From c63cdf1a24d5cd23f1a5e01255d18adb40c0492b Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Thu, 1 May 2025 20:32:33 +1200 Subject: [PATCH 01/54] Check build Signed-off-by: Christopher Hakkaart --- docusaurus.config.js | 24 ++++++++++++++++++++++++ internal/fetch-docs-oss.mjs | 6 ++++++ nextflow_docs/sidebar.js | 12 ++++++++++++ 3 files changed, 42 insertions(+) create mode 100644 nextflow_docs/sidebar.js diff --git a/docusaurus.config.js b/docusaurus.config.js index 6f90a3619..b14b7dfc3 100644 --- a/docusaurus.config.js +++ b/docusaurus.config.js @@ -147,6 +147,25 @@ export default async function createConfigAsync() { sidebarPath: "./multiqc_docs/sidebar.js", }, ], + [ + "@docusaurus/plugin-content-docs", + { + id: "nextflow", + routeBasePath: "/nextflow", + path: "nextflow_docs/nextflow_repo/docs", + remarkPlugins: [ + (await import("remark-code-import")).default, + (await require("remark-math")).default, + (await import("docusaurus-remark-plugin-tab-blocks")).default, + (await require("remark-yaml-to-table")).default, + ], + rehypePlugins: [(await require("rehype-katex")).default], + editUrl: ({ docPath }) => { + return `https://github.com/nextflow-io/nextflow/blob/master/docs${docPath.replace('nextflow_docs/nextflow_repo/docs', '')}` + }, + sidebarPath: "./nextflow_docs/sidebar.js", + }, + ], [ "@docusaurus/plugin-content-docs", { @@ -241,6 +260,11 @@ export default async function createConfigAsync() { label: "MultiQC", position: "left", }, + { + to: "/nextflow/", + label: "Nextflow", + position: "left", + }, { to: "/wave/", label: "Wave", diff --git a/internal/fetch-docs-oss.mjs b/internal/fetch-docs-oss.mjs index e064c5672..3ee3ffa6b 100644 --- a/internal/fetch-docs-oss.mjs +++ b/internal/fetch-docs-oss.mjs @@ -20,6 +20,12 @@ const repositories = [ path: path.join(__dirname, "..", "wave_docs", "wave_repo"), branch: "master", }, + { + name: "nextflow", + url: "https://github.com/nextflow-io/nextflow.git", + path: path.join(__dirname, "..", "nextflow_docs", "nextflow_repo"), + branch: "master", + }, ]; // Function to clone or update a repository diff --git a/nextflow_docs/sidebar.js b/nextflow_docs/sidebar.js new file mode 100644 index 000000000..d2aa94168 --- /dev/null +++ b/nextflow_docs/sidebar.js @@ -0,0 +1,12 @@ +{ + "sidebar": [ + { + "type": "category", + "label": "Nextflow", + "collapsed": false, + "items": [ + "index" + ] + } + ] +} \ No newline at end of file From 5e47f83e7270b5f12cfb08ddb3ebadcebdafd8ee Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Wed, 21 May 2025 11:19:19 +1200 Subject: [PATCH 02/54] Add nextflow docs Signed-off-by: Christopher Hakkaart --- .gitignore | 1 + docusaurus.config.js | 2 +- internal/fetch-docs-oss.mjs | 4 ++-- nextflow_docs/{sidebar.js => sidebar.json} | 7 ++++--- 4 files changed, 8 insertions(+), 6 deletions(-) rename nextflow_docs/{sidebar.js => sidebar.json} (60%) diff --git a/.gitignore b/.gitignore index 0e88ebb34..035e34ff0 100644 --- a/.gitignore +++ b/.gitignore @@ -36,3 +36,4 @@ internal/tmp # OSS repo clones multiqc_docs/multiqc_repo wave_docs/wave_repo +nextflow_docs/nextflow_repo diff --git a/docusaurus.config.js b/docusaurus.config.js index b14b7dfc3..35236891f 100644 --- a/docusaurus.config.js +++ b/docusaurus.config.js @@ -163,7 +163,7 @@ export default async function createConfigAsync() { editUrl: ({ docPath }) => { return `https://github.com/nextflow-io/nextflow/blob/master/docs${docPath.replace('nextflow_docs/nextflow_repo/docs', '')}` }, - sidebarPath: "./nextflow_docs/sidebar.js", + sidebarPath: "./nextflow_docs/sidebar.json", }, ], [ diff --git a/internal/fetch-docs-oss.mjs b/internal/fetch-docs-oss.mjs index 3ee3ffa6b..ea5c74e63 100644 --- a/internal/fetch-docs-oss.mjs +++ b/internal/fetch-docs-oss.mjs @@ -24,7 +24,7 @@ const repositories = [ name: "nextflow", url: "https://github.com/nextflow-io/nextflow.git", path: path.join(__dirname, "..", "nextflow_docs", "nextflow_repo"), - branch: "master", + branch: "docs-poc-relative", }, ]; @@ -42,7 +42,7 @@ async function cloneOrUpdateRepo({ name, url, path: repoPath, branch }) { console.log(`✅ ${name}: Pulled latest changes`); } else { console.log(`${name}: Cloning into ${repoPath}`); - await git().clone(url, repoPath); + await git().clone(url, repoPath, ['--branch', branch]); console.log(`✅ ${name}: Cloned`); } } catch (error) { diff --git a/nextflow_docs/sidebar.js b/nextflow_docs/sidebar.json similarity index 60% rename from nextflow_docs/sidebar.js rename to nextflow_docs/sidebar.json index d2aa94168..bb996be2d 100644 --- a/nextflow_docs/sidebar.js +++ b/nextflow_docs/sidebar.json @@ -2,11 +2,12 @@ "sidebar": [ { "type": "category", - "label": "Nextflow", + "label": "Getting started", "collapsed": false, "items": [ - "index" + "install", + "testformat" ] } ] -} \ No newline at end of file +} From 33caff7af81ee64cf6a7ff3949b73f154223ead8 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Tue, 27 May 2025 17:05:04 +1200 Subject: [PATCH 03/54] Update sidebar --- nextflow_docs/sidebar.json | 14 ++++++++++++-- 1 file changed, 12 insertions(+), 2 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index bb996be2d..736793407 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -5,9 +5,19 @@ "label": "Getting started", "collapsed": false, "items": [ + "overview", "install", - "testformat" + "developer-env", + "your-first-script" ] - } + }, + { + "type": "category", + "label": "Running pipelines", + "collapsed": false, + "items": [ + "cli" + ] + } ] } From 7da2b18286e00204b27a70059cddbdecfc6c608f Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Thu, 29 May 2025 14:35:05 +1200 Subject: [PATCH 04/54] Add basic navigation for nextflow --- docusaurus.config.js | 2 +- nextflow_docs/sidebar.json | 1 + src/modules/Homepage/index.tsx | 4 ++-- src/pages/nextflow.tsx | 2 +- .../DocSidebar/Desktop/ProductSwitcher/index.jsx | 2 +- .../SeqeraHeader/HeaderDesktop/NavItems/index.jsx | 12 +++--------- static/_redirects | 2 +- 7 files changed, 10 insertions(+), 15 deletions(-) diff --git a/docusaurus.config.js b/docusaurus.config.js index e60b48049..e82b489ff 100644 --- a/docusaurus.config.js +++ b/docusaurus.config.js @@ -389,7 +389,7 @@ export default async function createConfigAsync() { items: [ { label: "Platform Enterprise", - to: "/platform-enterprise//latest/platform-enterprise", + to: "/platform-enterprise/latest/platform-enterprise", }, { label: "Platform Cloud", diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 736793407..965fd740a 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -1,5 +1,6 @@ { "sidebar": [ + "nextflow", { "type": "category", "label": "Getting started", diff --git a/src/modules/Homepage/index.tsx b/src/modules/Homepage/index.tsx index 7f9a85eb3..f93d8f6a0 100644 --- a/src/modules/Homepage/index.tsx +++ b/src/modules/Homepage/index.tsx @@ -218,7 +218,7 @@ export default function Home(): JSX.Element {
  • - + Nextflow CLI
  • @@ -251,7 +251,7 @@ export default function Home(): JSX.Element {
    { - window.location.href = "https://www.nextflow.io/docs/latest"; + window.location.href = "nextflow/nextflow"; }, []); return null; } diff --git a/src/theme/DocSidebar/Desktop/ProductSwitcher/index.jsx b/src/theme/DocSidebar/Desktop/ProductSwitcher/index.jsx index fdc9384e5..ef599469b 100644 --- a/src/theme/DocSidebar/Desktop/ProductSwitcher/index.jsx +++ b/src/theme/DocSidebar/Desktop/ProductSwitcher/index.jsx @@ -20,7 +20,7 @@ const products = [ }, { name: "Nextflow", - url: "https://www.nextflow.io/docs/latest/", + url: "nextflow/nextflow", }, { name: "MultiQC", url: "/multiqc/" }, { name: "Wave", url: "/wave/" }, diff --git a/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx b/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx index 39c5bd4d1..fed53a2b7 100644 --- a/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx +++ b/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx @@ -104,15 +104,9 @@ const NavItems = ({ isDark = false, hideMenu }) => {
  • - -
    - Nextflow - -
    -
    + + Nextflow +
