Merge pull request #390 from ewels/bump-preseq

Bump preseq
nf-core · Jun 28, 2024 · 36f8470 · 36f8470
2 parents 32297ea + ce40e8d
commit 36f8470
Show file tree

Hide file tree

Showing 10 changed files with 141 additions and 10 deletions.
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -11,6 +11,10 @@
 - 🐛 fix sample/replicate merge [#401](https://github.com/nf-core/methylseq/pull/401)
 - 🐛 fix fasta reference usage [#403](https://github.com/nf-core/methylseq/pull/403)
 
+### Pipeline Updates
+
+- 🔧 Updated nf-core modules for preseq [#390](https://github.com/nf-core/methylseq/pull/390)
+
 ## [v2.6.0](https://github.com/nf-core/methylseq/releases/tag/2.6.0) - 2024-01-05
 
 ### Bug fixes & refactoring

diff --git a/conf/test.config b/conf/test.config
@@ -26,3 +26,9 @@ params {
 }
 
 includeConfig './test_data.config'
+
+process {
+    withName: PRESEQ_LCEXTRAP {
+        errorStrategy = 'ignore'
+    }
+}
diff --git a/modules.json b/modules.json
@@ -82,7 +82,7 @@
                     },
                     "preseq/lcextrap": {
                         "branch": "master",
-                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
+                        "git_sha": "4d178c536f91d022a3bff078bb84037e866c7da4",
                         "installed_by": ["modules"]
                     },
                     "qualimap/bamqc": {

diff --git a/modules/nf-core/preseq/lcextrap/environment.yml b/modules/nf-core/preseq/lcextrap/environment.yml
diff --git a/modules/nf-core/preseq/lcextrap/main.nf b/modules/nf-core/preseq/lcextrap/main.nf
diff --git a/modules/nf-core/preseq/lcextrap/meta.yml b/modules/nf-core/preseq/lcextrap/meta.yml
diff --git a/modules/nf-core/preseq/lcextrap/tests/main.nf.test b/modules/nf-core/preseq/lcextrap/tests/main.nf.test
diff --git a/modules/nf-core/preseq/lcextrap/tests/main.nf.test.snap b/modules/nf-core/preseq/lcextrap/tests/main.nf.test.snap
diff --git a/modules/nf-core/preseq/lcextrap/tests/tags.yml b/modules/nf-core/preseq/lcextrap/tests/tags.yml
diff --git a/tests/pipeline/bismark_hisat/main.nf.test.snap b/tests/pipeline/bismark_hisat/main.nf.test.snap
@@ -5,9 +5,9 @@
         ],
         "meta": {
             "nf-test": "0.8.4",
-            "nextflow": "23.10.1"
+            "nextflow": "24.04.2"
         },
-        "timestamp": "2024-02-26T22:44:25.773445334"
+        "timestamp": "2024-06-28T15:35:18.303882773"
     },
     "single_end_rrbs_software_versions": {
         "content": [