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Pipelines with keep #11

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allPowerde opened this issue Sep 24, 2013 · 1 comment

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allPowerde commented Sep 24, 2013

A changed tophat/runnow.tmp has no influence on the downstream stages (i.e. cufflinks, htseqcount, bamann).

currently all runnow.tmps need to be edited when RUNTOPHATCUFFHTSEQ is run in keep+armed mode

A better way would be to somehow propagate that the shot-list though

Collaborator Author

allPowerde commented Sep 25, 2013

additional symptom of this is that cufflinks waits on the wrong jobs because tophat/runnow.tmp has a different length than cufflinks/runnow.tmp

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