  • diff --git a/static/_redirects b/static/_redirects index fc9d4eb6e..e4ea1673e 100644 --- a/static/_redirects +++ b/static/_redirects @@ -1,4 +1,4 @@ -/nextflow https://www.nextflow.io/docs/latest/ 301! +#/nextflow https://www.nextflow.io/docs/latest/ 301! # Fix top nav 404 for Cloud and Enterprise after index page rename /platform-cloud /platform-cloud/platform-cloud 301 From 1bfb37800a622bf9525a5bc31fc0891ece370a27 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Wed, 25 Jun 2025 11:04:00 +1200 Subject: [PATCH 05/54] Add components for definition list rendering Signed-off-by: Christopher Hakkaart --- docusaurus.config.js | 16 + internal/fetch-docs-oss.mjs | 2 +- nextflow_docs/sidebar.json | 5 +- package-lock.json | 302 +++++++++++++++++- package.json | 4 +- .../DefinitionList/DefinitionList.js | 13 + src/components/DefinitionList/index.js | 1 + src/css/components/definitionlist.css | 14 + 8 files changed, 350 insertions(+), 7 deletions(-) create mode 100644 src/components/DefinitionList/DefinitionList.js create mode 100644 src/components/DefinitionList/index.js create mode 100644 src/css/components/definitionlist.css diff --git a/docusaurus.config.js b/docusaurus.config.js index e82b489ff..30058d0c4 100644 --- a/docusaurus.config.js +++ b/docusaurus.config.js @@ -239,6 +239,7 @@ export default async function createConfigAsync() { require.resolve("./src/css/misc.css"), require.resolve("./src/css/components/checklist.css"), require.resolve("./src/css/components/box.css"), + require.resolve("./src/css/components/definitionlist.css"), require.resolve("./src/css/theme-colors.css"), require.resolve("./src/css/api.css"), require.resolve("./src/css/fonts/inter.css"), @@ -289,6 +290,21 @@ export default async function createConfigAsync() { }, }; }, + function webpackAliases() { + return { + name: "webpack-aliases", + configureWebpack() { + return { + resolve: { + alias: { + '@site': path.resolve(__dirname, './'), + '@components': path.resolve(__dirname, './src/components'), + }, + }, + }; + }, + }; + }, ], themeConfig: { diff --git a/internal/fetch-docs-oss.mjs b/internal/fetch-docs-oss.mjs index ea5c74e63..ea0bcfabf 100644 --- a/internal/fetch-docs-oss.mjs +++ b/internal/fetch-docs-oss.mjs @@ -24,7 +24,7 @@ const repositories = [ name: "nextflow", url: "https://github.com/nextflow-io/nextflow.git", path: path.join(__dirname, "..", "nextflow_docs", "nextflow_repo"), - branch: "docs-poc-relative", + branch: "docs-migration", }, ]; diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 965fd740a..2fc63f307 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -17,7 +17,10 @@ "label": "Running pipelines", "collapsed": false, "items": [ - "cli" + "cli", + "config", + "executor", + "cache-and-resume" ] } ] diff --git a/package-lock.json b/package-lock.json index 30f805ab9..019b2627c 100644 --- a/package-lock.json +++ b/package-lock.json @@ -36,8 +36,10 @@ "react-instantsearch-dom": "^6.40.4", "rehype-katex": "^7.0.0", "remark-code-import": "^1.2.0", + "remark-definition-list": "^2.0.0", "remark-math": "^6.0.0", - "remark-yaml-to-table": "github:seqeralabs/remark-yaml-to-table" + "remark-yaml-to-table": "github:seqeralabs/remark-yaml-to-table", + "unist-util-visit": "^5.0.0" }, "devDependencies": { "@docusaurus/eslint-plugin": "^3.7.0", @@ -12252,6 +12254,34 @@ "node": ">= 0.4" } }, + "node_modules/hast-util-definition-list": { + "version": "2.1.0", + "resolved": "https://registry.npmjs.org/hast-util-definition-list/-/hast-util-definition-list-2.1.0.tgz", + "integrity": "sha512-n3U2gleI8TYZ6eVFjE9TZsGTpaOQlMQj10+WZZFn6Ts5uEu/7XzB8HVLNeu5Sgu7Rv96ThFp79/U6bf/4pS0ew==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.4", + "@types/mdast": "^4.0.3", + "@types/unist": "^3.0.2", + "hast-util-to-mdast": "^10.1.0", + "mdast-util-definition-list": "^2.0.0", + "mdast-util-phrasing": "^4.1.0" + } + }, + "node_modules/hast-util-embedded": { + "version": "3.0.0", + "resolved": "https://registry.npmjs.org/hast-util-embedded/-/hast-util-embedded-3.0.0.tgz", + "integrity": "sha512-naH8sld4Pe2ep03qqULEtvYr7EjrLK2QHY8KJR6RJkTUjPGObe1vnx585uzem2hGra+s1q08DZZpfgDVYRbaXA==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0", + "hast-util-is-element": "^3.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/hast-util-from-dom": { "version": "5.0.0", "resolved": "https://registry.npmjs.org/hast-util-from-dom/-/hast-util-from-dom-5.0.0.tgz", @@ -12317,6 +12347,32 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/hast-util-has-property": { + "version": "3.0.0", + "resolved": "https://registry.npmjs.org/hast-util-has-property/-/hast-util-has-property-3.0.0.tgz", + "integrity": "sha512-MNilsvEKLFpV604hwfhVStK0usFY/QmM5zX16bo7EjnAEGofr5YyI37kzopBlZJkHD4t887i+q/C8/tr5Q94cA==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, + "node_modules/hast-util-is-body-ok-link": { + "version": "3.0.1", + "resolved": "https://registry.npmjs.org/hast-util-is-body-ok-link/-/hast-util-is-body-ok-link-3.0.1.tgz", + "integrity": "sha512-0qpnzOBLztXHbHQenVB8uNuxTnm/QBFUOmdOSsEn7GnBtyY07+ENTWVFBAnXd/zEgd9/SUG3lRY7hSIBWRgGpQ==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/hast-util-is-element": { "version": "3.0.0", "resolved": "https://registry.npmjs.org/hast-util-is-element/-/hast-util-is-element-3.0.0.tgz", @@ -12329,6 +12385,23 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/hast-util-minify-whitespace": { + "version": "1.0.1", + "resolved": "https://registry.npmjs.org/hast-util-minify-whitespace/-/hast-util-minify-whitespace-1.0.1.tgz", + "integrity": "sha512-L96fPOVpnclQE0xzdWb/D12VT5FabA7SnZOUMtL1DbXmYiHJMXZvFkIZfiMmTCNJHUeO2K9UYNXoVyfz+QHuOw==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0", + "hast-util-embedded": "^3.0.0", + "hast-util-is-element": "^3.0.0", + "hast-util-whitespace": "^3.0.0", + "unist-util-is": "^6.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/hast-util-parse-selector": { "version": "4.0.0", "resolved": "https://registry.npmjs.org/hast-util-parse-selector/-/hast-util-parse-selector-4.0.0.tgz", @@ -12341,6 +12414,23 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/hast-util-phrasing": { + "version": "3.0.1", + "resolved": "https://registry.npmjs.org/hast-util-phrasing/-/hast-util-phrasing-3.0.1.tgz", + "integrity": 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"^2.0.0", + "comma-separated-tokens": "^2.0.0", + "hast-util-whitespace": "^3.0.0", + "html-void-elements": "^3.0.0", + "mdast-util-to-hast": "^13.0.0", + "property-information": "^7.0.0", + "space-separated-tokens": "^2.0.0", + "stringify-entities": "^4.0.0", + "zwitch": "^2.0.4" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, + "node_modules/hast-util-to-html/node_modules/property-information": { + "version": "7.1.0", + "resolved": "https://registry.npmjs.org/property-information/-/property-information-7.1.0.tgz", + "integrity": "sha512-TwEZ+X+yCJmYfL7TPUOcvBZ4QfoT5YenQiJuX//0th53DE6w0xxLEtfK3iyryQFddXuvkIk51EEgrJQ0WJkOmQ==", + "license": "MIT", + "funding": { + "type": "github", + "url": "https://github.com/sponsors/wooorm" + } + }, "node_modules/hast-util-to-jsx-runtime": { "version": "2.3.2", "resolved": "https://registry.npmjs.org/hast-util-to-jsx-runtime/-/hast-util-to-jsx-runtime-2.3.2.tgz", @@ -12418,6 +12541,32 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/hast-util-to-mdast": { + "version": "10.1.2", + "resolved": "https://registry.npmjs.org/hast-util-to-mdast/-/hast-util-to-mdast-10.1.2.tgz", + "integrity": "sha512-FiCRI7NmOvM4y+f5w32jPRzcxDIz+PUqDwEqn1A+1q2cdp3B8Gx7aVrXORdOKjMNDQsD1ogOr896+0jJHW1EFQ==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0", + "@types/mdast": "^4.0.0", + "@ungap/structured-clone": "^1.0.0", + "hast-util-phrasing": "^3.0.0", + "hast-util-to-html": "^9.0.0", + "hast-util-to-text": "^4.0.0", + "hast-util-whitespace": "^3.0.0", + "mdast-util-phrasing": "^4.0.0", + "mdast-util-to-hast": "^13.0.0", + "mdast-util-to-string": "^4.0.0", + "rehype-minify-whitespace": "^6.0.0", + "trim-trailing-lines": "^2.0.0", + "unist-util-position": "^5.0.0", + "unist-util-visit": "^5.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/hast-util-to-parse5": { "version": "8.0.0", "resolved": "https://registry.npmjs.org/hast-util-to-parse5/-/hast-util-to-parse5-8.0.0.tgz", @@ -14429,6 +14578,21 @@ "url": "https://github.com/sponsors/sindresorhus" } }, + "node_modules/mdast-util-definition-list": { + "version": "2.0.0", + "resolved": "https://registry.npmjs.org/mdast-util-definition-list/-/mdast-util-definition-list-2.0.0.tgz", + "integrity": "sha512-aFWuASQs77BJndNSDcNdvB1HRqWZBptcEjwv67mnPbaAZsfwMHxI8MwoQxAz4I2bHx41hft/HDRC57ZkhpayOQ==", + "license": "MIT", + "dependencies": { + "@types/mdast": "^4.0.1", + "@types/unist": "^3.0.0", + "mdast-util-from-markdown": "^2.0.0", + "mdast-util-to-hast": "^13.0.2", + "mdast-util-to-markdown": "^2.1.0", + "micromark-extension-definition-list": "^2.0.0", + "unist-builder": "^4.0.0" + } + }, "node_modules/mdast-util-definitions": { "version": "5.1.2", "resolved": "https://registry.npmjs.org/mdast-util-definitions/-/mdast-util-definitions-5.1.2.tgz", @@ -15077,6 +15241,77 @@ } ] }, + "node_modules/micromark-extension-definition-list": { + "version": "2.0.1", + "resolved": "https://registry.npmjs.org/micromark-extension-definition-list/-/micromark-extension-definition-list-2.0.1.tgz", + "integrity": "sha512-lQSkVTWNR0f9qzUbM4p0chJSecIRYvZBjnI+cWqN0k2zDSvzpduGJifWJj4SpCWF4TlpNV9amCF8Y1VEXdJubQ==", + "license": "MIT", + "dependencies": { + "micromark-core-commonmark": "^2.0.0", + "micromark-factory-space": "^2.0.0", + "micromark-util-character": "^2.0.1", + "micromark-util-chunked": "^2.0.0", + "micromark-util-symbol": "^2.0.0", + "micromark-util-types": "^2.0.0", + "ts-dedent": "^2.2.0" + } + }, + "node_modules/micromark-extension-definition-list/node_modules/micromark-factory-space": { + "version": "2.0.1", + "resolved": "https://registry.npmjs.org/micromark-factory-space/-/micromark-factory-space-2.0.1.tgz", + "integrity": "sha512-zRkxjtBxxLd2Sc0d+fbnEunsTj46SWXgXciZmHq0kDYGnck/ZSGj9/wULTV95uoeYiK5hRXP2mJ98Uo4cq/LQg==", + "funding": [ + { + "type": "GitHub Sponsors", + "url": "https://github.com/sponsors/unifiedjs" + }, + { + "type": "OpenCollective", + "url": "https://opencollective.com/unified" + } + ], + "license": "MIT", + "dependencies": { + "micromark-util-character": "^2.0.0", + "micromark-util-types": "^2.0.0" + } + }, + "node_modules/micromark-extension-definition-list/node_modules/micromark-util-character": { + "version": "2.1.1", + "resolved": "https://registry.npmjs.org/micromark-util-character/-/micromark-util-character-2.1.1.tgz", + "integrity": "sha512-wv8tdUTJ3thSFFFJKtpYKOYiGP2+v96Hvk4Tu8KpCAsTMs6yi+nVmGh1syvSCsaxz45J6Jbw+9DD6g97+NV67Q==", + "funding": [ + { + "type": "GitHub Sponsors", + "url": "https://github.com/sponsors/unifiedjs" + }, + { + "type": "OpenCollective", + "url": "https://opencollective.com/unified" + } + ], + "license": "MIT", + "dependencies": { + "micromark-util-symbol": "^2.0.0", + "micromark-util-types": "^2.0.0" + } + }, + "node_modules/micromark-extension-definition-list/node_modules/micromark-util-symbol": { + "version": "2.0.1", + "resolved": "https://registry.npmjs.org/micromark-util-symbol/-/micromark-util-symbol-2.0.1.tgz", + "integrity": "sha512-vs5t8Apaud9N28kgCrRUdEed4UJ+wWNvicHLPxCa9ENlYuAY31M0ETy5y1vA33YoNPDFTghEbnh6efaE8h4x0Q==", + "funding": [ + { + "type": "GitHub Sponsors", + "url": "https://github.com/sponsors/unifiedjs" + }, + { + "type": "OpenCollective", + "url": "https://opencollective.com/unified" + } + ], + "license": "MIT" + }, "node_modules/micromark-extension-directive": { "version": "3.0.2", "resolved": "https://registry.npmjs.org/micromark-extension-directive/-/micromark-extension-directive-3.0.2.tgz", @@ -21177,6 +21412,20 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/rehype-minify-whitespace": { + "version": "6.0.2", + "resolved": "https://registry.npmjs.org/rehype-minify-whitespace/-/rehype-minify-whitespace-6.0.2.tgz", + "integrity": "sha512-Zk0pyQ06A3Lyxhe9vGtOtzz3Z0+qZ5+7icZ/PL/2x1SHPbKao5oB/g/rlc6BCTajqBb33JcOe71Ye1oFsuYbnw==", + "license": "MIT", + "dependencies": { + "@types/hast": "^3.0.0", + "hast-util-minify-whitespace": "^1.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/rehype-raw": { "version": "7.0.0", "resolved": "https://registry.npmjs.org/rehype-raw/-/rehype-raw-7.0.0.tgz", @@ -21270,6 +21519,17 @@ "url": "https://opencollective.com/unified" } }, + "node_modules/remark-definition-list": { + "version": "2.0.0", + "resolved": "https://registry.npmjs.org/remark-definition-list/-/remark-definition-list-2.0.0.tgz", + "integrity": "sha512-OOJ0zUrfUGITUNxOBnsipyFUjqq1m4AgYOqQk10jDXyz+RoODJL3qYvRn8qzYQDzRnz1wlCP3dbDEOpl05LlQw==", + "license": "MIT", + "dependencies": { + "hast-util-definition-list": "^2.0.0", + "mdast-util-definition-list": "^2.0.0", + "micromark-extension-definition-list": "^2.0.0" + } + }, "node_modules/remark-directive": { "version": "3.0.0", "resolved": "https://registry.npmjs.org/remark-directive/-/remark-directive-3.0.0.tgz", @@ -21316,9 +21576,10 @@ } }, "node_modules/remark-gfm": { - "version": "4.0.0", - "resolved": "https://registry.npmjs.org/remark-gfm/-/remark-gfm-4.0.0.tgz", - "integrity": "sha512-U92vJgBPkbw4Zfu/IiW2oTZLSL3Zpv+uI7My2eq8JxKgqraFdU8YUGicEJCEgSbeaG+QDFqIcwwfMTOEelPxuA==", + "version": "4.0.1", + "resolved": "https://registry.npmjs.org/remark-gfm/-/remark-gfm-4.0.1.tgz", + "integrity": "sha512-1quofZ2RQ9EWdeN34S79+KExV1764+wCUGop5CPL1WGdD0ocPpu91lzPGbwWMECpEpd42kJGQwzRfyov9j4yNg==", + "license": "MIT", "dependencies": { "@types/mdast": "^4.0.0", "mdast-util-gfm": "^3.0.0", @@ -23259,6 +23520,16 @@ "url": "https://github.com/sponsors/wooorm" } }, + "node_modules/trim-trailing-lines": { + "version": "2.1.0", + "resolved": "https://registry.npmjs.org/trim-trailing-lines/-/trim-trailing-lines-2.1.0.tgz", + "integrity": "sha512-5UR5Biq4VlVOtzqkm2AZlgvSlDJtME46uV0br0gENbwN4l5+mMKT4b9gJKqWtuL2zAIqajGJGuvbCbcAJUZqBg==", + "license": "MIT", + "funding": { + "type": "github", + "url": "https://github.com/sponsors/wooorm" + } + }, "node_modules/trough": { "version": "2.2.0", "resolved": "https://registry.npmjs.org/trough/-/trough-2.2.0.tgz", @@ -23268,6 +23539,15 @@ "url": "https://github.com/sponsors/wooorm" } }, + "node_modules/ts-dedent": { + "version": "2.2.0", + "resolved": "https://registry.npmjs.org/ts-dedent/-/ts-dedent-2.2.0.tgz", + "integrity": "sha512-q5W7tVM71e2xjHZTlgfTDoPF/SmqKG5hddq9SzR49CH2hayqRKJtQ4mtRlSxKaJlR/+9rEM+mnBHf7I2/BQcpQ==", + "license": "MIT", + "engines": { + "node": ">=6.10" + } + }, "node_modules/ts-interface-checker": { "version": "0.1.13", "resolved": "https://registry.npmjs.org/ts-interface-checker/-/ts-interface-checker-0.1.13.tgz", @@ -23584,6 +23864,19 @@ "url": "https://github.com/sponsors/sindresorhus" } }, + "node_modules/unist-builder": { + "version": "4.0.0", + "resolved": "https://registry.npmjs.org/unist-builder/-/unist-builder-4.0.0.tgz", + "integrity": "sha512-wmRFnH+BLpZnTKpc5L7O67Kac89s9HMrtELpnNaE6TAobq5DTZZs5YaTQfAZBA9bFPECx2uVAPO31c+GVug8mg==", + "license": "MIT", + "dependencies": { + "@types/unist": "^3.0.0" + }, + "funding": { + "type": "opencollective", + "url": "https://opencollective.com/unified" + } + }, "node_modules/unist-util-find-after": { "version": "5.0.0", "resolved": "https://registry.npmjs.org/unist-util-find-after/-/unist-util-find-after-5.0.0.tgz", @@ -23671,6 +23964,7 @@ "version": "5.0.0", "resolved": "https://registry.npmjs.org/unist-util-visit/-/unist-util-visit-5.0.0.tgz", "integrity": "sha512-MR04uvD+07cwl/yhVuVWAtw+3GOR/knlL55Nd/wAdblk27GCVt3lqpTivy/tkJcZoNPzTwS1Y+KMojlLDhoTzg==", + "license": "MIT", "dependencies": { "@types/unist": "^3.0.0", "unist-util-is": "^6.0.0", diff --git a/package.json b/package.json index 00a707d6f..bfa006424 100644 --- a/package.json +++ b/package.json @@ -50,8 +50,10 @@ "react-instantsearch-dom": "^6.40.4", "rehype-katex": "^7.0.0", "remark-code-import": "^1.2.0", + "remark-definition-list": "^2.0.0", "remark-math": "^6.0.0", - "remark-yaml-to-table": "github:seqeralabs/remark-yaml-to-table" + "remark-yaml-to-table": "github:seqeralabs/remark-yaml-to-table", + "unist-util-visit": "^5.0.0" }, "devDependencies": { "@docusaurus/eslint-plugin": "^3.7.0", diff --git a/src/components/DefinitionList/DefinitionList.js b/src/components/DefinitionList/DefinitionList.js new file mode 100644 index 000000000..526a3fdee --- /dev/null +++ b/src/components/DefinitionList/DefinitionList.js @@ -0,0 +1,13 @@ +import React from 'react'; + +export function DefinitionTerm({ children }) { + return
