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Add bootDisk option bam2fq2bam.wdl #6

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Add bootDisk option bam2fq2bam.wdl #6

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1ac8c06
Add bootDisk option bam2fq2bam.wdl
lbergelson Aug 21, 2023
03c4e32
Merge branch 'main' into main
gburnett-nvidia Nov 12, 2025
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4 changes: 4 additions & 0 deletions wdl/bam2fq2bam.wdl
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Original file line number Diff line number Diff line change
Expand Up @@ -16,6 +16,7 @@ task bam2fq {
Int nThreads = 16
Int gbRAM = 120
Int diskGB = 0
Int bootDiskGB = 20
Int runtimeMinutes = 600
String hpcQueue = "gpu"
}
Expand All @@ -41,6 +42,7 @@ task bam2fq {
runtime {
docker : "~{pbDocker}"
disks : "local-disk ~{auto_diskGB} SSD"
bootDiskSizeGb: bootDiskGB
cpu : nThreads
memory : "~{gbRAM} GB"
hpcMemory : gbRAM
Expand Down Expand Up @@ -76,6 +78,7 @@ workflow ClaraParabricks_bam2fq2bam {
Int gbRAM_bam2fq = 120
Int gbRAM_fq2bam = 180
Int diskGB = 0
Int bootDiskGB = 20
Int runtimeMinutes_bam2fq = 600
Int runtimeMinutes_fq2bam = 600
String hpcQueue_bam2fq = "norm"
Expand All @@ -100,6 +103,7 @@ workflow ClaraParabricks_bam2fq2bam {
runtimeMinutes=runtimeMinutes_bam2fq,
hpcQueue=hpcQueue_bam2fq,
diskGB=diskGB,
bootDiskGB=bootDiskGB,
pbDocker=pbDocker
}

Expand Down