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fridoling / sequencing

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loop on samples #9

Closed pilopilota closed 5 years ago

pilopilota commented 5 years ago

I think it would be better to loop on samples: start from the first step of sample 1 and proceed through aaaaaall the steps until we've the final files for that sample, then move to another one. I think it's also easier to parallelize the run, even manually (like: for files in A, for files in B ecc)

pilopilota commented 5 years ago

solved the issue. to manually 'parallelize' we can make main_bam_pipeline to accept samplelist as input (as regexp patter), qlogin on different nodes and run with A B C D E and so on.

but NOT TODAY