Merge pull request #345 from nf-core/bump-modules

Bump-modules
nf-core · Apr 18, 2024 · 31d71fa · 31d71fa
2 parents 3c1eaf8 + 6039acc
commit 31d71fa
Show file tree

Hide file tree

Showing 15 changed files with 1,007 additions and 67 deletions.
diff --git a/README.md b/README.md
@@ -6,7 +6,7 @@
 </h1>
 
 [![GitHub Actions CI Status](https://github.com/nf-core/smrnaseq/actions/workflows/ci.yml/badge.svg)](https://github.com/nf-core/smrnaseq/actions/workflows/ci.yml)
-[![GitHub Actions Linting Status](https://github.com/nf-core/smrnaseq/actions/workflows/linting.yml/badge.svg)](https://github.com/nf-core/smrnaseq/actions/workflows/linting.yml)[![AWS CI](https://img.shields.io/badge/CI%20tests-full%20size-FF9900?labelColor=000000&logo=Amazon%20AWS)](https://nf-co.re/smrnaseq/results)[![Cite with Zenodo](http://img.shields.io/badge/DOI-10.5281/zenodo.XXXXXXX-1073c8?labelColor=000000)](https://doi.org/10.5281/zenodo.XXXXXXX)
+[![GitHub Actions Linting Status](https://github.com/nf-core/smrnaseq/actions/workflows/linting.yml/badge.svg)](https://github.com/nf-core/smrnaseq/actions/workflows/linting.yml)[![AWS CI](https://img.shields.io/badge/CI%20tests-full%20size-FF9900?labelColor=000000&logo=Amazon%20AWS)](https://nf-co.re/smrnaseq/results)[![Cite with Zenodo](http://img.shields.io/badge/DOI-10.5281/zenodo.10696391?labelColor=000000)](https://doi.org/10.5281/zenodo.10696391)
 [![nf-test](https://img.shields.io/badge/unit_tests-nf--test-337ab7.svg)](https://www.nf-test.com)
 
 [![Nextflow](https://img.shields.io/badge/nextflow%20DSL2-%E2%89%A523.04.0-23aa62.svg)](https://www.nextflow.io/)

diff --git a/modules.json b/modules.json
@@ -17,12 +17,12 @@
                     },
                     "fastp": {
                         "branch": "master",
-                        "git_sha": "003920c7f9a8ae19b69a97171922880220bedf56",
+                        "git_sha": "95cf5fe0194c7bf5cb0e3027a2eb7e7c89385080",
                         "installed_by": ["fastq_fastqc_umitools_fastp", "modules"]
                     },
                     "fastqc": {
                         "branch": "master",
-                        "git_sha": "f4ae1d942bd50c5c0b9bd2de1393ce38315ba57c",
+                        "git_sha": "285a50500f9e02578d90b3ce6382ea3c30216acd",
                         "installed_by": ["fastq_fastqc_umitools_fastp"]
                     },
                     "multiqc": {
@@ -57,12 +57,12 @@
                     },
                     "umicollapse": {
                         "branch": "master",
-                        "git_sha": "ba3f3df395d2719dcef5c67189042a1dc555c701",
+                        "git_sha": "b97197968ac12dde2463fa54541f6350c46f2035",
                         "installed_by": ["modules"]
                     },
                     "umitools/extract": {
                         "branch": "master",
-                        "git_sha": "ff7e93715a2acecf3f143ec78c9858deba2984d0",
+                        "git_sha": "d2c5e76f291379f3dd403e48e46ed7e6ba5da744",
                         "installed_by": ["fastq_fastqc_umitools_fastp", "modules"]
                     },
                     "untarfiles": {
@@ -86,7 +86,7 @@
                     },
                     "fastq_fastqc_umitools_fastp": {
                         "branch": "master",
-                        "git_sha": "003920c7f9a8ae19b69a97171922880220bedf56",
+                        "git_sha": "cabcc0dadf8366aa7a9930066a7b3dd90d9825d5",
                         "installed_by": ["subworkflows"]
                     },
                     "utils_nextflow_pipeline": {

diff --git a/modules/nf-core/fastp/main.nf b/modules/nf-core/fastp/main.nf
diff --git a/modules/nf-core/fastp/tests/main.nf.test b/modules/nf-core/fastp/tests/main.nf.test
diff --git a/modules/nf-core/fastp/tests/main.nf.test.snap b/modules/nf-core/fastp/tests/main.nf.test.snap
diff --git a/modules/nf-core/fastp/tests/nextflow.interleaved.config b/modules/nf-core/fastp/tests/nextflow.interleaved.config
diff --git a/modules/nf-core/fastp/tests/nextflow.config → ...e/fastp/tests/nextflow.save_failed.config b/modules/nf-core/fastp/tests/nextflow.config → ...e/fastp/tests/nextflow.save_failed.config
diff --git a/modules/nf-core/fastqc/main.nf b/modules/nf-core/fastqc/main.nf
diff --git a/modules/nf-core/umicollapse/tests/main.nf.test b/modules/nf-core/umicollapse/tests/main.nf.test
diff --git a/modules/nf-core/umicollapse/tests/main.nf.test.snap b/modules/nf-core/umicollapse/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