diff --git a/.cache.tar.xz b/.cache.tar.xz index 77de19150f..4f560d443c 100644 Binary files a/.cache.tar.xz and b/.cache.tar.xz differ diff --git a/public/components.json b/public/components.json index f5f33ea0a0..824df07e31 100644 --- a/public/components.json +++ b/public/components.json @@ -8852,6 +8852,10 @@ "name": "rnafusion", "version": "3.0.2" }, + { + "name": "rnafusion", + "version": "3.0.2" + }, { "name": "rnafusion", "version": "3.0.2" @@ -112079,6 +112083,22 @@ "name": "pathogensurveillance", "version": "dev" }, + { + "name": "phyloplace", + "version": "1.0.0" + }, + { + "name": "ampliseq", + "version": "2.12.0" + }, + { + "name": "multiplesequencealign", + "version": "1.0.0" + }, + { + "name": "pathogensurveillance", + "version": "dev" + }, { "name": "phyloplace", "version": "1.0.0" @@ -137791,6 +137811,10 @@ "name": "viralrecon", "version": "2.6.0" }, + { + "name": "viralrecon", + "version": "2.6.0" + }, { "name": "viralrecon", "version": "2.6.0" @@ -213708,6 +213732,10 @@ "name": "phageannotator", "version": "dev" }, + { + "name": "phageannotator", + "version": "dev" + }, { "name": "phageannotator", "version": "dev" diff --git a/public/pipelines.json b/public/pipelines.json index 1dd1a1c14a..602ce8bde2 100644 --- a/public/pipelines.json +++ b/public/pipelines.json @@ -10787,7 +10787,7 @@ "url": "https://api.github.com/repos/nf-core/differentialabundance", "created_at": "2022-10-12T08:49:25Z", "updated_at": "2025-01-27T11:40:40Z", - "pushed_at": "2025-01-31T14:30:41Z", + "pushed_at": "2025-02-04T09:40:16Z", "homepage": "https://nf-co.re/differentialabundance", "size": 9625, "stargazers_count": 72, @@ -12442,9 +12442,9 @@ "url": "https://api.github.com/repos/nf-core/epitopeprediction", "created_at": "2018-11-28T15:37:41Z", "updated_at": "2024-12-15T15:39:48Z", - "pushed_at": "2025-02-03T21:29:10Z", + "pushed_at": "2025-02-04T07:48:28Z", "homepage": "https://nf-co.re/epitopeprediction", - "size": 4914, + "size": 4922, "stargazers_count": 43, "watchers_count": 43, "language": "Nextflow", @@ -13118,12 +13118,12 @@ "fork": false, "url": "https://api.github.com/repos/nf-core/fastqrepair", "created_at": "2024-09-06T16:54:32Z", - "updated_at": "2025-02-03T13:03:44Z", - "pushed_at": "2025-02-03T18:33:35Z", + "updated_at": "2025-02-04T09:39:49Z", + "pushed_at": "2025-02-04T09:03:48Z", "homepage": "https://nf-co.re/fastqrepair", - "size": 3115, - "stargazers_count": 2, - "watchers_count": 2, + "size": 3132, + "stargazers_count": 3, + "watchers_count": 3, "language": "Nextflow", "has_issues": true, "has_projects": false, @@ -13134,7 +13134,7 @@ "forks_count": 2, "archived": false, "disabled": false, - "open_issues_count": 1, + "open_issues_count": 0, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -13152,9 +13152,9 @@ ], "visibility": "public", "forks": 2, - "open_issues": 1, - "watchers": 2, - "default_branch": "dev", + "open_issues": 0, + "watchers": 3, + "default_branch": "master", "temp_clone_token": "", "allow_squash_merge": true, "allow_merge_commit": true, @@ -13232,12 +13232,12 @@ "TEMPLATE_branch_protection_enforce_admins": -1, "TEMPLATE_restrict_push": true, "has_required_topics": false, - "open_pr_count": 1, + "open_pr_count": 0, "repository_url": "https://github.com/nf-core/fastqrepair", "contributors": [ { "name": "mazzalab", - "count": 102, + "count": 103, "avatar_url": "https://avatars.githubusercontent.com/u/10012441?v=4" }, { @@ -13249,12 +13249,17 @@ "name": "mashehu", "count": 2, "avatar_url": "https://avatars.githubusercontent.com/u/6169021?v=4" + }, + { + "name": "jfy133", + "count": 