You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
Until we replace Picard FilterSamReads upstream, for the short term, we should increase default mem allocation to depletion steps.
Currently, the deplete_taxa and filter_to_taxon tasks are allocated 8 cores & 15GB CPU (both GCE & DNAnexus). May want to consider 8 core 32GB (mem2_ssd1_v2_x8 / n1-highmem-8).
On the kraken-side, the filter_bam_to_taxa task is currently 2-core 7GB but we may want to bump to 2-core 13GB (n1-highmem-2 / mem3_ssd1_v2_x2)
The text was updated successfully, but these errors were encountered:
Actually, filter_bam_to_taxa probably doesn't need more RAM since it's likely giving enough to Picard, but deplete_taxa is only giving 50% RAM to the JVM. Maybe we should just bump that fraction a bit
Until we replace Picard FilterSamReads upstream, for the short term, we should increase default mem allocation to depletion steps.
Currently, the
deplete_taxa
andfilter_to_taxon
tasks are allocated 8 cores & 15GB CPU (both GCE & DNAnexus). May want to consider 8 core 32GB (mem2_ssd1_v2_x8 / n1-highmem-8).On the kraken-side, the
filter_bam_to_taxa
task is currently 2-core 7GB but we may want to bump to 2-core 13GB (n1-highmem-2 / mem3_ssd1_v2_x2)The text was updated successfully, but these errors were encountered: