Merge pull request #129 from nf-core/release-fixes

Release fixes
nf-core · Jan 27, 2025 · 8556707 · 8556707
2 parents 69ff745 + 6151a0d
commit 8556707
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Showing 6 changed files with 17 additions and 48 deletions.
diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -32,7 +32,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 | Dependency | Old version | New version |
 | ---------- | ----------- | ----------- |
-| `multiqc`  | 1.24.1      | 1.26        |
+| `multiqc`  | 1.24.1      | 1.27        |
 
 ## v1.3.0 - 2024-08-27 - Micrometre
 

diff --git a/conf/modules.config b/conf/modules.config
@@ -61,32 +61,6 @@ process {
         ext.args = { "${params.gene_score_method}" }
     }
 
-    withName: CREATE_ANNOTATED_TABLES {
-        publishDir = [
-            path: { "${params.outdir}/annotated_tables" },
-            mode: params.publish_dir_mode,
-            saveAs: { filename -> filename.equals('versions.yml') || filename.contains('_mqc') ? null : filename }
-        ]
-    }
-
-    withName: CREATE_GENE_HEATMAP {
-        publishDir = [
-            path: { "${params.outdir}/gene_heatmaps" },
-            mode: params.publish_dir_mode,
-            saveAs: { filename -> filename.equals('versions.yml') ? null : filename }
-        ]
-        ext.args = { "${params.heatmap_id_column}" }
-    }
-
-    withName: COMPUTE_GENE_SCORES {
-        publishDir = [
-            path: { "${params.outdir}/gene_scores" },
-            mode: params.publish_dir_mode,
-            saveAs: { filename -> filename.equals('versions.yml') ? null : filename }
-        ]
-        ext.args = { "${params.gene_score_method}" }
-    }
-
     withName: 'MULTIQC' {
         ext.args   = { params.multiqc_title ? "--title \"$params.multiqc_title\"" : '' }
         publishDir = [

diff --git a/modules.json b/modules.json
@@ -5,14 +5,9 @@
         "https://github.com/nf-core/modules.git": {
             "modules": {
                 "nf-core": {
-                    "fastqc": {
-                        "branch": "master",
-                        "git_sha": "08108058ea36a63f141c25c4e75f9f872a5b2296",
-                        "installed_by": ["modules"]
-                    },
                     "multiqc": {
                         "branch": "master",
-                        "git_sha": "f80914f78fb7fa1c00b14cfeb29575ee12240d9c",
+                        "git_sha": "f0719ae309075ae4a291533883847c3f7c441dad",
                         "installed_by": ["modules"]
                     },
                     "nacho/normalize": {

diff --git a/modules/nf-core/multiqc/environment.yml b/modules/nf-core/multiqc/environment.yml
diff --git a/modules/nf-core/multiqc/main.nf b/modules/nf-core/multiqc/main.nf
diff --git a/modules/nf-core/multiqc/tests/main.nf.test.snap b/modules/nf-core/multiqc/tests/main.nf.test.snap