From 2a509996eda50fd6985e0134b1b8b47639c7bfcb Mon Sep 17 00:00:00 2001 From: maxulysse Date: Wed, 23 Oct 2024 16:54:24 +0200 Subject: [PATCH 1/2] update CHANGELOG --- CHANGELOG.md | 1 + 1 file changed, 1 insertion(+) diff --git a/CHANGELOG.md b/CHANGELOG.md index d22b296bf..51374d1e8 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -21,6 +21,7 @@ Special thanks to the following for their contributions to the release: - [PR #1424](https://github.com/nf-core/rnaseq/pull/1424) - Patch sortmerna to 4.3.7 for ARM compatibility - [PR #1425](https://github.com/nf-core/rnaseq/pull/1425) - Add profile for ARM compatibility - [PR #1432](https://github.com/nf-core/rnaseq/pull/1432) - Bump versions for 3.17.0 release +- [PR #1434](https://github.com/nf-core/rnaseq/pull/1434) - Default registry is quay.io for all containers ## [[3.16.1](https://github.com/nf-core/rnaseq/releases/tag/3.16.1)] - 2024-10-16 From 4316615c4d2469af037bda35a09706cd98613774 Mon Sep 17 00:00:00 2001 From: maxulysse Date: Wed, 23 Oct 2024 16:55:40 +0200 Subject: [PATCH 2/2] update and patch modules --- modules.json | 9 +- .../genomecov/bedtools-genomecov.diff | 35 ++++++++ modules/nf-core/bedtools/genomecov/main.nf | 2 +- modules/nf-core/cat/fastq/cat-fastq.diff | 35 ++++++++ modules/nf-core/cat/fastq/main.nf | 2 +- modules/nf-core/sortmerna/main.nf | 2 +- modules/nf-core/sortmerna/sortmerna.diff | 90 +++++++++++++------ modules/nf-core/star/align/main.nf | 2 +- modules/nf-core/star/align/star-align.diff | 38 ++++++++ modules/nf-core/star/genomegenerate/main.nf | 2 +- .../genomegenerate/star-genomegenerate.diff | 34 +++++++ 11 files changed, 218 insertions(+), 33 deletions(-) create mode 100644 modules/nf-core/bedtools/genomecov/bedtools-genomecov.diff create mode 100644 modules/nf-core/cat/fastq/cat-fastq.diff create mode 100644 modules/nf-core/star/align/star-align.diff create mode 100644 modules/nf-core/star/genomegenerate/star-genomegenerate.diff diff --git a/modules.json b/modules.json index 61692d607..9667d1b6b 100644 --- a/modules.json +++ b/modules.json @@ -24,7 +24,8 @@ "cat/fastq": { "branch": "master", "git_sha": "a1abf90966a2a4016d3c3e41e228bfcbd4811ccc", - "installed_by": ["fastq_qc_trim_filter_setstrandedness", "modules"] + "installed_by": ["fastq_qc_trim_filter_setstrandedness", "modules"], + "patch": "modules/nf-core/cat/fastq/cat-fastq.diff" }, "custom/catadditionalfasta": { "branch": "master", @@ -221,12 +222,14 @@ "star/align": { "branch": "master", "git_sha": "a5ad53288c79fa52c5ae708c317e09ec2dd149ab", - "installed_by": ["modules"] + "installed_by": ["modules"], + "patch": "modules/nf-core/star/align/star-align.diff" }, "star/genomegenerate": { "branch": "master", "git_sha": "a5ad53288c79fa52c5ae708c317e09ec2dd149ab", - "installed_by": ["modules"] + "installed_by": ["modules"], + "patch": "modules/nf-core/star/genomegenerate/star-genomegenerate.diff" }, "stringtie/stringtie": { "branch": "master", diff --git a/modules/nf-core/bedtools/genomecov/bedtools-genomecov.diff b/modules/nf-core/bedtools/genomecov/bedtools-genomecov.diff new file mode 100644 index 000000000..bb848b16f --- /dev/null +++ b/modules/nf-core/bedtools/genomecov/bedtools-genomecov.diff @@ -0,0 +1,35 @@ +Changes in module 'nf-core/bedtools/genomecov' +Changes in 