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update sentieon

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This commit is contained in:
Ramprasad Neethiraj 2022-08-18 15:52:31 +02:00
parent 40c965c76b
commit 1c942759ea
1 changed files with 8 additions and 1 deletions
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9
conf/pipeline/raredisease/hasta.config
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@ -8,7 +8,14 @@ process {
memory = { check_max( 80.GB * task.attempt, 'memory' ) } memory = { check_max( 80.GB * task.attempt, 'memory' ) }
} }
withLabel:'sentieon' { withLabel:'sentieon' {
beforeScript = { "export PATH=\$PATH:\$SENTIEON_INSTALL_DIR/sentieon-genomics-202010.02/bin" } beforeScript = { "export PATH=\$PATH:\$SENTIEON_INSTALL_DIR/sentieon-genomics-202112.02/bin" }
}
// Java memory fixes
withName:'QUALIMAP_BAMQC' {
clusterOptions = { "-A $params.priority ${params.clusterOptions ?: ''} ${task.memory ? "--mem ${task.memory.mega * 1.15 as long}M" : ''}" }
}
withName:'PICARD_MARKDUPLICATES' {
clusterOptions = { "-A $params.priority ${params.clusterOptions ?: ''} ${task.memory ? "--mem ${task.memory.mega * 1.15 as long}M" : ''}" }
} }
withName: BCFTOOLS_VIEW { withName: BCFTOOLS_VIEW {
if (params.genome == 'GRCh37') { if (params.genome == 'GRCh37') {