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[automated] Update json files
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Lines changed: 167 additions & 19 deletions

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‎public/components.json‎

Lines changed: 154 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -348417,6 +348417,158 @@
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},
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"git_sha": "760d460250049331d41480fbf32343a386e695c0"
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},
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{
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"name": "suppa_psiperevent",
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"path": "modules/nf-core/suppa/psiperevent/meta.yml",
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"tree_sha": "ad62598a6e63bdfda34baf0f8575340ca39a676d",
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"files": [
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"modules/nf-core/suppa/psiperevent/environment.yml",
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"modules/nf-core/suppa/psiperevent/main.nf",
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"modules/nf-core/suppa/psiperevent/meta.yml",
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"modules/nf-core/suppa/psiperevent/tests/main.nf.test",
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"modules/nf-core/suppa/psiperevent/tests/main.nf.test.snap"
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],
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"type": "module",
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"meta": {
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"name": "suppa_psiperevent",
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"description": "Calculate PSI values for alternative splicing events using SUPPA",
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"keywords": [
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"alternative splicing",
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"suppa",
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"psi",
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"genomics"
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],
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"tools": [
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{
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"suppa": {
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"description": "Fast, accurate, and uncertainty-aware differential splicing analysis across multiple conditions.",
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"homepage": "https://github.com/comprna/SUPPA",
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"documentation": "https://github.com/comprna/SUPPA",
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"tool_dev_url": "https://github.com/comprna/SUPPA",
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"doi": "10.1186/s13059-018-1417-1",
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"licence": [
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"MIT"
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],
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"identifier": "biotools:suppa"
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}
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}
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],
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"input": [
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[
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{
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"meta": {
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"type": "map",
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"description": "Groovy Map containing sample information\ne.g. `[ id:'sample1' ]`\n"
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}
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},
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{
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"expression": {
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"type": "file",
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"description": "Expression matrix file in TPM units",
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"pattern": "*.txt",
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"ontologies": []
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}
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}
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],
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[
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{
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"meta2": {
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"type": "map",
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"description": "Groovy Map containing genome information\ne.g. `[ id:'genome1' ]`\n"
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}
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},
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{
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"ioe": {
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"type": "file",
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"description": "Events file in ioe format",
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"pattern": "*.ioe",
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"ontologies": []
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}
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}
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],
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{
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"total_filter": {
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"type": "integer",
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"description": "Minimum total expression of the transcripts involved in the event to be considered for PSI calculation (default = 0)"
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}
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}
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],
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"output": {
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"psi": [
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[
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{
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"meta": {
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"type": "map",
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"description": "Groovy Map containing sample information\ne.g. `[ id:'sample1' ]`\n"
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}
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},
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{
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"*.psi": {
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"type": "file",
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"description": "PSI values file",
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"pattern": "*.psi",
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"ontologies": []
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}
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}
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]
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],
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"versions_suppa": [
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[
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{
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"${task.process}": {
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"type": "string",
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"description": "The name of the process"
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}
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},
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{
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"suppa": {
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"type": "string",
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"description": "The name of the tool"
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}
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},
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{
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"suppa.py -v | sed '1!d;s/.* //'": {
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"type": "eval",
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"description": "The expression to obtain the version of the tool"
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}
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}
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]
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]
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},
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"topics": {
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"versions": [
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[
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{
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"${task.process}": {
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"type": "string",
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"description": "The name of the process"
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}
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},
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{
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"suppa": {
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"type": "string",
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"description": "The name of the tool"
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}
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},
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{
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"suppa.py -v | sed '1!d;s/.* //'": {
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"type": "eval",
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"description": "The expression to obtain the version of the tool"
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}
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}
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]
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]
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},
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"authors": [
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"@lathikaa",
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"@piplus2"
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],
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"maintainers": [
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"@piplus2"
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]
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},
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"git_sha": "6a06fc880f6be6eb16f79e929a5ed50b915029dd"
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},
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{
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"name": "survivor_bedpetovcf",
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"path": "modules/nf-core/survivor/bedpetovcf/meta.yml",
@@ -406946,6 +407098,6 @@
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"git_sha": "9edc097c4904d60808b5c4c9978934e091aded1a"
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}
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],
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"commit_sha": "5488955899b1c02180ca6049d954f7be861b9e74",
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"updated_at": "2026-07-19T03:10:53.381Z"
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"commit_sha": "6a06fc880f6be6eb16f79e929a5ed50b915029dd",
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"updated_at": "2026-07-19T14:37:36.479Z"
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}

