Commit 6a1d952d authored by Venkat Malladi's avatar Venkat Malladi

Merge branch '43-long_read_fix' into 'dev'

Update configuration for queue to fix large number of reads.

Closes #43

See merge request !30
parents ce0932d9 dee48112
Pipeline #7706 passed with stages
in 19 seconds
......@@ -5,6 +5,7 @@ All notable changes to this project will be documented in this file.
## [Unreleased ]
### Upgraded
- Updated support for astrocyte 0.3.1
- Added queue information to fix memory issue
## [publish_2.0.3 ] - 2020-06-21
### Fixed
......
......@@ -213,6 +213,7 @@ process alignReads {
tag "${sampleId}-${replicate}"
publishDir "${outDir}/${task.process}/${sampleId}", mode: 'copy'
queue '256GB,256GBv1'
input:
set sampleId, reads, experimentId, replicate, fqLength from trimmedReads
......@@ -264,6 +265,7 @@ process filterReads {
tag "${sampleId}-${replicate}"
publishDir "${outDir}/${task.process}/${sampleId}", mode: 'copy'
queue '128GB,256GB,256GBv1'
input:
set sampleId, mapped, experimentId, replicate from mappedReads
......@@ -326,6 +328,7 @@ process convertReads {
tag "${sampleId}-${replicate}"
publishDir "${outDir}/${task.process}", mode: 'copy'
queue '128GB,256GB,256GBv1'
input:
set sampleId, deduped, bai, experimentId, replicate from convertReads
......@@ -501,6 +504,7 @@ process callPeaksMACS {
tag "${sampleId}-${replicate}"
publishDir "${outDir}/${task.process}/${experimentId}/${replicate}", mode: 'copy'
queue '128GB,256GB,256GBv1'
input:
set sampleId, tagAlign, xcor, experimentId, replicate from experimentRows
......@@ -638,6 +642,7 @@ process peakAnnotation {
process experimentQC {
publishDir "${outDir}/${task.process}", mode: 'copy'
queue '128GB,256GB,256GBv1'
input:
file designExperimentQC
......
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