    {children}
    ; +} + +export function DefinitionDescription({ children }) { + return
    {children}
    ; +} + +export default function DefinitionList({ children }) { + return
    {children}
    ; +} diff --git a/src/components/DefinitionList/index.js b/src/components/DefinitionList/index.js new file mode 100644 index 000000000..865ab8c71 --- /dev/null +++ b/src/components/DefinitionList/index.js @@ -0,0 +1 @@ +export { default, DefinitionTerm, DefinitionDescription } from './DefinitionList.js'; \ No newline at end of file diff --git a/src/css/components/definitionlist.css b/src/css/components/definitionlist.css new file mode 100644 index 000000000..b8f0c0ca7 --- /dev/null +++ b/src/css/components/definitionlist.css @@ -0,0 +1,14 @@ +dl { + margin: 1em 0; +} + +dt { + font-weight: bold; + margin-top: 1em; +} + +dd { + margin-left: 1.5em; + margin-bottom: 0.5em; + color: var(--ifm-color-content-secondary); +} \ No newline at end of file From 7893173dc8c2205eca13d7740e8da222c4075907 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Thu, 26 Jun 2025 10:56:52 +1200 Subject: [PATCH 06/54] Add import --- docusaurus.config.js | 6 +- nextflow_docs/sidebar.json | 15 +- package-lock.json | 1463 +++++++++++++++++++++++++++++++++--- package.json | 1 + 4 files changed, 1397 insertions(+), 88 deletions(-) diff --git a/docusaurus.config.js b/docusaurus.config.js index 30058d0c4..e69325a5e 100644 --- a/docusaurus.config.js +++ b/docusaurus.config.js @@ -146,6 +146,7 @@ export default async function createConfigAsync() { (await require("remark-math")).default, (await import("docusaurus-remark-plugin-tab-blocks")).default, (await require("remark-yaml-to-table")).default, + (await require("remark-code-import")).default, ], rehypePlugins: [(await require("rehype-katex")).default], editUrl: "https://github.com/seqeralabs/docs/tree/master/", @@ -225,7 +226,10 @@ export default async function createConfigAsync() { defaultLocale: "en", locales: ["en"], }, - themes: ["docusaurus-theme-openapi-docs"], + markdown: { + mermaid: true, + }, + themes: ["docusaurus-theme-openapi-docs","@docusaurus/theme-mermaid"], presets: [ [ "classic", diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 2fc63f307..cbf564ca6 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -20,8 +20,19 @@ "cli", "config", "executor", - "cache-and-resume" + "cache-and-resume", + "reports", + "plugins" ] - } + }, + { + "type": "category", + "label": "Developing pipelines", + "collapsed": false, + "items": [ + "script", + "working-with-files" + ] + } ] } diff --git a/package-lock.json b/package-lock.json index 019b2627c..2fad2271a 100644 --- a/package-lock.json +++ b/package-lock.json @@ -17,6 +17,7 @@ "@docusaurus/plugin-google-gtag": "^3.7.0", "@docusaurus/plugin-google-tag-manager": "^3.7.0", "@docusaurus/preset-classic": "^3.7.0", + "@docusaurus/theme-mermaid": "^3.7.0", "@mdx-js/react": "^3.0.0", "@types/react-instantsearch-dom": "^6.12.3", "algoliasearch": "^4.22.1", @@ -556,6 +557,28 @@ "node": ">=6.0.0" } }, + "node_modules/@antfu/install-pkg": { + "version": "1.1.0", + "resolved": "https://registry.npmjs.org/@antfu/install-pkg/-/install-pkg-1.1.0.tgz", + "integrity": "sha512-MGQsmw10ZyI+EJo45CdSER4zEb+p31LpDAFp2Z3gkSd1yqVZGi0Ebx++YTEMonJy4oChEMLsxZ64j8FH6sSqtQ==", + "license": "MIT", + "dependencies": { + "package-manager-detector": "^1.3.0", + "tinyexec": "^1.0.1" + }, + "funding": { + "url": "https://github.com/sponsors/antfu" + } + }, + "node_modules/@antfu/utils": { + "version": "8.1.1", + "resolved": "https://registry.npmjs.org/@antfu/utils/-/utils-8.1.1.tgz", + "integrity": "sha512-Mex9nXf9vR6AhcXmMrlz/HVgYYZpVGJ6YlPgwl7UnaFpnshXs6EK/oa5Gpf3CzENMjkvEx2tQtntGnb7UtSTOQ==", + "license": "MIT", + "funding": { + "url": "https://github.com/sponsors/antfu" + } + }, "node_modules/@apidevtools/json-schema-ref-parser": { "version": "11.9.3", "resolved": "https://registry.npmjs.org/@apidevtools/json-schema-ref-parser/-/json-schema-ref-parser-11.9.3.tgz", @@ -2146,6 +2169,51 @@ "node": ">=6.9.0" } }, + "node_modules/@braintree/sanitize-url": { + "version": "7.1.1", + "resolved": "https://registry.npmjs.org/@braintree/sanitize-url/-/sanitize-url-7.1.1.tgz", + "integrity": "sha512-i1L7noDNxtFyL5DmZafWy1wRVhGehQmzZaz1HiN5e7iylJMSZR7ekOV7NsIqa5qBldlLrsKv4HbgFUVlQrz8Mw==", + "license": "MIT" + }, + "node_modules/@chevrotain/cst-dts-gen": { + "version": "11.0.3", + "resolved": "https://registry.npmjs.org/@chevrotain/cst-dts-gen/-/cst-dts-gen-11.0.3.tgz", + "integrity": "sha512-BvIKpRLeS/8UbfxXxgC33xOumsacaeCKAjAeLyOn7Pcp95HiRbrpl14S+9vaZLolnbssPIUuiUd8IvgkRyt6NQ==", + "license": "Apache-2.0", + "dependencies": { + "@chevrotain/gast": "11.0.3", + "@chevrotain/types": "11.0.3", + "lodash-es": "4.17.21" + } + }, + "node_modules/@chevrotain/gast": { + "version": "11.0.3", + "resolved": "https://registry.npmjs.org/@chevrotain/gast/-/gast-11.0.3.tgz", + "integrity": "sha512-+qNfcoNk70PyS/uxmj3li5NiECO+2YKZZQMbmjTqRI3Qchu8Hig/Q9vgkHpI3alNjr7M+a2St5pw5w5F6NL5/Q==", + "license": "Apache-2.0", + "dependencies": { + "@chevrotain/types": "11.0.3", + "lodash-es": "4.17.21" + } + }, + "node_modules/@chevrotain/regexp-to-ast": { + "version": "11.0.3", + "resolved": "https://registry.npmjs.org/@chevrotain/regexp-to-ast/-/regexp-to-ast-11.0.3.tgz", + "integrity": "sha512-1fMHaBZxLFvWI067AVbGJav1eRY7N8DDvYCTwGBiE/ytKBgP8azTdgyrKyWZ9Mfh09eHWb5PgTSO8wi7U824RA==", + "license": "Apache-2.0" + }, + "node_modules/@chevrotain/types": { + "version": "11.0.3", + "resolved": "https://registry.npmjs.org/@chevrotain/types/-/types-11.0.3.tgz", + "integrity": "sha512-gsiM3G8b58kZC2HaWR50gu6Y1440cHiJ+i3JUvcp/35JchYejb2+5MVeJK0iKThYpAa/P2PYFV4hoi44HD+aHQ==", + "license": "Apache-2.0" + }, + "node_modules/@chevrotain/utils": { + "version": "11.0.3", + "resolved": "https://registry.npmjs.org/@chevrotain/utils/-/utils-11.0.3.tgz", + "integrity": "sha512-YslZMgtJUyuMbZ+aKvfF3x1f5liK4mWNxghFRv7jqRR9C3R3fAOGTTKvxXDa2Y1s9zSbcpuO0cAxDYsc9SrXoQ==", + "license": "Apache-2.0" + }, "node_modules/@colors/colors": { "version": "1.5.0", "resolved": "https://registry.npmjs.org/@colors/colors/-/colors-1.5.0.tgz", @@ -4108,6 +4176,28 @@ "node": ">=6" } }, + "node_modules/@docusaurus/theme-mermaid": { + "version": "3.7.0", + "resolved": "https://registry.npmjs.org/@docusaurus/theme-mermaid/-/theme-mermaid-3.7.0.tgz", + "integrity": "sha512-7kNDvL7hm+tshjxSxIqYMtsLUPsEBYnkevej/ext6ru9xyLgCed+zkvTfGzTWNeq8rJIEe2YSS8/OV5gCVaPCw==", + "license": "MIT", + "dependencies": { + "@docusaurus/core": "3.7.0", + "@docusaurus/module-type-aliases": "3.7.0", + "@docusaurus/theme-common": "3.7.0", + "@docusaurus/types": "3.7.0", + "@docusaurus/utils-validation": "3.7.0", + "mermaid": ">=10.4", + "tslib": "^2.6.0" + }, + "engines": { + "node": ">=18.0" + }, + "peerDependencies": { + "react": "^18.0.0 || ^19.0.0", + "react-dom": "^18.0.0 || ^19.0.0" + } + }, "node_modules/@docusaurus/theme-search-algolia": { "version": "3.7.0", "resolved": "https://registry.npmjs.org/@docusaurus/theme-search-algolia/-/theme-search-algolia-3.7.0.tgz", @@ -4468,6 +4558,40 @@ "deprecated": "Use @eslint/object-schema instead", "devOptional": true }, + "node_modules/@iconify/types": { + "version": "2.0.0", + "resolved": "https://registry.npmjs.org/@iconify/types/-/types-2.0.0.tgz", + "integrity": "sha512-+wluvCrRhXrhyOmRDJ3q8mux9JkKy5SJ/v8ol2tu4FVjyYvtEzkc/3pK15ET6RKg4b4w4BmTk1+gsCUhf21Ykg==", + "license": "MIT" + }, + "node_modules/@iconify/utils": { + "version": "2.3.0", + "resolved": "https://registry.npmjs.org/@iconify/utils/-/utils-2.3.0.tgz", + "integrity": "sha512-GmQ78prtwYW6EtzXRU1rY+KwOKfz32PD7iJh6Iyqw68GiKuoZ2A6pRtzWONz5VQJbp50mEjXh/7NkumtrAgRKA==", + "license": "MIT", + "dependencies": { + "@antfu/install-pkg": "^1.0.0", + "@antfu/utils": "^8.1.0", + "@iconify/types": "^2.0.0", + "debug": "^4.4.0", + "globals": "^15.14.0", + "kolorist": "^1.8.0", + "local-pkg": "^1.0.0", + "mlly": "^1.7.4" + } + }, + "node_modules/@iconify/utils/node_modules/globals": { + "version": "15.15.0", + "resolved": "https://registry.npmjs.org/globals/-/globals-15.15.0.tgz", + "integrity": "sha512-7ACyT3wmyp3I61S4fG682L0VA2RGD9otkqGJIwNUMF1SWUombIIk+af1unuDYgMm082aHYwD+mzJvv9Iu8dsgg==", + "license": "MIT", + "engines": { + "node": ">=18" + }, + "funding": { + "url": "https://github.com/sponsors/sindresorhus" + } + }, "node_modules/@isaacs/cliui": { "version": "8.0.2", "resolved": "https://registry.npmjs.org/@isaacs/cliui/-/cliui-8.0.2.tgz", @@ -4664,6 +4788,15 @@ "react": ">=16" } }, + "node_modules/@mermaid-js/parser": { + "version": "0.5.0", + "resolved": "https://registry.npmjs.org/@mermaid-js/parser/-/parser-0.5.0.tgz", + "integrity": "sha512-AiaN7+VjXC+3BYE+GwNezkpjIcCI2qIMB/K4S2/vMWe0q/XJCBbx5+K7iteuz7VyltX9iAK4FmVTvGc9kjOV4w==", + "license": "MIT", + "dependencies": { + "langium": "3.3.1" + } + }, "node_modules/@module-federation/error-codes": { "version": "0.8.4", "resolved": "https://registry.npmjs.org/@module-federation/error-codes/-/error-codes-0.8.4.tgz", @@ -6076,6 +6209,259 @@ 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"resolved": "https://registry.npmjs.org/methods/-/methods-1.1.2.tgz", @@ -17083,6 +18198,35 @@ "node": ">=16 || 14 >=14.17" } }, + "node_modules/mlly": { + "version": "1.7.4", + "resolved": "https://registry.npmjs.org/mlly/-/mlly-1.7.4.tgz", + "integrity": "sha512-qmdSIPC4bDJXgZTCR7XosJiNKySV7O215tsPtDN9iEO/7q/76b/ijtgRu/+epFXSJhijtTCCGp3DWS549P3xKw==", + "license": "MIT", + "dependencies": { + "acorn": "^8.14.0", + "pathe": "^2.0.1", + "pkg-types": "^1.3.0", + "ufo": "^1.5.4" + } + }, + "node_modules/mlly/node_modules/confbox": { + "version": "0.1.8", + "resolved": "https://registry.npmjs.org/confbox/-/confbox-0.1.8.tgz", + "integrity": "sha512-RMtmw0iFkeR4YV+fUOSucriAQNb9g8zFR52MWCtl+cCZOFRNL6zeB395vPzFhEjjn4fMxXudmELnl/KF/WrK6w==", + "license": "MIT" + }, + "node_modules/mlly/node_modules/pkg-types": { + "version": "1.3.1", + "resolved": "https://registry.npmjs.org/pkg-types/-/pkg-types-1.3.1.tgz", + "integrity": 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"license": "MIT", + "dependencies": { + "confbox": "^0.2.1", + "exsolve": "^1.0.1", + "pathe": "^2.0.3" + } + }, "node_modules/pkg-up": { "version": "3.1.0", "resolved": "https://registry.npmjs.org/pkg-up/-/pkg-up-3.1.0.tgz", @@ -18226,6 +19400,22 @@ "node": ">=4" } }, + "node_modules/points-on-curve": { + "version": "0.2.0", + "resolved": "https://registry.npmjs.org/points-on-curve/-/points-on-curve-0.2.0.tgz", + "integrity": "sha512-0mYKnYYe9ZcqMCWhUjItv/oHjvgEsfKvnUTg8sAtnHr3GVy7rGkXCb6d5cSyqrWqL4k81b9CPg3urd+T7aop3A==", + "license": "MIT" + }, + "node_modules/points-on-path": { + "version": "0.2.1", + "resolved": "https://registry.npmjs.org/points-on-path/-/points-on-path-0.2.1.tgz", + "integrity": "sha512-25ClnWWuw7JbWZcgqY/gJ4FQWadKxGWk+3kR/7kD0tCaDtPPMj7oHu2ToLaVhfpnHrZzYby2w6tUA0eOIuUg8g==", + "license": "MIT", + "dependencies": { + "path-data-parser": "0.1.0", + "points-on-curve": "0.2.0" + } + }, "node_modules/possible-typed-array-names": { "version": "1.0.0", "resolved": "https://registry.npmjs.org/possible-typed-array-names/-/possible-typed-array-names-1.0.0.tgz", @@ -20010,6 +21200,22 @@ "url": "https://github.com/sponsors/ljharb" } }, + "node_modules/quansync": { + "version": "0.2.10", + "resolved": "https://registry.npmjs.org/quansync/-/quansync-0.2.10.tgz", + "integrity": "sha512-t41VRkMYbkHyCYmOvx/6URnN80H7k4X0lLdBMGsz+maAwrJQYB1djpV6vHrQIBE0WBSGqhtEHrK9U3DWWH8v7A==", + "funding": [ + { + "type": "individual", + "url": "https://github.com/sponsors/antfu" + }, + { + "type": "individual", + "url": "https://github.com/sponsors/sxzz" + } + ], + "license": "MIT" + }, "node_modules/queue": { "version": "6.0.2", "resolved": "https://registry.npmjs.org/queue/-/queue-6.0.2.tgz", @@ -21466,6 +22672,7 @@ "version": "1.2.0", "resolved": "https://registry.npmjs.org/remark-code-import/-/remark-code-import-1.2.0.tgz", "integrity": "sha512-fgwLruqlZbVOIhCJFjY+JDwPZhA4/eK3InJzN8Ox8UDdtudpG212JwtRj6la+lAzJU7JmSEyewZSukVZdknt3Q==", + "license": "MIT", "dependencies": { "strip-indent": "^4.0.0", "to-gatsby-remark-plugin": "^0.1.0", @@ -21896,6 +23103,24 @@ "url": "https://github.com/sponsors/isaacs" } }, + "node_modules/robust-predicates": { + "version": "3.0.2", + "resolved": "https://registry.npmjs.org/robust-predicates/-/robust-predicates-3.0.2.tgz", + "integrity": "sha512-IXgzBWvWQwE6PrDI05OvmXUIruQTcoMDzRsOd5CDvHCVLcLHMTSYvOK5Cm46kWqlV3yAbuSpBZdJ5oP5OUoStg==", + "license": "Unlicense" + }, + "node_modules/roughjs": { + "version": "4.6.6", + "resolved": "https://registry.npmjs.org/roughjs/-/roughjs-4.6.6.tgz", + "integrity": "sha512-ZUz/69+SYpFN/g/lUlo2FXcIjRkSu3nDarreVdGGndHEBJ6cXPdKguS8JGxwj5HA5xIbVKSmLgr5b3AWxtRfvQ==", + "license": "MIT", + "dependencies": { + "hachure-fill": "^0.5.2", + "path-data-parser": "^0.1.0", + "points-on-curve": "^0.2.0", + "points-on-path": "^0.2.1" + } + }, "node_modules/rtlcss": { "version": "4.3.0", "resolved": "https://registry.npmjs.org/rtlcss/-/rtlcss-4.3.0.tgz", @@ -21935,6 +23160,12 @@ "queue-microtask": "^1.2.2" } }, + "node_modules/rw": { + "version": "1.3.3", + "resolved": "https://registry.npmjs.org/rw/-/rw-1.3.3.tgz", + "integrity": "sha512-PdhdWy89SiZogBLaw42zdeqtRJ//zFd2PgQavcICDUgJT5oW10QCRKbJ6bg4r0/UY2M6BWd5tkxuGFRvCkgfHQ==", + "license": "BSD-3-Clause" + }, "node_modules/sade": { "version": "1.8.1", "resolved": "https://registry.npmjs.org/sade/-/sade-1.8.1.tgz", @@ -22261,11 +23492,6 @@ "node": ">= 0.8" } }, - "node_modules/send/node_modules/ms": { - "version": "2.1.3", - "resolved": "https://registry.npmjs.org/ms/-/ms-2.1.3.tgz", - "integrity": "sha512-6FlzubTLZG3J2a/NVCAleEhjzq5oxgHyaCU9yYXvcLsvoVaHJq/s5xXI6/XXP6tz7R9xAOtHnSO/tXtF3WRTlA==" - }, "node_modules/send/node_modules/range-parser": { "version": "1.2.1", "resolved": "https://registry.npmjs.org/range-parser/-/range-parser-1.2.1.tgz", @@ -23034,6 +24260,12 @@ "postcss": "^8.4.31" } }, + "node_modules/stylis": { + "version": "4.3.6", + "resolved": "https://registry.npmjs.org/stylis/-/stylis-4.3.6.tgz", + "integrity": "sha512-yQ3rwFWRfwNUY7H5vpU0wfdkNSnvnJinhF9830Swlaxl03zsOjCfmX0ugac+3LtK0lYSgwL/KXc8oYL3mG4YFQ==", + "license": "MIT" + }, "node_modules/sucrase": { "version": "3.35.0", "resolved": "https://registry.npmjs.org/sucrase/-/sucrase-3.35.0.tgz", @@ -23413,6 +24645,12 @@ "resolved": "https://registry.npmjs.org/tiny-warning/-/tiny-warning-1.0.3.tgz", "integrity": "sha512-lBN9zLN/oAf68o3zNXYrdCt1kP8WsiGW8Oo2ka41b2IM5JL/S1CTyX1rW0mb/zSuJun0ZUrDxx4sqvYS2FWzPA==" }, + "node_modules/tinyexec": { + "version": "1.0.1", + "resolved": "https://registry.npmjs.org/tinyexec/-/tinyexec-1.0.1.tgz", + "integrity": "sha512-5uC6DDlmeqiOwCPmK9jMSdOuZTh8bU39Ys6yidB+UTt5hfZUPGAypSgFRiEp+jbi9qH40BLDvy85jIU88wKSqw==", + "license": "MIT" + }, "node_modules/to-gatsby-remark-plugin": { "version": "0.1.0", "resolved": "https://registry.npmjs.org/to-gatsby-remark-plugin/-/to-gatsby-remark-plugin-0.1.0.tgz", @@ -23756,6 +24994,12 @@ "integrity": 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"https://registry.npmjs.org/vscode-languageserver/-/vscode-languageserver-9.0.1.tgz", + "integrity": "sha512-woByF3PDpkHFUreUa7Hos7+pUWdeWMXRd26+ZX2A8cFx6v/JPTtd4/uN0/jB6XQHYaOlHbio03NTHCqrgG5n7g==", + "license": "MIT", + "dependencies": { + "vscode-languageserver-protocol": "3.17.5" + }, + "bin": { + "installServerIntoExtension": "bin/installServerIntoExtension" + } + }, + "node_modules/vscode-languageserver-protocol": { + "version": "3.17.5", + "resolved": "https://registry.npmjs.org/vscode-languageserver-protocol/-/vscode-languageserver-protocol-3.17.5.tgz", + "integrity": "sha512-mb1bvRJN8SVznADSGWM9u/b07H7Ecg0I3OgXDuLdn307rl/J3A9YD6/eYOssqhecL27hK1IPZAsaqh00i/Jljg==", + "license": "MIT", + "dependencies": { + "vscode-jsonrpc": "8.2.0", + "vscode-languageserver-types": "3.17.5" + } + }, + "node_modules/vscode-languageserver-textdocument": { + "version": "1.0.12", + "resolved": 