‎public/pipelines.json‎

Lines changed: 13 additions & 17 deletions
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@@ -997,9 +997,7 @@
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"is_DSL2": true,
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"has_nf_test": true,
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"has_nf_test_dev": true,
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"main_nextflow_config_plugins": [
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],
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"main_nextflow_config_plugins": [],
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"main_nextflow_config_manifest": {},
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"main_uses_params_block": false,
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"dev_nextflow_config_plugins": [
@@ -1035,9 +1033,7 @@
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},
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"nextflow_version": "!>=23.04.0",
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"nf_core_version": "3.3.1",
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"plugins": [
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"nf-validation@1.1.3"
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],
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"plugins": [],
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"co2footprint_files": null
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}
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]
@@ -17788,9 +17784,9 @@
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"url": "https://api.github.com/repos/nf-core/funcscan",
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"created_at": "2021-12-13T10:35:54Z",
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"updated_at": "2026-07-02T21:57:38Z",
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"pushed_at": "2026-07-17T09:25:29Z",
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"pushed_at": "2026-07-19T12:47:49Z",
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"homepage": "https://nf-co.re/funcscan",
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"size": 34818,
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"size": 34842,
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"stargazers_count": 117,
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"watchers_count": 117,
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"language": "Nextflow",
@@ -29311,9 +29307,9 @@
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"url": "https://api.github.com/repos/nf-core/methylseq",
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"created_at": "2018-03-12T15:46:42Z",
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"updated_at": "2026-07-18T10:37:52Z",
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"pushed_at": "2026-07-15T22:18:01Z",
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"pushed_at": "2026-07-19T10:33:39Z",
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"homepage": "https://nf-co.re/methylseq",
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"size": 27073,
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"size": 27077,
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"stargazers_count": 197,
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"watchers_count": 197,
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"language": "Nextflow",
@@ -29326,7 +29322,7 @@
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"forks_count": 175,
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"archived": false,
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"disabled": false,
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"open_issues_count": 36,
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"open_issues_count": 35,
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"allow_forking": true,
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"is_template": false,
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"web_commit_signoff_required": false,
@@ -29346,7 +29342,7 @@
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],
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"visibility": "public",
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"forks": 175,
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"open_issues": 36,
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"open_issues": 35,
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"watchers": 197,
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"default_branch": "master",
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"temp_clone_token": "",
@@ -29413,7 +29409,7 @@
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"dev_branch_protection_enforce_admins": false,
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"TEMPLATE_branch_exists": true,
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"has_required_topics": true,
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"open_pr_count": 11,
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"open_pr_count": 10,
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"repository_url": "https://github.com/nf-core/methylseq",
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"contributors": [
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{
@@ -30331,8 +30327,8 @@
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},
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{
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"tag_name": "dev",
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"published_at": "2026-07-15T22:18:00Z",
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"tag_sha": "ba449675bbaa47c4f198c60fc1bcc2c1fba0cedf",
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"published_at": "2026-07-19T10:33:39Z",
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"tag_sha": "aa3f4da99ac6b42f82086e139135c73430c19440",
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"has_schema": true,
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"doc_files": [
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@@ -52218,9 +52214,9 @@
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"url": "https://api.github.com/repos/nf-core/sarek",
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"created_at": "2019-04-30T15:43:00Z",
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"updated_at": "2026-07-18T12:49:55Z",
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"pushed_at": "2026-07-17T20:22:29Z",
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"pushed_at": "2026-07-19T09:00:55Z",
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"homepage": "https://nf-co.re/sarek",
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"size": 122362,
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"size": 122465,
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"stargazers_count": 583,
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"language": "Nextflow",

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