diff --git a/.cache.tar.xz b/.cache.tar.xz index c49c789255..fc31c58deb 100644 Binary files a/.cache.tar.xz and b/.cache.tar.xz differ diff --git a/public/components.json b/public/components.json index 1a1fcd6094..04ad739b61 100644 --- a/public/components.json +++ b/public/components.json @@ -440,7 +440,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "taxprofiler", @@ -2813,7 +2813,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "proteinfold", @@ -3946,6 +3946,10 @@ "name": "rnafusion", "version": "3.0.1" }, + { + "name": "rnafusion", + "version": "3.0.1" + }, { "name": "rnafusion", "version": "3.0.1" @@ -7251,7 +7255,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "metatdenovo", @@ -8077,7 +8081,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "viralrecon", @@ -8395,7 +8399,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "phaseimpute", @@ -9804,7 +9808,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "phaseimpute", @@ -16562,7 +16566,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "metatdenovo", @@ -18707,7 +18711,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -18820,7 +18824,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -21834,7 +21838,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -21928,7 +21932,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -22020,7 +22024,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -22108,7 +22112,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -22188,7 +22192,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -24331,7 +24335,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "marsseq", @@ -25408,7 +25412,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -25498,7 +25502,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -32264,7 +32268,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "nascent", @@ -32484,7 +32488,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "marsseq", @@ -34527,7 +34531,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "radseq", @@ -37172,6 +37176,10 @@ "name": "rnadnavar", "version": "dev" }, + { + "name": "rnadnavar", + "version": "dev" + }, { "name": "rnadnavar", "version": "dev" @@ -38545,6 +38553,10 @@ "name": "rnadnavar", "version": "dev" }, + { + "name": "rnadnavar", + "version": "dev" + }, { "name": "rnadnavar", "version": "dev" @@ -43070,6 +43082,10 @@ "name": "rnadnavar", "version": "dev" }, + { + "name": "rnadnavar", + "version": "dev" + }, { "name": "rnadnavar", "version": "dev" @@ -47487,7 +47503,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "phageannotator", @@ -47668,7 +47684,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "phageannotator", @@ -52202,7 +52218,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -52382,7 +52398,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -52471,7 +52487,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -52564,7 +52580,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -52680,7 +52696,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "marsseq", @@ -65901,7 +65917,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -67695,7 +67711,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -67812,7 +67828,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -67914,7 +67930,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -70117,7 +70133,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -72043,7 +72059,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "marsseq", @@ -85136,7 +85152,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "metapep", @@ -85315,7 +85331,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "metatdenovo", @@ -86979,7 +86995,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -87064,7 +87080,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -91810,7 +91826,7 @@ }, { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "methylseq", @@ -97573,7 +97589,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" }, { "name": "metatdenovo", @@ -108122,7 +108138,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -118354,7 +118370,7 @@ "pipelines": [ { "name": "mag", - "version": "2.5.1" + "version": "2.5.2" } ] }, @@ -121732,6 +121748,10 @@ "name": "fetchngs", "version": "1.11.0" }, + { + "name": "fetchngs", + "version": "1.11.0" + }, { "name": "fetchngs", "version": "1.11.0" @@ -122521,6 +122541,10 @@ "name": "fetchngs", "version": "1.11.0" }, + { + "name": "fetchngs", + "version": "1.11.0" + }, { "name": "fetchngs", "version": "1.11.0" @@ -123343,6 +123367,10 @@ "name": "fetchngs", "version": "1.11.0" }, + { + "name": "fetchngs", + "version": "1.11.0" + }, { "name": "fetchngs", "version": "1.11.0" diff --git a/public/pipelines.json b/public/pipelines.json index 5db8c0e059..544226bb51 100644 --- a/public/pipelines.json +++ b/public/pipelines.json @@ -3342,7 +3342,7 @@ "forks_count": 13, "archived": false, "disabled": false, - "open_issues_count": 16, + "open_issues_count": 17, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -3354,7 +3354,7 @@ ], "visibility": "public", "forks": 13, - "open_issues": 16, + "open_issues": 17, "watchers": 18, "default_branch": "master", "custom_properties": {}, @@ -4775,7 +4775,7 @@ "url": "https://api.github.com/repos/nf-core/demultiplex", "created_at": "2020-03-05T15:48:10Z", "updated_at": "2024-01-25T05:15:04Z", - "pushed_at": "2024-02-02T12:53:40Z", + "pushed_at": "2024-02-02T18:53:55Z", "homepage": "https://nf-co.re/demultiplex", "size": 13162, "stargazers_count": 31, @@ -6137,9 +6137,9 @@ "url": "https://api.github.com/repos/nf-core/eager", "created_at": "2018-06-03T15:52:24Z", "updated_at": "2024-01-29T11:17:56Z", - "pushed_at": "2024-02-02T13:30:10Z", + "pushed_at": "2024-02-02T22:24:16Z", "homepage": "https://nf-co.re/eager", - "size": 66225, + "size": 66272, "stargazers_count": 117, "watchers_count": 117, "language": "Nextflow", @@ -6997,7 +6997,7 @@ "url": "https://api.github.com/repos/nf-core/fetchngs", "created_at": "2021-06-03T09:26:41Z", "updated_at": "2024-01-29T23:25:06Z", - "pushed_at": "2024-02-02T12:25:37Z", + "pushed_at": "2024-02-02T16:01:44Z", "homepage": "https://nf-co.re/fetchngs", "size": 3558, "stargazers_count": 97, @@ -10147,9 +10147,9 @@ "url": "https://api.github.com/repos/nf-core/mag", "created_at": "2018-05-22T06:06:58Z", "updated_at": "2024-01-27T19:14:55Z", - "pushed_at": "2024-02-02T14:01:12Z", + "pushed_at": "2024-02-02T23:03:15Z", "homepage": "https://nf-co.re/mag", - "size": 19494, + "size": 19522, "stargazers_count": 167, "watchers_count": 167, "language": "Nextflow", @@ -10184,7 +10184,7 @@ "custom_properties": {}, "network_count": 93, "subscribers_count": 132, - "open_pr_count": 4, + "open_pr_count": 3, "contributors": [ { "name": "skrakau", @@ -10193,7 +10193,7 @@ }, { "name": "jfy133", - "count": 501, + "count": 542, "avatar_url": "https://avatars.githubusercontent.com/u/17950287?v=4" }, { @@ -10213,7 +10213,7 @@ }, { "name": "maxibor", - "count": 83, + "count": 98, "avatar_url": "https://avatars.githubusercontent.com/u/8630837?v=4" }, { @@ -10238,7 +10238,7 @@ }, { "name": "CarsonJM", - "count": 18, + "count": 24, "avatar_url": "https://avatars.githubusercontent.com/u/68351153?v=4" }, { @@ -10323,6 +10323,63 @@ } ], "releases": [ + { + "tag_name": "2.5.2", + "published_at": "2024-02-02T14:30:07Z", + "tag_sha": "274412afa54f477dccf4d6230506ec7de3dfaa4d", + "has_schema": true, + "doc_files": [ + "docs/output.md", + "docs/usage.md" + ], + "components": { + "modules": [ + "adapterremoval", + "aria2", + "bbmap_bbnorm", + "bcftools_consensus", + "bcftools_index", + "bcftools_view", + "cat_fastq", + "checkm_lineagewf", + "checkm_qa", + "concoct_concoct", + "concoct_concoctcoveragetable", + "concoct_cutupfasta", + "concoct_extractfastabins", + "concoct_mergecutupclustering", + "custom_dumpsoftwareversions", + "dastool_dastool", + "dastool_fastatocontig2bin", + "fastp", + "fastqc", + "freebayes", + "genomad_download", + "genomad_endtoend", + "gtdbtk_classifywf", + "gunc_downloaddb", + "gunc_mergecheckm", + "gunc_run", + "gunzip", + "maxbin2", + "metabat2_jgisummarizebamcontigdepths", + "metabat2_metabat2", + "metaeuk_easypredict", + "mmseqs_databases", + "multiqc", + "prodigal", + "prokka", + "pydamage_analyze", + "pydamage_filter", + "samtools_faidx", + "seqtk_mergepe", + "tiara_tiara" + ], + "subworkflows": [ + "fasta_binning_concoct" + ] + } + }, { "tag_name": "2.5.1", "published_at": "2023-11-17T04:37:45Z", @@ -10800,8 +10857,8 @@ }, { "tag_name": "dev", - "published_at": "2024-02-02T14:01:09Z", - "tag_sha": "9f4aa1df06a3bd22b8b130fdb1feb0958e0c4865", + "published_at": "2024-02-02T21:53:04Z", + "tag_sha": "4594c93cc3a849b11ffe0b988bd2cf26851ddb28", "has_schema": true, "doc_files": [ "docs/output.md", @@ -11507,7 +11564,7 @@ "forks_count": 123, "archived": false, "disabled": false, - "open_issues_count": 32, + "open_issues_count": 31, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -11523,7 +11580,7 @@ ], "visibility": "public", "forks": 123, - "open_issues": 32, + "open_issues": 31, "watchers": 124, "default_branch": "master", "custom_properties": {}, @@ -15222,9 +15279,9 @@ "url": "https://api.github.com/repos/nf-core/raredisease", "created_at": "2021-06-21T09:40:29Z", "updated_at": "2024-01-25T05:26:23Z", - "pushed_at": "2024-02-02T13:17:03Z", + "pushed_at": "2024-02-02T20:59:32Z", "homepage": "https://nf-co.re/raredisease", - "size": 8714, + "size": 8771, "stargazers_count": 64, "watchers_count": 64, "language": "Nextflow", @@ -15237,7 +15294,7 @@ "forks_count": 29, "archived": false, "disabled": false, - "open_issues_count": 28, + "open_issues_count": 25, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -15253,13 +15310,13 @@ ], "visibility": "public", "forks": 29, - "open_issues": 28, + "open_issues": 25, "watchers": 64, "default_branch": "master", "custom_properties": {}, "network_count": 29, "subscribers_count": 130, - "open_pr_count": 2, + "open_pr_count": 1, "contributors": [ { "name": "ramprasadn", @@ -15634,8 +15691,8 @@ }, { "tag_name": "dev", - "published_at": "2024-02-01T15:38:11Z", - "tag_sha": "32c518de6f89722914df2e696be0ce4a83fb100a", + "published_at": "2024-02-02T16:51:58Z", + "tag_sha": "561bdcc678662b2d8fe67e34f5b08b0d96db3c6d", "has_schema": true, "doc_files": [ "docs/output.md", @@ -15652,6 +15709,7 @@ "bcftools_roh", "bcftools_sort", "bcftools_view", + "bedtools_genomecov", "bwa_index", "bwa_mem", "bwamem2_index", @@ -15758,9 +15816,9 @@ "url": "https://api.github.com/repos/nf-core/readsimulator", "created_at": "2023-09-26T03:28:00Z", "updated_at": "2024-01-17T23:16:09Z", - "pushed_at": "2024-02-01T23:37:49Z", + "pushed_at": "2024-02-02T18:50:37Z", "homepage": "https://nf-co.re/readsimulator", - "size": 3074, + "size": 7860, "stargazers_count": 8, "watchers_count": 8, "language": "Nextflow", @@ -15773,20 +15831,20 @@ "forks_count": 4, "archived": false, "disabled": false, - "open_issues_count": 8, + "open_issues_count": 7, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, "topics": [], "visibility": "public", "forks": 4, - "open_issues": 8, + "open_issues": 7, "watchers": 8, "default_branch": "dev", "custom_properties": {}, "network_count": 4, - "subscribers_count": 163, - "open_pr_count": 2, + "subscribers_count": 162, + "open_pr_count": 1, "contributors": [ { "name": "a4000", @@ -15795,7 +15853,7 @@ }, { "name": "CarsonJM", - "count": 8, + "count": 16, "avatar_url": "https://avatars.githubusercontent.com/u/68351153?v=4" }, { @@ -15812,8 +15870,8 @@ "releases": [ { "tag_name": "dev", - "published_at": "2024-02-01T23:37:46Z", - "tag_sha": "0f5f9313172bdd14a0d2f8dc72750dc2f861bc09", + "published_at": "2024-02-02T18:50:33Z", + "tag_sha": "8ccb7a99bd09db6a7e7793c1f6a7821158e652e0", "has_schema": true, "doc_files": [ "docs/output.md", @@ -18882,9 +18940,9 @@ "url": "https://api.github.com/repos/nf-core/sammyseq", "created_at": "2022-10-12T09:18:16Z", "updated_at": "2023-11-14T00:09:35Z", - "pushed_at": "2024-01-29T15:13:33Z", + "pushed_at": "2024-02-02T17:18:46Z", "homepage": "https://nf-co.re/sammyseq", - "size": 2599, + "size": 2752, "stargazers_count": 0, "watchers_count": 0, "language": "Nextflow", @@ -18897,20 +18955,20 @@ "forks_count": 1, "archived": false, "disabled": false, - "open_issues_count": 3, + "open_issues_count": 4, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, "topics": [], "visibility": "public", "forks": 1, - "open_issues": 3, + "open_issues": 4, "watchers": 0, "default_branch": "dev", "custom_properties": {}, "network_count": 1, "subscribers_count": 146, - "open_pr_count": 1, + "open_pr_count": 2, "contributors": [ { "name": "daisymut", @@ -18989,7 +19047,7 @@ "forks_count": 348, "archived": false, "disabled": false, - "open_issues_count": 182, + "open_issues_count": 183, "allow_forking": true, "is_template": false, "web_commit_signoff_required": false, @@ -19008,7 +19066,7 @@ ], "visibility": "public", "forks": 348, - "open_issues": 182, + "open_issues": 183, "watchers": 306, "default_branch": "master", "custom_properties": { @@ -22235,9 +22293,9 @@ "url": "https://api.github.com/repos/nf-core/smrnaseq", "created_at": "2018-07-11T14:56:59Z", "updated_at": "2024-01-25T05:19:10Z", - "pushed_at": "2024-02-01T16:16:53Z", + "pushed_at": "2024-02-02T14:48:21Z", "homepage": "https://nf-co.re/smrnaseq", - "size": 8080, + "size": 8094, "stargazers_count": 63, "watchers_count": 63, "language": "Nextflow", @@ -22657,7 +22715,7 @@ "updated_at": "2024-01-29T14:53:35Z", "pushed_at": "2024-02-02T13:42:08Z", "homepage": "https://nf-co.re/spatialtranscriptomics", - "size": 6729, + "size": 6735, "stargazers_count": 36, "watchers_count": 36, "language": "Nextflow",