Merge pull request #254 from UPHL-BioNGS/update-20250204

Update 20250204
UPHL-BioNGS · Feb 4, 2025 · d9da087 · d9da087
2 parents b718289 + f1dee47
commit d9da087
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Showing 8 changed files with 8 additions and 8 deletions.
diff --git a/modules/local/amrfinderplus.nf b/modules/local/amrfinderplus.nf
@@ -1,7 +1,7 @@
 process AMRFINDER {
   tag           "${meta.id}"
   label         "process_high"
-  container     'staphb/ncbi-amrfinderplus:4.0.3-2024-10-22.1'
+  container     'staphb/ncbi-amrfinderplus:4.0.15-2024-12-18.1'
 
   input:
   tuple val(meta), file(contigs), val(genus), val(species)

diff --git a/modules/local/bakta.nf b/modules/local/bakta.nf
@@ -1,7 +1,7 @@
 process BAKTA {
   tag           "${meta.id}"
   label         "process_high"
-  container     'staphb/bakta:1.9.4-5.1-light'
+  container     'staphb/bakta:1.10.3-5.1-light'
   time    '30m'
 
   input:

diff --git a/modules/local/datasets.nf b/modules/local/datasets.nf
@@ -1,7 +1,7 @@
 process DATASETS_SUMMARY {
   tag           "${taxon}"
   label         "process_single"
-  container     'staphb/ncbi-datasets:16.35.0'
+  container     'staphb/ncbi-datasets:16.38.1'
 
   input:
   tuple val(taxon), file(script)

diff --git a/modules/local/elgato.nf b/modules/local/elgato.nf
@@ -1,7 +1,7 @@
 process ELGATO {
   tag           "${meta.id}"
   label         "process_medium"
-  container     'staphb/elgato:1.20.1'
+  container     'staphb/elgato:1.20.2'
 
   input:
   tuple val(meta), file(contigs)

diff --git a/modules/local/fastp.nf b/modules/local/fastp.nf
@@ -1,7 +1,7 @@
 process FASTP {
   tag           "${meta.id}"
   label         "process_low"
-  container     'staphb/fastp:0.23.4'
+  container     'staphb/fastp:0.24.0'
 
   input:
   tuple val(meta), file(reads)

diff --git a/modules/local/mlst.nf b/modules/local/mlst.nf
@@ -1,7 +1,7 @@
 process MLST {
   tag           "${meta.id}"
   label         "process_medium"
-  container     'staphb/mlst:2.23.0-2025-01-01'
+  container     'staphb/mlst:2.23.0-2025-02-01'
 
   input:
   tuple val(meta), file(contig), file(script)

diff --git a/modules/local/panaroo.nf b/modules/local/panaroo.nf
@@ -1,7 +1,7 @@
 process PANAROO {
   tag           "Core Genome Alignment"
   label         "process_high"
-  container     'staphb/panaroo:1.5.0'
+  container     'staphb/panaroo:1.5.1'
 
   input:
   file(gff)

diff --git a/nextflow.config b/nextflow.config
@@ -196,7 +196,7 @@ manifest {
   author                          = 'Erin Young'
   homePage                        = 'https://github.com/UPHL-BioNGS/Grandeur'
   mainScript                      = 'main.nf'
-  version                         = '4.9.24345'
+  version                         = '4.9.25035'
   defaultBranch                   = 'main'
   description                     = 'Grandeur is short-read de novo assembly pipeline with serotyping.'
   nextflowVersion                 = '!>=24.04.4'