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index bfa006424..f18fbed9b 100644 --- a/package.json +++ b/package.json @@ -31,6 +31,7 @@ "@docusaurus/plugin-google-gtag": "^3.7.0", "@docusaurus/plugin-google-tag-manager": "^3.7.0", "@docusaurus/preset-classic": "^3.7.0", + "@docusaurus/theme-mermaid": "^3.7.0", "@mdx-js/react": "^3.0.0", "@types/react-instantsearch-dom": "^6.12.3", "algoliasearch": "^4.22.1", From 3a0cafaef3c5c8bd85f67feebd8d817abf563196 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Thu, 26 Jun 2025 14:01:09 +1200 Subject: [PATCH 07/54] Add more to sidebar --- nextflow_docs/sidebar.json | 11 +++++++++-- 1 file changed, 9 insertions(+), 2 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index cbf564ca6..8a517a2a5 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -22,7 +22,9 @@ "executor", "cache-and-resume", "reports", - "plugins" + "plugins", + "secrets", + "sharing" ] }, { @@ -31,7 +33,12 @@ "collapsed": false, "items": [ "script", - "working-with-files" + "working-with-files", + "process", + "channel", + "workflow", + "module", + "notifications" ] } ] From c767b023977f0d3618ae1e9c8522374f7c7a41d3 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Thu, 26 Jun 2025 17:19:34 +1200 Subject: [PATCH 08/54] Reorder sidebar --- nextflow_docs/sidebar.json | 13 +++++++------ 1 file changed, 7 insertions(+), 6 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 8a517a2a5..ade79c09a 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -15,22 +15,20 @@ { "type": "category", "label": "Running pipelines", - "collapsed": false, + "collapsed": true, "items": [ "cli", "config", "executor", "cache-and-resume", "reports", - "plugins", - "secrets", - "sharing" + "plugins" ] }, { "type": "category", "label": "Developing pipelines", - "collapsed": false, + "collapsed": true, "items": [ "script", "working-with-files", @@ -38,7 +36,10 @@ "channel", "workflow", "module", - "notifications" + "notifications", + "secrets", + "sharing", + "vscode" ] } ] From eab8cc11a7387ca12b185e22616555ff15b0c9c3 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 27 Jun 2025 16:26:10 +1200 Subject: [PATCH 09/54] Add extra pages to side bar --- nextflow_docs/sidebar.json | 10 ++++++++++ 1 file changed, 10 insertions(+) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index ade79c09a..8c695c747 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -41,6 +41,16 @@ "sharing", "vscode" ] + }, + { + "type": "category", + "label": "Software dependencies", + "collapsed": true, + "items": [ + "git", + "container", + "conda" + ] } ] } From e2caa1fef733ecae1c30e6b37eea28cb78e444a4 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Mon, 30 Jun 2025 12:17:53 +1200 Subject: [PATCH 10/54] Added Compute and storage section Signed-off-by: Christopher Hakkaart --- nextflow_docs/sidebar.json | 17 ++++++++++++++++- 1 file changed, 16 insertions(+), 1 deletion(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 8c695c747..5f752ce6b 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -49,7 +49,22 @@ "items": [ "git", "container", - "conda" + "conda", + "spack", + "wave" + ] + }, + { + "type": "category", + "label": "Compute & storage", + "collapsed": true, + "items": [ + "aws", + "amazons3", + "azure", + "google", + "kubernetes", + "fusion" ] } ] From 636c9bbc23868af4c41cdaaf3f109f07280b8254 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Mon, 30 Jun 2025 17:26:20 +1200 Subject: [PATCH 11/54] Added stdlib pages and others Signed-off-by: Christopher Hakkaart --- nextflow_docs/sidebar.json | 21 ++++++++++++++++++++- 1 file changed, 20 insertions(+), 1 deletion(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 5f752ce6b..bfdcdaa60 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -56,7 +56,7 @@ }, { "type": "category", - "label": "Compute & storage", + "label": "Compute and storage", "collapsed": true, "items": [ "aws", @@ -66,6 +66,25 @@ "kubernetes", "fusion" ] + }, + { + "type": "category", + "label": "Language reference", + "collapsed": true, + "items": [ + "reference/feature-flags", + "reference/syntax", + { + "type": "category", + "label": "Standard library", + "link": { "type": "doc", "id": "reference/stdlib" }, + "items": [ + "reference/stdlib-namespaces", + "reference/stdlib-types", + "reference/stdlib-groovy" + ] + } + ] } ] } From c71f1748fe89f3ffe6d9055c50a9dffb58be736d Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Tue, 1 Jul 2025 03:07:57 +1200 Subject: [PATCH 12/54] Make DefinitionTitle linkable Signed-off-by: Christopher Hakkaart --- .../DefinitionList/DefinitionList.js | 76 ++++++++++++++++++- 1 file changed, 75 insertions(+), 1 deletion(-) diff --git a/src/components/DefinitionList/DefinitionList.js b/src/components/DefinitionList/DefinitionList.js index 526a3fdee..770e41056 100644 --- a/src/components/DefinitionList/DefinitionList.js +++ b/src/components/DefinitionList/DefinitionList.js @@ -1,7 +1,81 @@ import React from 'react'; +// Recursively extract plain text from React children +function extractText(children) { + if (typeof children === 'string' || typeof children === 'number') { + return String(children); + } + if (Array.isArray(children)) { + return children.map(extractText).join(''); + } + if (children && typeof children === 'object' && children.props) { + return extractText(children.props.children); + } + return ''; +} + +// Simple slugify function +function slugify(text) { + return String(text) + .toLowerCase() + .replace(/[`~!@#$%^&*()_|+\-=?;:'",.<>{}\[\]]/gi, '') // remove special chars including [ and ] + .replace(/\s+/g, '-') // replace spaces with - + .replace(/-+/g, '-') // collapse multiple - + .replace(/^-+|-+$/g, ''); // trim - from start/end +} + export function DefinitionTerm({ children }) { - return
    {children}
    ; + // Extract plain text from children for slug and anchor name + const text = extractText(children).trim(); + const id = slugify(text); + const link = `#${id}`; + + return ( +
    + {children} + + # + + +
    + ); } export function DefinitionDescription({ children }) { From c79cd7ce61ea012ae1ac26327a9b2973d17cbeac Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Tue, 1 Jul 2025 11:06:47 +1200 Subject: [PATCH 13/54] Add hover links --- src/components/DefinitionList/DefinitionList.js | 17 ++++------------- 1 file changed, 4 insertions(+), 13 deletions(-) diff --git a/src/components/DefinitionList/DefinitionList.js b/src/components/DefinitionList/DefinitionList.js index 770e41056..c396f1361 100644 --- a/src/components/DefinitionList/DefinitionList.js +++ b/src/components/DefinitionList/DefinitionList.js @@ -1,4 +1,5 @@ import React from 'react'; +import Link from '@docusaurus/Link'; // Recursively extract plain text from React children function extractText(children) { @@ -45,26 +46,16 @@ export function DefinitionTerm({ children }) { }} > {children} - # - + - - ); -} - -interface DefinitionDescriptionProps { - children: ReactNode; -} - -export function DefinitionDescription({ children }: DefinitionDescriptionProps) { - return
    {children}
    ; -} - -interface DefinitionListProps { - children: ReactNode; -} - -export default function DefinitionList({ children }: DefinitionListProps) { - return
    {children}
