Merge pull request #405 from UPHL-BioNGS/update-20250107

Update 20250107
UPHL-BioNGS · Jan 9, 2025 · eafe861 · eafe861
2 parents 02c3808 + 745f5a6
commit eafe861
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Showing 5 changed files with 7 additions and 7 deletions.
diff --git a/modules/local/bbnorm.nf b/modules/local/bbnorm.nf
@@ -1,7 +1,7 @@
 process BBNORM {
     tag           "${meta.id}"
     label         'process_medium'
-    container     'staphb/bbtools:39.10'
+    container     'staphb/bbtools:39.13'
 
     input:
     tuple val(meta), file(reads)

diff --git a/modules/local/datasets.nf b/modules/local/datasets.nf
@@ -2,7 +2,7 @@ process DATASETS {
   tag           "${accession}"
   // because there's no way to specify threads
   label         "process_low"
-  container     'staphb/ncbi-datasets:16.30.0'
+  container     'staphb/ncbi-datasets:16.35.0'
 
   input:
   val(accession)
@@ -36,4 +36,4 @@ process DATASETS {
       datasets: \$(datasets --version | awk '{print \$NF}')
     END_VERSIONS
   """
-}
+}
diff --git a/modules/local/fastp.nf b/modules/local/fastp.nf
@@ -1,7 +1,7 @@
 process FASTP {
   tag        "${meta.id}"
   label      "process_single"
-  container  'staphb/fastp:0.23.4'
+  container  'staphb/fastp:0.24.0'
 
   input:
   tuple val(meta), file(reads)

diff --git a/modules/local/freyja.nf b/modules/local/freyja.nf
@@ -1,7 +1,7 @@
 process FREYJA {
   tag           "${meta.id}"
   label         "process_medium"
-  container     'staphb/freyja:1.5.2-12_15_2024-01-38-2024-12-16'
+  container     'staphb/freyja:1.5.2-01_06_2025-02-03-2025-01-06'
 
   input:
   tuple val(meta), file(bam), file(reference_genome)
@@ -51,7 +51,7 @@ process FREYJA {
 process FREYJA_AGGREGATE {
   tag        "Aggregating results from freyja"
   label      "process_single"
-  container  'staphb/freyja:1.5.2-12_15_2024-01-38-2024-12-16'
+  container  'staphb/freyja:1.5.2-01_06_2025-02-03-2025-01-06'
 
   input:
   file(demix)

diff --git a/nextflow.config b/nextflow.config
@@ -263,7 +263,7 @@ manifest {
   name              = 'UPHL-BioNGS/Cecret'
   author            = 'Erin Young'
   homePage          = 'https://github.com/UPHL-BioNGS/Cecret'
-  version           = 'v3.25.24353'
+  version           = 'v3.25.25007'
   defaultBranch     = 'master'
   recurseSubmodules = false
   description       = 'Reference-based consensus creation'