1, + "avatar_url": "https://avatars.githubusercontent.com/u/17950287?v=4" } ], "released_after_tools": true, - "head_sha": "1becdcd1e46a75051319280d58fa27ff3911ee18", + "head_sha": "8be393a22f0a6461724d7f399bf7f150396aeb65", "last_release_is_head": false, - "last_release_vs_default_compare_url": "https://github.com/nf-core/fastqrepair/compare/1becdcd1e46a75051319280d58fa27ff3911ee18...5f102cae4cfaa1d9281b9702ccc3738d9974e388", + "last_release_vs_default_compare_url": "https://github.com/nf-core/fastqrepair/compare/8be393a22f0a6461724d7f399bf7f150396aeb65...5f102cae4cfaa1d9281b9702ccc3738d9974e388", "commits_to_dev": 30, "is_DSL2": true, "has_nf_test": true, @@ -13307,8 +13312,8 @@ }, { "tag_name": "dev", - "published_at": "2025-02-03T13:02:41Z", - "tag_sha": "1becdcd1e46a75051319280d58fa27ff3911ee18", + "published_at": "2025-02-04T07:15:29Z", + "tag_sha": "93f777f443284e897a0eae5939a298160409ea9b", "has_schema": true, "doc_files": [ "docs/output.md", @@ -14152,9 +14157,9 @@ "url": "https://api.github.com/repos/nf-core/funcscan", "created_at": "2021-12-13T10:35:54Z", "updated_at": "2025-01-23T15:12:07Z", - "pushed_at": "2025-02-03T11:37:59Z", + "pushed_at": "2025-02-04T08:34:48Z", "homepage": "https://nf-co.re/funcscan", - "size": 19456, + "size": 19465, "stargazers_count": 78, "watchers_count": 78, "language": "Nextflow", @@ -14167,7 +14172,7 @@ "forks_count": 22, "archived": false, "disabled": false, - "open_issues_count": 20, + "open_issues_count": 21, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -14190,7 +14195,7 @@ ], "visibility": "public", "forks": 22, - "open_issues": 20, + "open_issues": 21, "watchers": 78, "default_branch": "master", "temp_clone_token": "", @@ -19166,10 +19171,10 @@ "has_wiki": false, "has_pages": false, "has_discussions": false, - "forks_count": 116, + "forks_count": 117, "archived": false, "disabled": false, - "open_issues_count": 72, + "open_issues_count": 74, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -19184,8 +19189,8 @@ "nanopore-sequencing" ], "visibility": "public", - "forks": 116, - "open_issues": 72, + "forks": 117, + "open_issues": 74, "watchers": 226, "default_branch": "master", "temp_clone_token": "", @@ -19218,7 +19223,7 @@ "status": "disabled" } }, - "network_count": 116, + "network_count": 117, "subscribers_count": 160, "team_contributors_permission_push": true, "team_contributors_permission_admin": false, @@ -21610,10 +21615,10 @@ "fork": false, "url": "https://api.github.com/repos/nf-core/meerpipe", "created_at": "2023-05-24T00:09:36Z", - "updated_at": "2025-02-04T00:31:00Z", - "pushed_at": "2025-02-04T00:30:57Z", + "updated_at": "2025-02-04T04:08:16Z", + "pushed_at": "2025-02-04T04:08:12Z", "homepage": "", - "size": 2919, + "size": 2937, "stargazers_count": 7, "watchers_count": 7, "language": "Nextflow", @@ -21723,14 +21728,14 @@ }, { "name": "emmacarli", - "count": 12, + "count": 15, "avatar_url": "https://avatars.githubusercontent.com/u/39613453?v=4" } ], "released_after_tools": false, - "head_sha": "cab3c4c3a6fd68a0d301c5a02f7d2dc551fca9fd", + "head_sha": "e954c3ae8008413494edac67f6edf324c8950501", "last_release_is_head": false, - "last_release_vs_default_compare_url": "https://github.com/nf-core/meerpipe/compare/cab3c4c3a6fd68a0d301c5a02f7d2dc551fca9fd...undefined", + "last_release_vs_default_compare_url": "https://github.com/nf-core/meerpipe/compare/e954c3ae8008413494edac67f6edf324c8950501...undefined", "commits_to_dev": 30, "is_DSL2": true, "has_nf_test": true, @@ -21751,8 +21756,8 @@ "releases": [ { "tag_name": "dev", - "published_at": "2025-02-04T00:30:56Z", - "tag_sha": "cab3c4c3a6fd68a0d301c5a02f7d2dc551fca9fd", + "published_at": "2025-02-04T04:08:12Z", + "tag_sha": "e954c3ae8008413494edac67f6edf324c8950501", "has_schema": true, "doc_files": [ "docs/output.md", @@ -22279,9 +22284,9 @@ "url": "https://api.github.com/repos/nf-core/metatdenovo", "created_at": "2021-10-19T18:58:24Z", "updated_at": "2025-01-13T10:38:19Z", - "pushed_at": "2025-02-03T10:53:38Z", + "pushed_at": "2025-02-04T07:53:10Z", "homepage": "https://nf-co.re/metatdenovo", - "size": 14101, + "size": 14103, "stargazers_count": 23, "watchers_count": 23, "language": "Nextflow", @@ -22294,7 +22299,7 @@ "forks_count": 11, "archived": false, "disabled": false, - "open_issues_count": 12, + "open_issues_count": 13, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -22307,7 +22312,7 @@ ], "visibility": "public", "forks": 11, - "open_issues": 12, + "open_issues": 13, "watchers": 23, "default_branch": "master", "temp_clone_token": "", @@ -22545,8 +22550,8 @@ }, { "tag_name": "dev", - "published_at": "2025-02-03T10:53:38Z", - "tag_sha": "404c31aef286fd5e45733063488eb82c7f49ce7a", + "published_at": "2025-02-04T07:53:09Z", + "tag_sha": "49845fc61839aff161b9927fccc277b45601d7e8", "has_schema": true, "doc_files": [ "docs/output.md", @@ -22904,7 +22909,7 @@ "url": "https://api.github.com/repos/nf-core/methylseq", "created_at": "2018-03-12T15:46:42Z", "updated_at": "2025-01-24T04:56:08Z", - "pushed_at": "2025-01-27T14:47:53Z", + "pushed_at": "2025-02-04T09:06:10Z", "homepage": "https://nf-co.re/methylseq", "size": 24705, "stargazers_count": 156, @@ -22919,7 +22924,7 @@ "forks_count": 147, "archived": false, "disabled": false, - "open_issues_count": 27, + "open_issues_count": 26, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -22935,7 +22940,7 @@ ], "visibility": "public", "forks": 147, - "open_issues": 27, + "open_issues": 26, "watchers": 156, "default_branch": "master", "temp_clone_token": "", @@ -23016,7 +23021,7 @@ "TEMPLATE_branch_protection_enforce_admins": -1, "TEMPLATE_restrict_push": true, "has_required_topics": true, - "open_pr_count": 5, + "open_pr_count": 4, "repository_url": "https://github.com/nf-core/methylseq", "contributors": [ { @@ -23198,7 +23203,7 @@ ] }, "dev_nextflow_config_plugins": [ - "nf-schema@2.1.1" + "nf-schema@2.3.0" ], "dev_nextflow_config_manifest": { "defaultBranch": [ @@ -23699,8 +23704,8 @@ }, { "tag_name": "dev", - "published_at": "2024-12-23T11:23:03Z", - "tag_sha": "f23814aa7fa591f6bd1adea8024865d2d6367232", + "published_at": "2025-02-04T09:05:39Z", + "tag_sha": "af7c0f4c3407e4f097323cb5cf1f7ed6637cf945", "has_schema": true, "doc_files": [ "docs/output.md", @@ -27005,8 +27010,8 @@ } }, "network_count": 2, - "subscribers_count": 7, - "team_contributors_permission_push": false, + "subscribers_count": 254, + "team_contributors_permission_push": true, "team_contributors_permission_admin": false, "team_core_permission_push": true, "team_core_permission_admin": true, @@ -42772,7 +42777,7 @@ "forks_count": 22, "archived": false, "disabled": false, - "open_issues_count": 32, + "open_issues_count": 33, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -42782,7 +42787,7 @@ ], "visibility": "public", "forks": 22, - "open_issues": 32, + "open_issues": 33, "watchers": 7, "default_branch": "master", "temp_clone_token": "", @@ -42885,7 +42890,7 @@ "TEMPLATE_branch_protection_enforce_admins": -1, "TEMPLATE_restrict_push": true, "has_required_topics": true, - "open_pr_count": 6, + "open_pr_count": 7, "repository_url": "https://github.com/nf-core/seqinspector", "contributors": [ {