'bedtools/genomecov/main.nf': +--- modules/nf-core/bedtools/genomecov/main.nf ++++ modules/nf-core/bedtools/genomecov/main.nf +@@ -5,7 +5,7 @@ + conda "${moduleDir}/environment.yml" + container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/63/6397750e9730a3fbcc5b4c43f14bd141c64c723fd7dad80e47921a68a7c3cd21/data': +- 'community.wave.seqera.io/library/bedtools_coreutils:a623c13f66d5262b' }" ++ 'nf-core/bedtools_coreutils:a623c13f66d5262b' }" + + input: + tuple val(meta), path(intervals), val(scale) + +'modules/nf-core/bedtools/genomecov/meta.yml' is unchanged +'modules/nf-core/bedtools/genomecov/environment.yml' is unchanged +'modules/nf-core/bedtools/genomecov/tests/main.nf.test.snap' is unchanged +'modules/nf-core/bedtools/genomecov/tests/nextflow.config' is unchanged +Changes in 'bedtools/genomecov/tests/main.nf.test': +--- modules/nf-core/bedtools/genomecov/tests/main.nf.test ++++ modules/nf-core/bedtools/genomecov/tests/main.nf.test +@@ -3,11 +3,6 @@ + script "../main.nf" + process "BEDTOOLS_GENOMECOV" + config "./nextflow.config" +- +- tag "modules" +- tag "modules_nfcore" +- tag "bedtools" +- tag "bedtools/genomecov" + + test("sarscov2 - no scale") { + when { + +************************************************************ diff --git a/modules/nf-core/bedtools/genomecov/main.nf b/modules/nf-core/bedtools/genomecov/main.nf index 35e2ab14b..91869ec23 100644 --- a/modules/nf-core/bedtools/genomecov/main.nf +++ b/modules/nf-core/bedtools/genomecov/main.nf @@ -5,7 +5,7 @@ process BEDTOOLS_GENOMECOV { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/63/6397750e9730a3fbcc5b4c43f14bd141c64c723fd7dad80e47921a68a7c3cd21/data': - 'community.wave.seqera.io/library/bedtools_coreutils:a623c13f66d5262b' }" + 'nf-core/bedtools_coreutils:a623c13f66d5262b' }" input: tuple val(meta), path(intervals), val(scale) diff --git a/modules/nf-core/cat/fastq/cat-fastq.diff b/modules/nf-core/cat/fastq/cat-fastq.diff new file mode 100644 index 000000000..debb8944b --- /dev/null +++ b/modules/nf-core/cat/fastq/cat-fastq.diff @@ -0,0 +1,35 @@ +Changes in module 'nf-core/cat/fastq' +'modules/nf-core/cat/fastq/nextflow.config' was created +Changes in 'cat/fastq/main.nf': +--- modules/nf-core/cat/fastq/main.nf ++++ modules/nf-core/cat/fastq/main.nf +@@ -5,7 +5,7 @@ + conda "${moduleDir}/environment.yml" + container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/c2/c262fc09eca59edb5a724080eeceb00fb06396f510aefb229c2d2c6897e63975/data' : +- 'community.wave.seqera.io/library/coreutils:9.5--ae99c88a9b28c264' }" ++ 'nf-core/coreutils:9.5--ae99c88a9b28c264' }" + + input: + tuple val(meta), path(reads, stageAs: "input*/*") + +'modules/nf-core/cat/fastq/meta.yml' is unchanged +'modules/nf-core/cat/fastq/environment.yml' is unchanged +'modules/nf-core/cat/fastq/tests/main.nf.test.snap' is unchanged +Changes in 'cat/fastq/tests/main.nf.test': +--- modules/nf-core/cat/fastq/tests/main.nf.test ++++ modules/nf-core/cat/fastq/tests/main.nf.test +@@ -5,10 +5,6 @@ + name "Test Process CAT_FASTQ" + script "../main.nf" + process "CAT_FASTQ" +- tag "modules" +- tag "modules_nfcore" +- tag "cat" +- tag "cat/fastq" + + test("test_cat_fastq_single_end") { + + +'modules/nf-core/cat/fastq/tests/tags.yml' was removed +************************************************************ diff --git a/modules/nf-core/cat/fastq/main.nf b/modules/nf-core/cat/fastq/main.nf index 4364a389b..f2848aa6e 100644 --- a/modules/nf-core/cat/fastq/main.nf +++ b/modules/nf-core/cat/fastq/main.nf @@ -5,7 +5,7 @@ process CAT_FASTQ { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/c2/c262fc09eca59edb5a724080eeceb00fb06396f510aefb229c2d2c6897e63975/data' : - 'community.wave.seqera.io/library/coreutils:9.5--ae99c88a9b28c264' }" + 'nf-core/coreutils:9.5--ae99c88a9b28c264' }" input: tuple val(meta), path(reads, stageAs: "input*/*") diff --git a/modules/nf-core/sortmerna/main.nf b/modules/nf-core/sortmerna/main.nf index 6850dc1d7..b479f0459 100644 --- a/modules/nf-core/sortmerna/main.nf +++ b/modules/nf-core/sortmerna/main.nf @@ -5,7 +5,7 @@ process SORTMERNA { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/15/15b50826336c394eab2bf6d731f00729921598ffc6463278da6316e768b16b8b/data' : - 'community.wave.seqera.io/library/sortmerna:4.3.7--6502243397c065ba' }" + 'nf-core/sortmerna:4.3.7--6502243397c065ba' }" input: tuple val(meta), path(reads) diff --git a/modules/nf-core/sortmerna/sortmerna.diff b/modules/nf-core/sortmerna/sortmerna.diff index 5c3b1775d..187650b2a 100644 --- a/modules/nf-core/sortmerna/sortmerna.diff +++ b/modules/nf-core/sortmerna/sortmerna.diff @@ -1,4 +1,5 @@ Changes in module 'nf-core/sortmerna' +'modules/nf-core/sortmerna/nextflow.config' was created Changes in 'sortmerna/main.nf': --- modules/nf-core/sortmerna/main.nf +++ modules/nf-core/sortmerna/main.nf @@ -9,11 +10,12 @@ Changes in 'sortmerna/main.nf': - 'https://depot.galaxyproject.org/singularity/sortmerna:4.3.6--h9ee0642_0' : - 'biocontainers/sortmerna:4.3.6--h9ee0642_0' }" + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/15/15b50826336c394eab2bf6d731f00729921598ffc6463278da6316e768b16b8b/data' : -+ 'community.wave.seqera.io/library/sortmerna:4.3.7--6502243397c065ba' }" ++ 'nf-core/sortmerna:4.3.7--6502243397c065ba' }" input: tuple val(meta), path(reads) +'modules/nf-core/sortmerna/meta.yml' is unchanged Changes in 'sortmerna/environment.yml': --- modules/nf-core/sortmerna/environment.yml +++ modules/nf-core/sortmerna/environment.yml @@ -24,8 +26,6 @@ Changes in 'sortmerna/environment.yml': - - bioconda::sortmerna=4.3.6 + - seqera::sortmerna=4.3.7 -'modules/nf-core/sortmerna/meta.yml' is unchanged -'modules/nf-core/sortmerna/nextflow.config' was created Changes in 'sortmerna/tests/main.nf.test.snap': --- modules/nf-core/sortmerna/tests/main.nf.test.snap +++ modules/nf-core/sortmerna/tests/main.nf.test.snap @@ -174,15 +174,15 @@ Changes in 'sortmerna/tests/main.nf.test.snap': - }, - "timestamp": "2024-02-26T15:01:53.832643452" + "2415186086593376314.bursttrie_0.dat:md5,74f7f020e8d46e24a8a2e9c5fbcd564a", -+ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef", -+ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7" ++ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7", ++ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef" + ] + ], + "meta": { + "nf-test": "0.9.0", + "nextflow": "24.04.4" + }, -+ "timestamp": "2024-10-22T10:40:14.159307146" ++ "timestamp": "2024-10-22T12:02:37.578808801" }, "versions_single_end_premade_index": { "content": [ @@ -208,8 +208,8 @@ Changes in 'sortmerna/tests/main.nf.test.snap': + "content": [ + [ + "2415186086593376314.bursttrie_0.dat:md5,74f7f020e8d46e24a8a2e9c5fbcd564a", -+ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef", -+ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7" ++ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7", ++ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef" + ], + [ + "versions.yml:md5,1ba8f45ec168b6ebfceb9d4a4203f655" @@ -219,7 +219,7 @@ Changes in 'sortmerna/tests/main.nf.test.snap': + "nf-test": "0.9.0", + "nextflow": "24.04.4" + }, -+ "timestamp": "2024-10-22T10:38:39.794977786" ++ "timestamp": "2024-10-22T11:59:11.705138075" }, "sarscov2 paired_end-for_stub_match": { "content": [ @@ -258,15 +258,15 @@ Changes in 'sortmerna/tests/main.nf.test.snap': - }, - "timestamp": "2024-02-26T14:24:14.272659781" + "2415186086593376314.bursttrie_0.dat:md5,74f7f020e8d46e24a8a2e9c5fbcd564a", -+ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef", -+ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7" ++ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7", ++ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef" + ] + ], + "meta": { + "nf-test": "0.9.0", + "nextflow": "24.04.4" + }, -+ "timestamp": "2024-10-22T10:39:48.72523749" ++ "timestamp": "2024-10-22T12:01:29.664107565" }, "sarscov2 single_end_premade_index_match_stub": { "content": [ @@ -463,15 +463,15 @@ Changes in 'sortmerna/tests/main.nf.test.snap': - }, - "timestamp": "2024-02-26T15:00:35.34089252" + "2415186086593376314.bursttrie_0.dat:md5,74f7f020e8d46e24a8a2e9c5fbcd564a", -+ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef", -+ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7" ++ "2415186086593376314.kmer_0.dat:md5,4a0bcb71b120f6a6949b7969292ef2e7", ++ "2415186086593376314.pos_0.dat:md5,bc2875e4cc4017707306565e396839ef" + ] + ], + "meta": { + "nf-test": "0.9.0", + "nextflow": "24.04.4" + }, -+ "timestamp": "2024-10-22T10:39:09.050777261" ++ "timestamp": "2024-10-22T12:00:30.580004574" }, "sarscov2 single_end_premade_index_match": { "content": [ @@ -492,48 +492,88 @@ Changes in 'sortmerna/tests/main.nf.test.snap': Changes in 'sortmerna/tests/main.nf.test': --- modules/nf-core/sortmerna/tests/main.nf.test +++ modules/nf-core/sortmerna/tests/main.nf.test -@@ -27,8 +27,10 @@ +@@ -24,11 +24,17 @@ + } + + then { ++ def index_files = file(process.out.index[0][1]).listFiles() ++ .findAll { !it.name.endsWith('.stats') } ++ .sort { a, b -> a.name <=> b.name } ++ assertAll( { assert process.success }, { assert ! process.out.reads }, - { assert snapshot(process.out.index).match("index_index_only") }, - { assert snapshot(process.out.versions).match("versions_index_only") } + { assert snapshot( -+ file(process.out.index[0][1]).listFiles().findAll { !it.name.endsWith(".stats") }, ++ index_files, + process.out.versions + ).match() }, ) } -@@ -92,7 +94,7 @@ +@@ -79,6 +85,10 @@ + } + + then { ++ def index_files = file(process.out.index[0][1]).listFiles() ++ .findAll { !it.name.endsWith('.stats') } ++ .sort { a, b -> a.name <=> b.name } ++ + assertAll( + { assert process.success }, + { assert process.out.reads }, +@@ -92,7 +102,7 @@ ).sort() ).match("sarscov2 single_end_match") }, - { assert snapshot(process.out.index).match("index_single_end") }, -+ { assert snapshot(file(process.out.index[0][1]).listFiles().findAll { !it.name.endsWith(".stats")}).match("index_single_end") }, ++ { assert snapshot(index_files).match("index_single_end") }, { assert snapshot(process.out.versions).match("versions_single_end") } ) } -@@ -170,7 +172,7 @@ +@@ -157,6 +167,10 @@ + } + + then { ++ def index_files = file(process.out.index[0][1]).listFiles() ++ .findAll { !it.name.endsWith('.stats') } ++ .sort { a, b -> a.name <=> b.name } ++ + assertAll( + { assert process.success }, + { assert process.out.reads }, +@@ -170,7 +184,7 @@ ).sort() ).match("sarscov2 paired_end_match") }, - { assert snapshot(process.out.index).match("index_paired_end") }, -+ { assert snapshot(file(process.out.index[0][1]).listFiles().findAll { !it.name.endsWith(".stats")}).match("index_paired_end") }, ++ { assert snapshot(index_files).match("index_paired_end") }, { assert snapshot(process.out.versions).match("versions_paired_end") } ) } -@@ -265,7 +267,7 @@ +@@ -252,6 +266,10 @@ + } + + then { ++ def index_files = file(process.out.index[0][1]).listFiles() ++ .findAll { !it.name.endsWith('.stats') } ++ .sort { a, b -> a.name <=> b.name } ++ + assertAll( + { assert process.success }, + { assert process.out.reads }, +@@ -265,7 +283,7 @@ ).sort() ).match("sarscov2 single_end_premade_index_match") }, - { assert snapshot(process.out.index).match("index_single_end_premade_index") }, -+ { assert snapshot(file(process.out.index[0][1]).listFiles().findAll { !it.name.endsWith(".stats") }).match("index_single_end_premade_index") }, ++ { assert snapshot(index_files).match("index_single_end_premade_index") }, { assert snapshot(process.out.versions).match("versions_single_end_premade_index") } ) } -'modules/nf-core/sortmerna/tests/tags.yml' is unchanged -'modules/nf-core/sortmerna/tests/premade_index.config' is unchanged 'modules/nf-core/sortmerna/tests/indexing_only.config' is unchanged +'modules/nf-core/sortmerna/tests/premade_index.config' is unchanged +'modules/nf-core/sortmerna/tests/tags.yml' was removed ************************************************************ diff --git a/modules/nf-core/star/align/main.nf b/modules/nf-core/star/align/main.nf index 417071ba9..b5d2fbd58 100644 --- a/modules/nf-core/star/align/main.nf +++ b/modules/nf-core/star/align/main.nf @@ -5,7 +5,7 @@ process STAR_ALIGN { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b425bc2a95806d878993f9a66dae3ae80ac2dafff4c208c5ae01b7a90a32fa91/data' : - 'community.wave.seqera.io/library/star_samtools_htslib_gawk:10c6e8c834460019' }" + 'nf-core/star_samtools_htslib_gawk:10c6e8c834460019' }" input: tuple val(meta), path(reads, stageAs: "input*/*") diff --git a/modules/nf-core/star/align/star-align.diff b/modules/nf-core/star/align/star-align.diff new file mode 100644 index 000000000..84e65ca00 --- /dev/null +++ b/modules/nf-core/star/align/star-align.diff @@ -0,0 +1,38 @@ +Changes in module 'nf-core/star/align' +Changes in 'star/align/main.nf': +--- modules/nf-core/star/align/main.nf ++++ modules/nf-core/star/align/main.nf +@@ -5,7 +5,7 @@ + conda "${moduleDir}/environment.yml" + container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b425bc2a95806d878993f9a66dae3ae80ac2dafff4c208c5ae01b7a90a32fa91/data' : +- 'community.wave.seqera.io/library/star_samtools_htslib_gawk:10c6e8c834460019' }" ++ 'nf-core/star_samtools_htslib_gawk:10c6e8c834460019' }" + + input: + tuple val(meta), path(reads, stageAs: "input*/*") + +'modules/nf-core/star/align/meta.yml' is unchanged +'modules/nf-core/star/align/environment.yml' is unchanged +'modules/nf-core/star/align/tests/main.nf.test.snap' is unchanged +'modules/nf-core/star/align/tests/nextflow.config' is unchanged +'modules/nf-core/star/align/tests/nextflow.starfusion.config' is unchanged +'modules/nf-core/star/align/tests/nextflow.arriba.config' is unchanged +Changes in 'star/align/tests/main.nf.test': +--- modules/nf-core/star/align/tests/main.nf.test ++++ modules/nf-core/star/align/tests/main.nf.test +@@ -3,11 +3,6 @@ + name "Test Process STAR_ALIGN" + script "../main.nf" + process "STAR_ALIGN" +- tag "modules" +- tag "modules_nfcore" +- tag "star" +- tag "star/align" +- tag "star/genomegenerate" + + test("homo_sapiens - single_end") { + config "./nextflow.config" + +'modules/nf-core/star/align/tests/tags.yml' was removed +************************************************************ diff --git a/modules/nf-core/star/genomegenerate/main.nf b/modules/nf-core/star/genomegenerate/main.nf index 8f0c67e76..bdd1d0db0 100644 --- a/modules/nf-core/star/genomegenerate/main.nf +++ b/modules/nf-core/star/genomegenerate/main.nf @@ -5,7 +5,7 @@ process STAR_GENOMEGENERATE { conda "${moduleDir}/environment.yml" container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b425bc2a95806d878993f9a66dae3ae80ac2dafff4c208c5ae01b7a90a32fa91/data' : - 'community.wave.seqera.io/library/star_samtools_htslib_gawk:10c6e8c834460019' }" + 'nf-core/star_samtools_htslib_gawk:10c6e8c834460019' }" input: tuple val(meta), path(fasta) diff --git a/modules/nf-core/star/genomegenerate/star-genomegenerate.diff b/modules/nf-core/star/genomegenerate/star-genomegenerate.diff new file mode 100644 index 000000000..515dd1bac --- /dev/null +++ b/modules/nf-core/star/genomegenerate/star-genomegenerate.diff @@ -0,0 +1,34 @@ +Changes in module 'nf-core/star/genomegenerate' +Changes in 'star/genomegenerate/main.nf': +--- modules/nf-core/star/genomegenerate/main.nf ++++ modules/nf-core/star/genomegenerate/main.nf +@@ -5,7 +5,7 @@ + conda "${moduleDir}/environment.yml" + container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ? + 'https://community-cr-prod.seqera.io/docker/registry/v2/blobs/sha256/b4/b425bc2a95806d878993f9a66dae3ae80ac2dafff4c208c5ae01b7a90a32fa91/data' : +- 'community.wave.seqera.io/library/star_samtools_htslib_gawk:10c6e8c834460019' }" ++ 'nf-core/star_samtools_htslib_gawk:10c6e8c834460019' }" + + input: + tuple val(meta), path(fasta) + +'modules/nf-core/star/genomegenerate/meta.yml' is unchanged +'modules/nf-core/star/genomegenerate/environment.yml' is unchanged +'modules/nf-core/star/genomegenerate/tests/main.nf.test.snap' is unchanged +Changes in 'star/genomegenerate/tests/main.nf.test': +--- modules/nf-core/star/genomegenerate/tests/main.nf.test ++++ modules/nf-core/star/genomegenerate/tests/main.nf.test +@@ -3,10 +3,6 @@ + name "Test Process STAR_GENOMEGENERATE" + script "../main.nf" + process "STAR_GENOMEGENERATE" +- tag "modules" +- tag "modules_nfcore" +- tag "star" +- tag "star/genomegenerate" + + test("fasta_gtf") { + + +'modules/nf-core/star/genomegenerate/tests/tags.yml' was removed +************************************************************