Skip to content
This repository has been archived by the owner on Jan 31, 2020. It is now read-only.

Where resource requests are defined

Jump to bottom
Malachi Griffith edited this page Apr 4, 2014 · 3 revisions

This page documents where resource requests (cpus, mem, tmp space) are defined for major compute steps?

For example:

  • BWA alignments in the reference-alignment pipeline: Genome/InstrumentData/AlignmentResult/Bwa.pm
  • TopHat alignments in the rna-seq pipeline: Genome/InstrumentData/Command/AlignReads/PerLaneTophat.pm
  • Cufflinks in the rna-seq pipeline:
  • Cuffdiff in the differential-expression pipeline:

For now these resource requests must be adjusted by modifying the gms-core (aka genome) code directly, however, we are working towards defining some global environment variables that would allow the user to adjust these.

Home Install Tutorials FAQ
Home Install Docs Tutorials FAQ
Clone this wiki locally