, because I hardly speak Perl and do not know the...