updated container

UPHL-BioNGS · Apr 13, 2023 · b8b0a67 · b8b0a67
1 parent 798051c
commit b8b0a67
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Showing 3 changed files with 4 additions and 4 deletions.
diff --git a/modules/amrfinderplus.nf b/modules/amrfinderplus.nf
@@ -2,7 +2,7 @@ process amrfinderplus {
   tag           "${sample}"
   label         "medcpus"
   publishDir    params.outdir, mode: 'copy'
-  container     'staphb/ncbi-amrfinderplus:3.11.4-2023-02-23.1'
+  container     'staphb/ncbi-amrfinderplus:3.11.8-2023-02-23.1'
   maxForks      10
   //#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
   //#UPHLICA cpus 7

diff --git a/modules/datasets.nf b/modules/datasets.nf
@@ -1,7 +1,7 @@
 process datasets_summary {
   tag           "${taxon}"
   publishDir    params.outdir, mode: 'copy'
-  container     'staphb/ncbi-datasets:14.13.2'
+  container     'staphb/ncbi-datasets:14.20.0'
   maxForks      10
   //#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
   //#UPHLICA pod annotation: 'scheduler.illumina.com/presetSize', value: 'standard-medium'
@@ -43,7 +43,7 @@ process datasets_download {
   // because there's no way to specify threads
   label         "medcpus"
   publishDir    params.outdir, mode: 'copy'
-  container     'staphb/ncbi-datasets:14.7.0'
+  container     'staphb/ncbi-datasets:14.20.0'
   maxForks      10
   //#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
   //#UPHLICA pod annotation: 'scheduler.illumina.com/presetSize', value: 'standard-medium'

diff --git a/modules/fastqc.nf b/modules/fastqc.nf
@@ -1,7 +1,7 @@
 process fastqc {
   tag           "${sample}"
   publishDir    params.outdir, mode: 'copy'
-  container     'staphb/fastqc:0.11.9'
+  container     'staphb/fastqc:0.12.1'
   maxForks      10
   //#UPHLICA errorStrategy { task.attempt < 2 ? 'retry' : 'ignore'}
   //#UPHLICA pod annotation: 'scheduler.illumina.com/presetSize', value: 'standard-medium'