Updated gzrt to 0.9.1 version

nf-core · Dec 18, 2024 · 0bd2532 · 0bd2532
1 parent 4b578d0
commit 0bd2532
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Showing 2 changed files with 5 additions and 3 deletions.
diff --git a/modules/nf-core/gzrt/environment.yml b/modules/nf-core/gzrt/environment.yml
@@ -3,4 +3,4 @@ channels:
   - conda-forge
   - bioconda
 dependencies:
-  - "bioconda::gzrt=0.8"
+  - "bioconda::gzrt=0.9.1"
diff --git a/modules/nf-core/gzrt/main.nf b/modules/nf-core/gzrt/main.nf
@@ -4,8 +4,8 @@ process GZRT {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/gzrt:0.8--he4a0461_0':
-        'biocontainers/gzrt:0.8--he4a0461_0' }"
+        'https://depot.galaxyproject.org/singularity/gzrt:0.9.1--h577a1d6_0':
+        'biocontainers/gzrt:0.9.1--h577a1d6_0' }"
 
     input:
     tuple val(meta), path(fastqgz)
@@ -23,6 +23,7 @@ process GZRT {
     }
 
     prefix = task.ext.prefix ?: "${meta.id}_recovered"
+    if ("${fastqgz}" == "${prefix}.fastq.gz") error "Input and output names are the same, set prefix in module configuration to disambiguate!"
     """
     gzrecover -p ${fastqgz} | gzip > ${prefix}.fastq.gz
 
@@ -36,6 +37,7 @@ process GZRT {
 
     stub:
     prefix = task.ext.prefix ?: "${meta.id}_recovered"
+    if ("${fastqgz}" == "${prefix}.fastq.gz") error "Input and output names are the same, set prefix in module configuration to disambiguate!"
     """
     echo "" | gzip > ${prefix}.fastq.gz