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Updated all nf-core modules and subworkflows
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@nschcolnicov
nschcolnicov committed Dec 3, 2024
1 parent 6307b48 commit 64b12af
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Showing 88 changed files with 4,848 additions and 1,144 deletions.
44 changes: 22 additions & 22 deletions modules.json
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Original file line number Diff line number Diff line change
Expand Up @@ -7,97 +7,97 @@
"nf-core": {
"affy/justrma": {
"branch": "master",
"git_sha": "02a65e8871e06bac203dec16985fa3de648c99b6",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"atlasgeneannotationmanipulation/gtf2featureannotation": {
"branch": "master",
"git_sha": "04bc484c987b523ea5420ed6bbc1fdc6d8aef751",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"custom/matrixfilter": {
"branch": "master",
"git_sha": "285a50500f9e02578d90b3ce6382ea3c30216acd",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"custom/tabulartogseacls": {
"branch": "master",
"git_sha": "b7ebe95761cd389603f9cc0e0dc384c0f663815a",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"custom/tabulartogseagct": {
"branch": "master",
"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"deseq2/differential": {
"branch": "master",
"git_sha": "9326d73af3fbe2ee90d9ce0a737461a727c5118e",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"geoquery/getgeo": {
"branch": "master",
"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gprofiler2/gost": {
"branch": "master",
"git_sha": "c75e76bff35e2ee5305ebe89b513637b38e79d1d",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gsea/gsea": {
"branch": "master",
"git_sha": "7aa7ced253469386f0645133ec3e838098dbe67c",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"gunzip": {
"branch": "master",
"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"limma/differential": {
"branch": "master",
"git_sha": "2ccee1830c4b65b9158f5750408ddfb6c7b12e9a",
"git_sha": "136f443c0a6d5c526410c7c9b73ce51ef457c341",
"installed_by": ["modules"]
},
"proteus/readproteingroups": {
"branch": "master",
"git_sha": "a069b29783583c219c1f23ed3dcf64a5aee1340b",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"rmarkdownnotebook": {
"branch": "master",
"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"shinyngs/app": {
"branch": "master",
"git_sha": "91fc36585a50f9bae98cb5b3dff36ce64c83a6b4",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"shinyngs/staticdifferential": {
"branch": "master",
"git_sha": "91fc36585a50f9bae98cb5b3dff36ce64c83a6b4",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"shinyngs/staticexploratory": {
"branch": "master",
"git_sha": "91fc36585a50f9bae98cb5b3dff36ce64c83a6b4",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"shinyngs/validatefomcomponents": {
"branch": "master",
"git_sha": "91fc36585a50f9bae98cb5b3dff36ce64c83a6b4",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"untar": {
"branch": "master",
"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
},
"zip": {
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"git_sha": "516189e968feb4ebdd9921806988b4c12b4ac2dc",
"git_sha": "666652151335353eef2fcd58880bcef5bc2928e1",
"installed_by": ["modules"]
}
}
Expand All @@ -106,17 +106,17 @@
"nf-core": {
"utils_nextflow_pipeline": {
"branch": "master",
"git_sha": "3aa0aec1d52d492fe241919f0c6100ebf0074082",
"git_sha": "c2b22d85f30a706a3073387f30380704fcae013b",
"installed_by": ["subworkflows"]
},
"utils_nfcore_pipeline": {
"branch": "master",
"git_sha": "1b6b9a3338d011367137808b49b923515080e3ba",
"git_sha": "d588e574e40a8aeba3636e2b766358091bfa3aa0",
"installed_by": ["subworkflows"]
},
"utils_nfschema_plugin": {
"branch": "master",
"git_sha": "bbd5a41f4535a8defafe6080e00ea74c45f4f96c",
"git_sha": "2fd2cd6d0e7b273747f32e465fdc6bcc3ae0814e",
"installed_by": ["subworkflows"]
}
}
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3 changes: 1 addition & 2 deletions modules/nf-core/affy/justrma/environment.yml
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10 changes: 10 additions & 0 deletions modules/nf-core/affy/justrma/main.nf
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90 changes: 55 additions & 35 deletions modules/nf-core/affy/justrma/meta.yml
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12 changes: 8 additions & 4 deletions modules/nf-core/affy/justrma/templates/affy_justrma.R
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