Merge pull request #293 from nf-core/bump-mqc

Bump Module Versions to latest versions (includes MQC 1.17)
nf-core · Oct 26, 2023 · 12b09d3 · 12b09d3
2 parents ed3d869 + 2e3ec8a
commit 12b09d3
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diff --git a/CHANGELOG.md b/CHANGELOG.md
@@ -8,6 +8,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 - Update template to 2.10
 - Bugfix for issue with mirdeep2 channels [#289](https://github.com/nf-core/smrnaseq/issues/289)
 - Bugfix for issue with handling malformed GFF3 from mirbase (was forgotten in 2.2.3)
+- Updated dependencies, including FASTQC, MultiQC 1.17, fastP and samtools to latest versions
 
 ## [v2.2.3](https://github.com/nf-core/smrnaseq/releases/tag/2.2.3) - 2023-09-06
 

diff --git a/modules.json b/modules.json
@@ -7,66 +7,66 @@
                 "nf-core": {
                     "cat/fastq": {
                         "branch": "master",
-                        "git_sha": "5c460c5a4736974abde2843294f35307ee2b0e5e",
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
                     "custom/dumpsoftwareversions": {
                         "branch": "master",
-                        "git_sha": "05c280924b6c768d484c7c443dad5e605c4ff4b4",
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
                     "fastp": {
                         "branch": "master",
-                        "git_sha": "d497a4868ace3302016ea8ed4b395072d5e833cd",
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
                     "fastqc": {
                         "branch": "master",
-                        "git_sha": "bd8092b67b5103bdd52e300f75889442275c3117",
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
                     "multiqc": {
                         "branch": "master",
-                        "git_sha": "a6e11ac655e744f7ebc724be669dd568ffdc0e80",
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
                         "installed_by": ["modules"]
                     },
                     "samtools/flagstat": {
                         "branch": "master",
-                        "git_sha": "570ec5bcfe19c49e16c9ca35a7a116563af6cc1c",
-                        "installed_by": ["bam_stats_samtools", "modules"]
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
+                        "installed_by": ["modules", "bam_stats_samtools"]
                     },
                     "samtools/idxstats": {
                         "branch": "master",
-                        "git_sha": "e662ab16e0c11f1e62983e21de9871f59371a639",
-                        "installed_by": ["bam_stats_samtools", "modules"]
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
+                        "installed_by": ["modules", "bam_stats_samtools"]
                     },
                     "samtools/index": {
                         "branch": "master",
-                        "git_sha": "911696ea0b62df80e900ef244d7867d177971f73",
-                        "installed_by": ["bam_sort_stats_samtools", "modules"]
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
+                        "installed_by": ["modules", "bam_sort_stats_samtools"]
                     },
                     "samtools/sort": {
                         "branch": "master",
-                        "git_sha": "a0f7be95788366c1923171e358da7d049eb440f9",
-                        "installed_by": ["bam_sort_stats_samtools", "modules"]
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
+                        "installed_by": ["modules", "bam_sort_stats_samtools"]
                     },
                     "samtools/stats": {
                         "branch": "master",
-                        "git_sha": "735e1e04e7e01751d2d6e97055bbdb6f70683cc1",
-                        "installed_by": ["bam_stats_samtools", "modules"]
+                        "git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
+                        "installed_by": ["modules", "bam_stats_samtools"]
                     }
                 }
             },
             "subworkflows": {
                 "nf-core": {
                     "bam_sort_stats_samtools": {
                         "branch": "master",
-                        "git_sha": "dedc0e31087f3306101c38835d051bf49789445a",
+                        "git_sha": "7c8eeb2b37a6c6d3ffba0aef55ff60c8718c0ba6",
                         "installed_by": ["subworkflows"]
                     },
                     "bam_stats_samtools": {
                         "branch": "master",
-                        "git_sha": "dedc0e31087f3306101c38835d051bf49789445a",
+                        "git_sha": "cfd937a668919d948f6fcbf4218e79de50c2f36f",
                         "installed_by": ["subworkflows", "bam_sort_stats_samtools"]
                     }
                 }

diff --git a/modules/nf-core/cat/fastq/environment.yml b/modules/nf-core/cat/fastq/environment.yml
diff --git a/modules/nf-core/cat/fastq/main.nf b/modules/nf-core/cat/fastq/main.nf
diff --git a/modules/nf-core/cat/fastq/meta.yml b/modules/nf-core/cat/fastq/meta.yml
diff --git a/modules/nf-core/cat/fastq/tests/main.nf.test b/modules/nf-core/cat/fastq/tests/main.nf.test
diff --git a/modules/nf-core/cat/fastq/tests/main.nf.test.snap b/modules/nf-core/cat/fastq/tests/main.nf.test.snap
diff --git a/modules/nf-core/cat/fastq/tests/tags.yml b/modules/nf-core/cat/fastq/tests/tags.yml
diff --git a/modules/nf-core/custom/dumpsoftwareversions/environment.yml b/modules/nf-core/custom/dumpsoftwareversions/environment.yml
diff --git a/modules/nf-core/custom/dumpsoftwareversions/main.nf b/modules/nf-core/custom/dumpsoftwareversions/main.nf
diff --git a/modules/nf-core/custom/dumpsoftwareversions/meta.yml b/modules/nf-core/custom/dumpsoftwareversions/meta.yml