chore(deps): update biocontainers/checkm-genome docker tag to v1.2.2 (n…

…f-core#4213) * chore(deps): update biocontainers/checkm-genome docker tag to v1.2.2 * Fix meta.yml and update singularity container --------- Co-authored-by: renovate[bot] <29139614+renovate[bot]@users.noreply.github.com> Co-authored-by: Mahesh Binzer-Panchal <[email protected]>
mirpedrol · Nov 23, 2023 · 82839e6 · 82839e6
1 parent 7ab2d06
commit 82839e6
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Showing 3 changed files with 4 additions and 4 deletions.
diff --git a/modules/nf-core/checkm/lineagewf/main.nf b/modules/nf-core/checkm/lineagewf/main.nf
@@ -4,8 +4,8 @@ process CHECKM_LINEAGEWF {
 
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
-        'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0' :
-        'biocontainers/checkm-genome:1.2.1--pyhdfd78af_0' }"
+        'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.2--pyhdfd78af_0' :
+        'biocontainers/checkm-genome:1.2.2--pyhdfd78af_0' }"
 
     input:
     tuple val(meta), path(fasta, stageAs: "input_bins/*")

diff --git a/modules/nf-core/checkm/lineagewf/meta.yml b/modules/nf-core/checkm/lineagewf/meta.yml
@@ -31,7 +31,7 @@ input:
       description: One or a list of multiple FASTA files of each bin, with extension defined with the fasta_ext value
       pattern: "*.{$fasta_ext}"
   - fasta_ext:
-      type: value
+      type: string
       description: The file-type extension suffix of the input FASTA files (e.g., fasta, fna, fa, fas)
   - db:
       type: directory

diff --git a/modules/nf-core/checkm/qa/main.nf b/modules/nf-core/checkm/qa/main.nf
@@ -5,7 +5,7 @@ process CHECKM_QA {
     conda "${moduleDir}/environment.yml"
     container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
         'https://depot.galaxyproject.org/singularity/checkm-genome:1.2.1--pyhdfd78af_0' :
-        'biocontainers/checkm-genome:1.2.1--pyhdfd78af_0' }"
+        'biocontainers/checkm-genome:1.2.2--pyhdfd78af_0' }"
 
     input:
     tuple val(meta), path(analysis_dir), path(marker_file), path(coverage_file)