test v0.1.10

pirl-unc · Oct 7, 2024 · 2e0aaa4 · 2e0aaa4
1 parent 249d8cd
commit 2e0aaa4
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diff --git a/nextflow/nexus_v0.1.10_nextflow_slurm.config b/nextflow/nexus_v0.1.10_nextflow_slurm.config
@@ -206,6 +206,7 @@ process {
         cpus = 32
         memory = 128.GB
         time = '3days'
+        bustools_memory = 64.GB
     }
     withLabel: 'liqa' {
         container = 'ajslee/liqa:1.3.4'

diff --git a/src/nexuslib/pipelines/modules/kallisto.nf b/src/nexuslib/pipelines/modules/kallisto.nf
@@ -1,6 +1,7 @@
 #!/usr/bin/env nextflow
 
 process runKallistoQuantTccLongReads {
+
     label 'kallisto'
     tag "${sample_id}"
     debug true
@@ -39,6 +40,7 @@ process runKallistoQuantTccLongReads {
         bustools sort \
             -t ${task.cpus} \
             -o ${sample_id}_kallisto_outputs/sorted.bus \
+            -m ${task.bustools_memory.toGiga()}G \
             $params_bustools_sort \
             ${sample_id}_kallisto_outputs/output.bus
 

diff --git a/test/data/nextflow/nextflow_test_docker.config b/test/data/nextflow/nextflow_test_docker.config
@@ -191,6 +191,7 @@ process {
         cpus = 2
         memory = '4.GB'
         time = '1hour'
+        bustools_memory = 1.GB
     }
     withLabel: 'liqa' {
         container = 'ajslee/liqa:1.3.4'