update subwokflows/modules and exclusion

nf-core · Mar 1, 2024 · 89b6dce · 89b6dce
1 parent 64969cd
commit 89b6dce
Show file tree

Hide file tree

Showing 10 changed files with 428 additions and 157 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -199,7 +199,6 @@ jobs:
         exclude:
           - tags: "GFFREAD"
           - tags: "PIPELINE"
-          - tags: "SUBREAD_FEATURECOUNTS"
           - tags: "STRINGTIE_STRINGTIE"
           - tags: "UMITOOLS_PREPAREFORRSEM"
 

diff --git a/modules.json b/modules.json
@@ -221,7 +221,7 @@
                     },
                     "trimgalore": {
                         "branch": "master",
-                        "git_sha": "2e6c468e0ad43b23df71d7a7f130d5c0e0aa89e3",
+                        "git_sha": "d2c5e76f291379f3dd403e48e46ed7e6ba5da744",
                         "installed_by": ["fastq_fastqc_umitools_trimgalore"]
                     },
                     "tximeta/tximport": {
@@ -246,7 +246,7 @@
                     },
                     "umitools/extract": {
                         "branch": "master",
-                        "git_sha": "ff7e93715a2acecf3f143ec78c9858deba2984d0",
+                        "git_sha": "d2c5e76f291379f3dd403e48e46ed7e6ba5da744",
                         "installed_by": ["fastq_fastqc_umitools_fastp", "fastq_fastqc_umitools_trimgalore"]
                     },
                     "umitools/prepareforrsem": {
@@ -309,7 +309,7 @@
                     },
                     "fastq_fastqc_umitools_trimgalore": {
                         "branch": "master",
-                        "git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f",
+                        "git_sha": "d2c5e76f291379f3dd403e48e46ed7e6ba5da744",
                         "installed_by": ["subworkflows"]
                     },
                     "fastq_subsample_fq_salmon": {

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