nasa / GeneLab_Data_Processing

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[BulkRNASeq] Underspecification of memory for STAR_ALIGN #36

Open J-81 opened 1 year ago

J-81 commented 1 year ago

Expected Behavior

Memory specified for STAR_ALIGN should be appropriate.

Actual Behavior

Memory specified is often insufficient when using larger references (i.e. from certain organisms like homo sapiens). Depending on compute backend, this may either result in inefficient usage of resources or worse, workflow exceptions due to insufficient memory (often presenting as a 137 error from STAR_ALIGN tasks).

Workaround

Specification of RAM (~40 GB for homo sapiens) appropriate for reference size can be used to overcome this mis-specification.