Unstated Dependency on Job Scheduler

salzman-lab / MACHETE

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Unstated Dependency on Job Scheduler #2

Open DarioS opened 7 years ago

DarioS commented 7 years ago

It seems an important omission that neither the journal article nor the README file state that SLURM is required to run the software. One reason software such as Bowtie 2 and limma is popular is because they don't put such barriers between themselves and their end-users. MACHETE seems like a bunch of disparate scripts that researchers outside of Stanford might need to battle with to get working in different computing environments.

gillianhsieh commented 7 years ago

Yes that is definitely true; thank you for bringing up this important issue. We have ongoing work on a standalone version that does not require a scheduler. I will addend the README now.