Per discussions with Mark, prefer Singularity execution over Charliec…

…loud
LANL-Bioinformatics · Aug 26, 2024 · d990ebb · d990ebb
1 parent fd09340
commit d990ebb
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Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/runFaQCs/nextflow.config b/runFaQCs/nextflow.config
@@ -1,5 +1,5 @@
 process.container = 'apwat/run_faqcs:1.2'
-charliecloud.enabled = true //must set $NXF_CHARLIECLOUD_CACHEDIR
+singularity.enabled = true 
 workflow.onComplete = {
     "rm -rf nf_assets".execute().text
 }

diff --git a/runReadsToContig/nextflow.config b/runReadsToContig/nextflow.config
@@ -1,5 +1,5 @@
 process.container = 'apwat/run_r2c:1.3'
-charliecloud.enabled=true
+singularity.enabled=true
 
 params {
     pairFile = "nf_assets/NO_FILE"

diff --git a/sra2fastq/nextflow.config b/sra2fastq/nextflow.config
@@ -7,7 +7,7 @@ params {
 }
 
 process.container = 'kaijli/sra2fastq:1.6.3'
-charliecloud.enabled = true //must set $NXF_CHARLIECLOUD_CACHEDIR
+singularity.enabled = true 
 executor {
     submitRateLimit = '1/5sec'
 }