bump htslib pins for ensemblvep

modules/nf-core/ensemblvep/download/environment.yml

@@ -4,5 +4,9 @@ channels:
   - conda-forge
   - bioconda
 dependencies:
+  # renovate: datasource=conda depName=bioconda/ensembl-vep
   - bioconda::ensembl-vep=115.2
+  # renovate: datasource=conda depName=bioconda/perl-math-cdf
   - bioconda::perl-math-cdf=0.1
+  # renovate: datasource=conda depName=bioconda/htslib
+  - bioconda::htslib=1.23.1

modules/nf-core/ensemblvep/download/main.nf

@@ -4,8 +4,8 @@ process ENSEMBLVEP_DOWNLOAD {
 
     conda "${moduleDir}/environment.yml"
     container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
-        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/3d/3da6e21cbf9803529421d7e136d1ebec5ff71ec50e0d996eda2ce11ec2c19bf9/data'
-        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf:1e13f65f931a6954'}"
+        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/ed/edd02dfaf968d06c808e3c208d5b3e86afb4259590bfa6e5499965ef3bc81881/data'
+        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf_htslib:efd9a6d1c5f218a9'}"
 
     input:
     tuple val(meta), val(assembly), val(species), val(cache_version)

modules/nf-core/ensemblvep/download/tests/main.nf.test.snap

@@ -151,11 +151,11 @@
                 ]
             }
         ],
+        "timestamp": "2026-02-13T13:36:59.060515944",
         "meta": {
             "nf-test": "0.9.4",
             "nextflow": "26.01.1"
-        },
-        "timestamp": "2026-02-13T13:36:59.060515944"
+        }
     },
     "ENSEMBLVEP download cache for 115_WBcel235 - stub": {
         "content": [
@@ -166,7 +166,7 @@
                             "id": "115_WBcel235"
                         },
                         [
-
+                            
                         ]
                     ]
                 ],
@@ -186,10 +186,10 @@
                 ]
             }
         ],
+        "timestamp": "2026-02-13T13:37:10.696285488",
         "meta": {
             "nf-test": "0.9.4",
             "nextflow": "26.01.1"
-        },
-        "timestamp": "2026-02-13T13:37:10.696285488"
+        }
     }
 }

modules/nf-core/ensemblvep/filtervep/environment.yml

@@ -4,5 +4,9 @@ channels:
   - conda-forge
   - bioconda
 dependencies:
+  # renovate: datasource=conda depName=bioconda/ensembl-vep
   - bioconda::ensembl-vep=115.2
+  # renovate: datasource=conda depName=bioconda/perl-math-cdf
   - bioconda::perl-math-cdf=0.1
+  # renovate: datasource=conda depName=bioconda/htslib
+  - bioconda::htslib=1.23.1

modules/nf-core/ensemblvep/filtervep/main.nf

@@ -4,8 +4,8 @@ process ENSEMBLVEP_FILTERVEP {
 
     conda "${moduleDir}/environment.yml"
     container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
-        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/3d/3da6e21cbf9803529421d7e136d1ebec5ff71ec50e0d996eda2ce11ec2c19bf9/data'
-        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf:1e13f65f931a6954'}"
+        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/ed/edd02dfaf968d06c808e3c208d5b3e86afb4259590bfa6e5499965ef3bc81881/data'
+        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf_htslib:efd9a6d1c5f218a9'}"
 
     input:
     tuple val(meta), path(input)

modules/nf-core/ensemblvep/vep/environment.yml

@@ -4,6 +4,9 @@ channels:
   - conda-forge
   - bioconda
 dependencies:
+  # renovate: datasource=conda depName=bioconda/ensembl-vep
   - bioconda::ensembl-vep=115.2
+  # renovate: datasource=conda depName=bioconda/perl-math-cdf
   - bioconda::perl-math-cdf=0.1
-  - bioconda::htslib=1.21
+  # renovate: datasource=conda depName=bioconda/htslib
+  - bioconda::htslib=1.23.1

modules/nf-core/ensemblvep/vep/main.nf

@@ -4,8 +4,8 @@ process ENSEMBLVEP_VEP {
 
     conda "${moduleDir}/environment.yml"
     container "${workflow.containerEngine in ['singularity', 'apptainer'] && !task.ext.singularity_pull_docker_container
-        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/3d/3da6e21cbf9803529421d7e136d1ebec5ff71ec50e0d996eda2ce11ec2c19bf9/data'
-        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf:1e13f65f931a6954'}"
+        ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/ed/edd02dfaf968d06c808e3c208d5b3e86afb4259590bfa6e5499965ef3bc81881/data'
+        : 'community.wave.seqera.io/library/ensembl-vep_perl-math-cdf_htslib:efd9a6d1c5f218a9'}"
 
     input:
     tuple val(meta), path(vcf), path(custom_extra_files)

modules/nf-core/ensemblvep/vep/tests/main.nf.test.snap

@@ -21,15 +21,15 @@
                     [
                         "ENSEMBLVEP_VEP",
                         "tabix",
-                        "1.21"
+                        "1.23.1"
                     ]
                 ]
             }
         ],
-        "timestamp": "2026-02-06T12:47:57.03116265",
+        "timestamp": "2026-05-27T09:34:16.339141",
         "meta": {
-            "nf-test": "0.9.3",
-            "nextflow": "25.10.3"
+            "nf-test": "0.9.5",
+            "nextflow": "26.04.2"
         }
     },
     "test_ensemblvep_vep_fasta_vcf - stub (not really but linting complains otherwise)": {
@@ -55,15 +55,15 @@
                     [
                         "ENSEMBLVEP_VEP",
                         "tabix",
-                        "1.21"
+                        "1.23.1"
                     ]
                 ]
             }
         ],
-        "timestamp": "2026-02-06T12:47:34.421995264",
+        "timestamp": "2026-05-27T09:33:53.016807",
         "meta": {
-            "nf-test": "0.9.3",
-            "nextflow": "25.10.3"
+            "nf-test": "0.9.5",
+            "nextflow": "26.04.2"
         }
     }
 }

subworkflows/nf-core/vcf_annotate_ensemblvep/tests/main.nf.test.snap

@@ -21,11 +21,11 @@
                 ]
             ]
         ],
+        "timestamp": "2026-01-20T10:44:55.042159577",
         "meta": {
             "nf-test": "0.9.3",
             "nextflow": "25.10.2"
-        },
-        "timestamp": "2026-01-20T10:44:55.042159577"
+        }
     },
     "WBcel235 caenorhabditis_elegans 115 - test.vcf.gz - stub": {
         "content": [
@@ -49,10 +49,10 @@
                 ]
             ]
         ],
+        "timestamp": "2026-01-20T10:45:05.801478657",
         "meta": {
             "nf-test": "0.9.3",
             "nextflow": "25.10.2"
-        },
-        "timestamp": "2026-01-20T10:45:05.801478657"
+        }
     }
 }