Replace local TABIX modules with nf-core htslib/bgziptabix (#137)

Author: maxulysse

CHANGELOG.md

@@ -41,6 +41,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - [#123](https://github.com/nf-core/references/pull/123) - Prepare release 0.2
 - [#131](https://github.com/nf-core/references/pull/131) - Template update for nf-core/tools v3.5.1
 - [#132](https://github.com/nf-core/references/pull/132) - Update nf-core-utils plugin and use updated functions for topics
+- [#137](https://github.com/nf-core/references/pull/137) - Replace local TABIX modules with nf-core `htslib/bgziptabix`
 
 ### Fixed
 

conf/prepare_genome.config

@@ -70,10 +70,7 @@ process {
     withName: 'STAR_GENOMEGENERATE' {
         ext.when   = { meta.run_star }
     }
-    withName: 'TABIX_BGZIPTABIX' {
-        ext.when   = { meta.run_bgziptabix }
-    }
-    withName: 'TABIX_TABIX' {
-        ext.when   = { meta.run_tabix }
+    withName: 'HTSLIB_BGZIPTABIX' {
+        ext.when   = { meta.run_bgziptabix || meta.run_tabix }
     }
 }

modules.json

@@ -10,6 +10,11 @@
                         "git_sha": "0902eac3012baaf4f9ab6513c8c55acc9353c96c",
                         "installed_by": ["archive_extract"]
                     },
+                    "htslib/bgziptabix": {
+                        "branch": "master",
+                        "git_sha": "54e41f4ed3aead45054380a9befeb927612ffc91",
+                        "installed_by": ["modules"]
+                    },
                     "multiqc": {
                         "branch": "master",
                         "git_sha": "98403d15b0e50edae1f3fec5eae5e24982f1fade",