Tag: genomeLoad

mapping – STAR error in snakemake pipeline: “EXITING because of FATAL ERROR: could not open genome file”

I’m trying to use a 2 pass STAR mapping strategy (also explained here informatics.fas.harvard.edu/rsem-example-on-odyssey.html), but I’m getting an error. I’ve read through this page [https://github.com/alexdobin/STAR/issues/181] and I have a similar issue, but the discussed solutions don’t seem to help. Perhaps this is more a snakemake issue rather than a STAR…

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[STAR] How to clear memory after lost –genomeLoad

[STAR] How to clear memory after lost –genomeLoad 1 Hi all, I’m regularly using STAR and happen to play with the argument –genomeLoad. My problem is that I think a genome index is still loaded in memory but I can’t find it (I tried to –genomeLoad Remove all the indexes…

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