Remove cpu/memory allocation for some tasks

Some transdecoder tasks were having more memory allocated than necessary
IGDRion · Nov 8, 2024 · 0e4f952 · 0e4f952
1 parent a9352c6
commit 0e4f952
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Showing 3 changed files with 0 additions and 6 deletions.
diff --git a/modules/transdecoder/convert_to_gtf.nf b/modules/transdecoder/convert_to_gtf.nf
@@ -3,8 +3,6 @@ process AGAT_CONVERTSPGFF2GTF {
     container "${ workflow.containerEngine == 'singularity' ?
         'https://depot.galaxyproject.org/singularity/agat:1.4.0--pl5321hdfd78af_0' :
         'biocontainers/agat:1.4.0--pl5321hdfd78af_0' }"
-    cpus params.maxCpu
-    memory params.maxMemory
 
     input:
     path gff3

diff --git a/modules/transdecoder/gtfsort.nf b/modules/transdecoder/gtfsort.nf
@@ -5,8 +5,6 @@ process GTFSORT {
         'biocontainers/gtfsort:0.2.2--h4ac6f70_0' }"
     publishDir "$params.outdir/transdecoder", mode: 'copy', pattern: 'novel.full.gtf'
     publishDir "$params.outdir/final", mode: 'copy', pattern: 'novel.full.gtf', saveAs: {filename -> 'novel.full.gtf'}, overwrite: true
-    cpus params.maxCpu
-    memory params.maxMemory
 
     input:
     path fixed_novel

diff --git a/modules/transdecoder/transdecoder_predict.nf b/modules/transdecoder/transdecoder_predict.nf
@@ -4,8 +4,6 @@ process TRANSDECODER_PREDICT {
         'https://depot.galaxyproject.org/singularity/transdecoder:5.5.0--pl5262hdfd78af_4' :
         'quay.io/comp-bio-aging/transdecoder' }"
     publishDir "$params.outdir/transdecoder", mode: 'copy'
-    cpus params.maxCpu
-    memory params.maxMemory
 
     input:
     path novel_full_gtf