chore: Fix config selectors

nf-core · Dec 21, 2024 · c0d2709 · c0d2709
1 parent 2d19d95
commit c0d2709
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Showing 6 changed files with 9 additions and 8 deletions.
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -18,6 +18,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 - [#171](https://github.com/nf-core/nascent/pull/171) - Clean up MultiQC report
 - [#170](https://github.com/nf-core/nascent/pull/170) - Remove "Access to undefined parameter forwardStranded" warnings
+- [#173](https://github.com/nf-core/nascent/pull/173) - Fix config selectors
 
 ### Changed
 

diff --git a/conf/modules.config b/conf/modules.config
@@ -106,7 +106,7 @@ process {
         ]
     }
 
-    withName: ".*:FASTQ_ALIGN_HISAT2:HISAT2_ALIGN" {
+    withName: "HISAT2_ALIGN" {
         ext.args   = "--met-stderr --new-summary --dta"
         publishDir = [
             [
@@ -275,7 +275,7 @@ process {
         ]
     }
 
-    withName: '.*:BAM_RSEQC:RSEQC_READDISTRIBUTION ' {
+    withName: '.*:BAM_RSEQC:RSEQC_READDISTRIBUTION' {
         publishDir = [
             path: { "${params.outdir}/quality_control/rseqc/read_distribution" },
             mode: params.publish_dir_mode,

diff --git a/conf/test.config b/conf/test.config
@@ -42,7 +42,7 @@ params {
 }
 
 process {
-    withName: STAR_GENOMEGENERATE_IGENOMES {
+    withName: STAR_GENOMEGENERATE {
         ext.args = '--genomeSAindexNbases 9'
     }
 

diff --git a/workflows/tests/aligner/bowtie2.nf.test.snap b/workflows/tests/aligner/bowtie2.nf.test.snap
@@ -324,4 +324,4 @@
         },
         "timestamp": "2024-12-18T07:25:45.87987"
     }
-}
+}
diff --git a/workflows/tests/aligner/bwa.nf.test.snap b/workflows/tests/aligner/bwa.nf.test.snap
@@ -462,4 +462,4 @@
         },
         "timestamp": "2024-12-18T07:07:22.737667"
     }
-}
+}
diff --git a/workflows/tests/aligner/star.nf.test.snap b/workflows/tests/aligner/star.nf.test.snap
@@ -358,15 +358,15 @@
                 "jurkat_transcriptome.stats:md5,322d7e620bcce35529aca042d0c8b3e8",
                 "Genome:md5,612664e3cfde5e1b73ad541d93752b31",
                 "SA:md5,074ae54177bb7b9cb981382f043f36e5",
-                "SAindex:md5,1c9cd646313f1abb1cfc205ccab73464",
+                "SAindex:md5,c8cae2d81bec99f68eddc0afe570090b",
                 "chrLength.txt:md5,b0be0a56ddefa84552742c72d4859eac",
                 "chrName.txt:md5,e99d7d1051eee43ceab5563c2d09fcee",
                 "chrNameLength.txt:md5,c985a141685e8431ec27c782816cb744",
                 "chrStart.txt:md5,6925b594ea2eeb964ba87cd6d42ab98f",
                 "exonGeTrInfo.tab:md5,ea42dd46e177f95a72a8f6a2925f7348",
                 "exonInfo.tab:md5,42a3ce2024f396b2298c0a84b07fb6e4",
                 "geneInfo.tab:md5,d0092fb1ea6fcdac270c4df788de70fb",
-                "genomeParameters.txt:md5,2fec04098057094f4b2e5a9ec4371a7d",
+                "genomeParameters.txt:md5,9e6f272d058d48c729d355ede94f8c87",
                 "sjdbInfo.txt:md5,12fb05dc7cea89735a0c19e1c0df61cb",
                 "sjdbList.fromGTF.out.tab:md5,5d9761b49920fb70a77d74e390d196b9",
                 "sjdbList.out.tab:md5,766fbca932681f8666b3a9e5fb3640bd",
@@ -386,7 +386,7 @@
             "nf-test": "0.9.2",
             "nextflow": "24.10.2"
         },
-        "timestamp": "2024-12-20T21:16:25.416797"
+        "timestamp": "2024-12-21T10:42:07.059182"
     },
     "gzip_software_versions": {
         "content": [
-Original file line number
+Diff line change
@@ Expand Up / @@ -324,4 +324,4 @@ @@
             },
             "timestamp": "2024-12-18T07:25:45.87987"
         }
-    }
+    }