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MonashBioinformaticsPlatform / RNAsik-pipe

RNAsik - more than just a pipeline
https://monashbioinformaticsplatform.github.io/RNAsik-pipe/
Apache License 2.0
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picard CreateSequenceDictionary should include -Xmx memory setting #52

Open pansapiens opened 4 years ago

pansapiens commented 4 years ago

In this task, https://github.com/MonashBioinformaticsPlatform/RNAsik-pipe/blob/f43d6c8b188baeea57a7192bbac14df0a2904084/src/sikRefFiles.bds#L114 picard should have a -Xmx flag (eg -Xmx3500m), derived from the value of createDictMem (but maybe only ~80% of that value, so the JVM heap doesn't bust the SLURM RAM budget).