    ; -} diff --git a/src/components/DefinitionList/index.tsx b/src/components/DefinitionList/index.tsx deleted file mode 100644 index 6b59e2262..000000000 --- a/src/components/DefinitionList/index.tsx +++ /dev/null @@ -1 +0,0 @@ -export { default, DefinitionTerm, DefinitionDescription } from './DefinitionList'; \ No newline at end of file diff --git a/src/css/components/definitionlist.css b/src/css/components/definitionlist.css deleted file mode 100644 index b8f0c0ca7..000000000 --- a/src/css/components/definitionlist.css +++ /dev/null @@ -1,14 +0,0 @@ -dl { - margin: 1em 0; -} - -dt { - font-weight: bold; - margin-top: 1em; -} - -dd { - margin-left: 1.5em; - margin-bottom: 0.5em; - color: var(--ifm-color-content-secondary); -} \ No newline at end of file From ba179e9df6f9e6913f453cce364e3a5568674731 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 18 Jul 2025 20:28:11 +1200 Subject: [PATCH 47/54] Add note --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index dc15ee743..4b60fdd77 100644 --- a/README.md +++ b/README.md @@ -51,7 +51,7 @@ We have a script which can select a commit (or ideally release tag) to be used f ### Nextflow -Wave documentation is pulled from the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo during the docs build. It is not versioned and lives in the `nextflow_docs` directory. Changes to the Nextflow documentation must be made in the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo. +Wave documentation is pulled from the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo during the docs build. It is not versioned and lives in the `nextflow_docs` directory. Changes to the Nextflow documentation must be made in the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo. Currently pulling from a migration branch. ### Wave From a2f4f35e546b283069f9ba80d2a9ef7cc08a124a Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Sun, 20 Jul 2025 10:55:00 +1200 Subject: [PATCH 48/54] Fix typo --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 4b60fdd77..c3e580961 100644 --- a/README.md +++ b/README.md @@ -51,7 +51,7 @@ We have a script which can select a commit (or ideally release tag) to be used f ### Nextflow -Wave documentation is pulled from the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo during the docs build. It is not versioned and lives in the `nextflow_docs` directory. Changes to the Nextflow documentation must be made in the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo. Currently pulling from a migration branch. +Nextflow documentation is pulled from the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo during the docs build. It is not versioned and lives in the `nextflow_docs` directory. Changes to the Nextflow documentation must be made in the [`nextflow-io/nextflow`](https://github.com/nextflow-io/nextflow) repo. Currently pulling from a migration branch. ### Wave From 3fb56b67a19dc0a7649ea6c231b396f2e7c7f29e Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Wed, 13 Aug 2025 13:35:07 +1200 Subject: [PATCH 49/54] Update sidebar Signed-off-by: Christopher Hakkaart --- nextflow_docs/sidebar.json | 17 +++++++++-------- 1 file changed, 9 insertions(+), 8 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 789adf01f..42f2a93ad 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -127,6 +127,7 @@ "items": [ "developer/index", "developer/diagram", + "developer/config-scopes", { "type": "category", "label": "Packages", @@ -159,22 +160,22 @@ }, { "type": "category", - "label": "Guides", + "label": "Tutorials", "collapsed": true, "items": [ - "guides/aws-java-sdk-v2", - "guides/updating-spot-retries" + "tutorials/data-lineage", + "tutorials/workflow-outputs", + "tutorials/metrics", + "tutorials/flux" ] }, { "type": "category", - "label": "Tutorials", + "label": "Guides", "collapsed": true, "items": [ - "tutorials/data-lineage", - "tutorials/flux", - "tutorials/metrics", - "tutorials/workflow-outputs" + "guides/aws-java-sdk-v2", + "guides/updating-spot-retries" ] } ] From d5b3cc6219b73142d3325639a75fae720a616891 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 19 Sep 2025 11:15:21 +1200 Subject: [PATCH 50/54] Add tools --- nextflow_docs/sidebar.json | 6 +- package-lock.json | 223 ++++++++++++++++++++++++++----------- package.json | 4 +- 3 files changed, 162 insertions(+), 71 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 42f2a93ad..8fa62fc00 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -21,8 +21,7 @@ "config", "executor", "cache-and-resume", - "reports", - "plugins" + "reports" ] }, { @@ -154,8 +153,7 @@ "developer/nextflow.secret", "developer/nextflow.trace" ] - }, - "developer/plugins" + } ] }, { diff --git a/package-lock.json b/package-lock.json index 9bb521fe2..cbb032526 100644 --- a/package-lock.json +++ b/package-lock.json @@ -451,9 +451,9 @@ } }, "node_modules/@antfu/utils": { - "version": "8.1.1", - "resolved": "https://registry.npmjs.org/@antfu/utils/-/utils-8.1.1.tgz", - "integrity": "sha512-Mex9nXf9vR6AhcXmMrlz/HVgYYZpVGJ6YlPgwl7UnaFpnshXs6EK/oa5Gpf3CzENMjkvEx2tQtntGnb7UtSTOQ==", + "version": "9.2.0", + "resolved": "https://registry.npmjs.org/@antfu/utils/-/utils-9.2.0.tgz", + "integrity": "sha512-Oq1d9BGZakE/FyoEtcNeSwM7MpDO2vUBi11RWBZXf75zPsbUVWmUs03EqkRFrcgbXyKTas0BdZWC1wcuSoqSAw==", "license": "MIT", "funding": { "url": "https://github.com/sponsors/antfu" @@ -4807,18 +4807,18 @@ "license": "MIT" }, "node_modules/@iconify/utils": { - "version": "2.3.0", - "resolved": "https://registry.npmjs.org/@iconify/utils/-/utils-2.3.0.tgz", - "integrity": "sha512-GmQ78prtwYW6EtzXRU1rY+KwOKfz32PD7iJh6Iyqw68GiKuoZ2A6pRtzWONz5VQJbp50mEjXh/7NkumtrAgRKA==", + "version": "3.0.2", + "resolved": "https://registry.npmjs.org/@iconify/utils/-/utils-3.0.2.tgz", + "integrity": "sha512-EfJS0rLfVuRuJRn4psJHtK2A9TqVnkxPpHY6lYHiB9+8eSuudsxbwMiavocG45ujOo6FJ+CIRlRnlOGinzkaGQ==", "license": "MIT", "dependencies": { - "@antfu/install-pkg": "^1.0.0", - "@antfu/utils": "^8.1.0", + "@antfu/install-pkg": "^1.1.0", + "@antfu/utils": "^9.2.0", "@iconify/types": "^2.0.0", - "debug": "^4.4.0", - "globals": "^15.14.0", + "debug": "^4.4.1", + "globals": "^15.15.0", "kolorist": "^1.8.0", - "local-pkg": "^1.0.0", + "local-pkg": "^1.1.1", "mlly": "^1.7.4" } }, @@ -5109,9 +5109,9 @@ } }, "node_modules/@mermaid-js/parser": { - "version": "0.6.0", - "resolved": "https://registry.npmjs.org/@mermaid-js/parser/-/parser-0.6.0.tgz", - "integrity": "sha512-7DNESgpyZ5WG1SIkrYafVBhWmImtmQuoxOO1lawI3gQYWxBX3v1FW3IyuuRfKJAO06XrZR71W0Kif5VEGGd4VA==", + "version": "0.6.2", + "resolved": "https://registry.npmjs.org/@mermaid-js/parser/-/parser-0.6.2.tgz", + "integrity": "sha512-+PO02uGF6L6Cs0Bw8RpGhikVvMWEysfAyl27qTlroUB8jSWr1lL0Sf6zi78ZxlSnmgSY2AMMKVgghnN9jTtwkQ==", "license": "MIT", "dependencies": { "langium": "3.3.1" @@ -6908,9 +6908,9 @@ } }, "node_modules/@types/d3-array": { - "version": "3.2.1", - "resolved": "https://registry.npmjs.org/@types/d3-array/-/d3-array-3.2.1.tgz", - "integrity": "sha512-Y2Jn2idRrLzUfAKV2LyRImR+y4oa2AntrgID95SHJxuMUrkNXmanDSed71sRNZysveJVt1hLLemQZIady0FpEg==", + "version": "3.2.2", + "resolved": "https://registry.npmjs.org/@types/d3-array/-/d3-array-3.2.2.tgz", + "integrity": "sha512-hOLWVbm7uRza0BYXpIIW5pxfrKe0W+D5lrFiAEYR+pb6w3N2SwSMaJbXdUfSEv+dT4MfHBLtn5js0LAWaO6otw==", "license": "MIT" }, "node_modules/@types/d3-axis": { @@ -6960,9 +6960,9 @@ "license": "MIT" }, "node_modules/@types/d3-dispatch": { - "version": "3.0.6", - "resolved": "https://registry.npmjs.org/@types/d3-dispatch/-/d3-dispatch-3.0.6.tgz", - "integrity": "sha512-4fvZhzMeeuBJYZXRXrRIQnvUYfyXwYmLsdiN7XXmVNQKKw1cM8a5WdID0g1hVFZDqT9ZqZEY5pD44p24VS7iZQ==", + "version": "3.0.7", + "resolved": "https://registry.npmjs.org/@types/d3-dispatch/-/d3-dispatch-3.0.7.tgz", + "integrity": "sha512-5o9OIAdKkhN1QItV2oqaE5KMIiXAvDWBDPrD85e58Qlz1c1kI/J0NcqbEG88CoTwJrYe7ntUCVfeUl2UJKbWgA==", "license": "MIT" }, "node_modules/@types/d3-drag": { @@ -9471,6 +9471,12 @@ "integrity": "sha512-/Srv4dswyQNBfohGpz9o6Yb3Gz3SrUDqBH5rTuhGR7ahtlbYKnVxw2bCFMRljaA7EXHaXZ8wsHdodFvbkhKmqg==", "license": "MIT" }, + "node_modules/confbox": { + "version": "0.2.2", + "resolved": "https://registry.npmjs.org/confbox/-/confbox-0.2.2.tgz", + "integrity": "sha512-1NB+BKqhtNipMsov4xI/NnhCKp9XG9NamYp5PVm9klAT0fsrNPjaFICsCFhNhwZJKNh7zB/3q8qXz0E9oaMNtQ==", + "license": "MIT" + }, "node_modules/config-chain": { "version": "1.1.13", "resolved": "https://registry.npmjs.org/config-chain/-/config-chain-1.1.13.tgz", @@ -10184,9 +10190,9 @@ "license": "MIT" }, "node_modules/cytoscape": { - "version": "3.32.0", - "resolved": "https://registry.npmjs.org/cytoscape/-/cytoscape-3.32.0.tgz", - "integrity": "sha512-5JHBC9n75kz5851jeklCPmZWcg3hUe6sjqJvyk3+hVqFaKcHwHgxsjeN1yLmggoUc6STbtm9/NQyabQehfjvWQ==", + "version": "3.33.1", + "resolved": "https://registry.npmjs.org/cytoscape/-/cytoscape-3.33.1.tgz", + "integrity": "sha512-iJc4TwyANnOGR1OmWhsS9ayRS3s+XQ185FmuHObThD+5AeJCakAAbWv8KimMTt08xCCLNgneQwFp+JRJOr9qGQ==", "license": "MIT", "engines": { "node": ">=0.10" @@ -10746,9 +10752,9 @@ } }, "node_modules/dayjs": { - "version": "1.11.13", - "resolved": "https://registry.npmjs.org/dayjs/-/dayjs-1.11.13.tgz", - "integrity": "sha512-oaMBel6gjolK862uaPQOVTA7q3TZhuSvuMQAAglQDOWYO9A91IrAOUJEyKVlqJlHE0vq5p5UXxzdPfMH/x6xNg==", + "version": "1.11.18", + "resolved": "https://registry.npmjs.org/dayjs/-/dayjs-1.11.18.tgz", + "integrity": "sha512-zFBQ7WFRvVRhKcWoUh+ZA1g2HVgUbsZm9sbddh8EC5iv93sui8DVVz1Npvz+r6meo9VKfa8NyLWBsQK1VvIKPA==", "license": "MIT" }, "node_modules/debounce": { @@ -10931,6 +10937,15 @@ "url": "https://github.com/sponsors/ljharb" } }, + "node_modules/delaunator": { + "version": "5.0.1", + "resolved": "https://registry.npmjs.org/delaunator/-/delaunator-5.0.1.tgz", + "integrity": "sha512-8nvh+XBe96aCESrGOqMp/84b13H9cdKbG5P2ejQCh4d4sK9RL4371qou9drQjMhvnPmhWl5hnmqbEE0fXr9Xnw==", + "license": "ISC", + "dependencies": { + "robust-predicates": "^3.0.2" + } + }, "node_modules/depd": { "version": "2.0.0", "resolved": "https://registry.npmjs.org/depd/-/depd-2.0.0.tgz", @@ -12252,9 +12267,9 @@ } }, "node_modules/dompurify": { - "version": "3.2.6", - "resolved": "https://registry.npmjs.org/dompurify/-/dompurify-3.2.6.tgz", - "integrity": "sha512-/2GogDQlohXPZe6D6NOgQvXLPSYBqIWMnZ8zzOhn09REE4eyAzb+Hed3jhoM9OkuaJ8P6ZGTTVWQKAi8ieIzfQ==", + "version": "3.2.7", + "resolved": "https://registry.npmjs.org/dompurify/-/dompurify-3.2.7.tgz", + "integrity": "sha512-WhL/YuveyGXJaerVlMYGWhvQswa7myDG17P7Vu65EWC05o8vfeNbvNf4d/BOvH99+ZW+LlQsc1GDKMa1vNK6dw==", "license": "(MPL-2.0 OR Apache-2.0)", "optionalDependencies": { "@types/trusted-types": "^2.0.7" @@ -13448,6 +13463,12 @@ "node": ">= 0.6" } }, + "node_modules/exsolve": { + "version": "1.0.7", + "resolved": "https://registry.npmjs.org/exsolve/-/exsolve-1.0.7.tgz", + "integrity": "sha512-VO5fQUzZtI6C+vx4w/4BWJpg3s/5l+6pRQEHzFRM8WFi4XffSP1Z+4qi7GbjWbvRQEbdIco5mIMq+zX4rPuLrw==", + "license": "MIT" + }, "node_modules/extend": { "version": "3.0.2", "resolved": "https://registry.npmjs.org/extend/-/extend-3.0.2.tgz", @@ -14728,16 +14749,6 @@ "url": "https://opencollective.com/unified" } }, - "node_modules/hast-util-to-html/node_modules/property-information": { - "version": "7.1.0", - "resolved": "https://registry.npmjs.org/property-information/-/property-information-7.1.0.tgz", - "integrity": "sha512-TwEZ+X+yCJmYfL7TPUOcvBZ4QfoT5YenQiJuX//0th53DE6w0xxLEtfK3iyryQFddXuvkIk51EEgrJQ0WJkOmQ==", - "license": "MIT", - "funding": { - "type": "github", - "url": "https://github.com/sponsors/wooorm" - } - }, "node_modules/hast-util-to-jsx-runtime": { "version": "2.3.6", "resolved": "https://registry.npmjs.org/hast-util-to-jsx-runtime/-/hast-util-to-jsx-runtime-2.3.6.tgz", @@ -16834,14 +16845,14 @@ } }, "node_modules/local-pkg": { - "version": "1.1.1", - "resolved": "https://registry.npmjs.org/local-pkg/-/local-pkg-1.1.1.tgz", - "integrity": "sha512-WunYko2W1NcdfAFpuLUoucsgULmgDBRkdxHxWQ7mK0cQqwPiy8E1enjuRBrhLtZkB5iScJ1XIPdhVEFK8aOLSg==", + "version": "1.1.2", + "resolved": "https://registry.npmjs.org/local-pkg/-/local-pkg-1.1.2.tgz", + "integrity": "sha512-arhlxbFRmoQHl33a0Zkle/YWlmNwoyt6QNZEIJcqNbdrsix5Lvc4HyyI3EnwxTYlZYc32EbYrQ8SzEZ7dqgg9A==", "license": "MIT", "dependencies": { "mlly": "^1.7.4", - "pkg-types": "^2.0.1", - "quansync": "^0.2.8" + "pkg-types": "^2.3.0", + "quansync": "^0.2.11" }, "engines": { "node": ">=14" @@ -17111,6 +17122,18 @@ "url": "https://github.com/sponsors/sindresorhus" } }, + "node_modules/marked": { + "version": "16.3.0", + "resolved": "https://registry.npmjs.org/marked/-/marked-16.3.0.tgz", + "integrity": "sha512-K3UxuKu6l6bmA5FUwYho8CfJBlsUWAooKtdGgMcERSpF7gcBUrCGsLH7wDaaNOzwq18JzSUDyoEb/YsrqMac3w==", + "license": "MIT", + "bin": { + "marked": "bin/marked.js" + }, + "engines": { + "node": ">= 20" + } + }, "node_modules/math-intrinsics": { "version": "1.1.0", "resolved": "https://registry.npmjs.org/math-intrinsics/-/math-intrinsics-1.1.0.tgz", @@ -17703,14 +17726,14 @@ } }, "node_modules/mermaid": { - "version": "11.8.0", - "resolved": "https://registry.npmjs.org/mermaid/-/mermaid-11.8.0.tgz", - "integrity": "sha512-uAZUwnBiqREZcUrFw3G5iQ5Pj3hTYUP95EZc3ec/nGBzHddJZydzYGE09tGZDBS1VoSoDn0symZ85FmypSTo5g==", + "version": "11.12.0", + "resolved": "https://registry.npmjs.org/mermaid/-/mermaid-11.12.0.tgz", + "integrity": "sha512-ZudVx73BwrMJfCFmSSJT84y6u5brEoV8DOItdHomNLz32uBjNrelm7mg95X7g+C6UoQH/W6mBLGDEDv73JdxBg==", "license": "MIT", "dependencies": { - "@braintree/sanitize-url": "^7.0.4", - "@iconify/utils": "^2.1.33", - "@mermaid-js/parser": "^0.6.0", + "@braintree/sanitize-url": "^7.1.1", + "@iconify/utils": "^3.0.1", + "@mermaid-js/parser": "^0.6.2", "@types/d3": "^7.4.3", "cytoscape": "^3.29.3", "cytoscape-cose-bilkent": "^4.1.0", @@ -17718,30 +17741,18 @@ "d3": "^7.9.0", "d3-sankey": "^0.12.3", "dagre-d3-es": "7.0.11", - "dayjs": "^1.11.13", + "dayjs": "^1.11.18", "dompurify": "^3.2.5", - "katex": "^0.16.9", + "katex": "^0.16.22", "khroma": "^2.1.0", "lodash-es": "^4.17.21", - "marked": "^15.0.7", + "marked": "^16.2.1", "roughjs": "^4.6.6", "stylis": "^4.3.6", "ts-dedent": "^2.2.0", "uuid": "^11.1.0" } }, - "node_modules/mermaid/node_modules/marked": { - "version": "15.0.12", - "resolved": "https://registry.npmjs.org/marked/-/marked-15.0.12.tgz", - "integrity": "sha512-8dD6FusOQSrpv9Z1rdNMdlSgQOIP880DHqnohobOmYLElGEqAL/JvxvuxZO16r4HtjTlfPRDC1hbvxC9dPN2nA==", - "license": "MIT", - "bin": { - "marked": "bin/marked.js" - }, - "engines": { - "node": ">= 18" - } - }, "node_modules/mermaid/node_modules/uuid": { "version": "11.1.0", "resolved": "https://registry.npmjs.org/uuid/-/uuid-11.1.0.tgz", @@ -19860,6 +19871,35 @@ "url": "https://github.com/sponsors/isaacs" } }, + "node_modules/mlly": { + "version": "1.8.0", + "resolved": "https://registry.npmjs.org/mlly/-/mlly-1.8.0.tgz", + "integrity": "sha512-l8D9ODSRWLe2KHJSifWGwBqpTZXIXTeo8mlKjY+E2HAakaTeNpqAyBZ8GSqLzHgw4XmHmC8whvpjJNMbFZN7/g==", + "license": "MIT", + "dependencies": { + "acorn": "^8.15.0", + "pathe": "^2.0.3", + "pkg-types": "^1.3.1", + "ufo": "^1.6.1" + } + }, + "node_modules/mlly/node_modules/confbox": { + "version": "0.1.8", + "resolved": "https://registry.npmjs.org/confbox/-/confbox-0.1.8.tgz", + "integrity": "sha512-RMtmw0iFkeR4YV+fUOSucriAQNb9g8zFR52MWCtl+cCZOFRNL6zeB395vPzFhEjjn4fMxXudmELnl/KF/WrK6w==", + "license": "MIT" + }, + "node_modules/mlly/node_modules/pkg-types": { + "version": "1.3.1", + "resolved": "https://registry.npmjs.org/pkg-types/-/pkg-types-1.3.1.tgz", + "integrity": "sha512-/Jm5M4RvtBFVkKWRu2BLUTNP8/M2a+UwuAX+ae4770q1qVGtfjG+WTCupoZixokjmHiry8uI+dlY8KXYV5HVVQ==", + "license": "MIT", + "dependencies": { + "confbox": "^0.1.8", + "mlly": "^1.7.4", + "pathe": "^2.0.1" + } + }, "node_modules/motion-dom": { "version": "11.18.1", "resolved": "https://registry.npmjs.org/motion-dom/-/motion-dom-11.18.1.tgz", @@ -20194,6 +20234,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -20241,6 +20282,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -20249,6 +20291,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -20285,6 +20328,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -20556,6 +20600,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -20980,6 +21025,12 @@ "node": ">=8" } }, + "node_modules/pathe": { + "version": "2.0.3", + "resolved": "https://registry.npmjs.org/pathe/-/pathe-2.0.3.tgz", + "integrity": "sha512-WUjGcAqP1gQacoQe+OBJsFA7Ld4DyXuUIjZ5cc75cLHvJ7dtNsTugphxIADwspS+AraAUePCKrSVtPLFj/F88w==", + "license": "MIT" + }, "node_modules/picocolors": { "version": "1.1.1", "resolved": "https://registry.npmjs.org/picocolors/-/picocolors-1.1.1.tgz", @@ -21113,6 +21164,17 @@ "url": "https://github.com/sponsors/sindresorhus" } }, + "node_modules/pkg-types": { + "version": "2.3.0", + "resolved": "https://registry.npmjs.org/pkg-types/-/pkg-types-2.3.0.tgz", + "integrity": "sha512-SIqCzDRg0s9npO5XQ3tNZioRY1uK06lA41ynBC1YmFTmnY6FjUjVt6s4LoADmwoig1qqD0oK8h1p/8mlMx8Oig==", + "license": "MIT", + "dependencies": { + "confbox": "^0.2.2", + "exsolve": "^1.0.7", + "pathe": "^2.0.3" + } + }, "node_modules/pluralize": { "version": "8.0.0", "resolved": "https://registry.npmjs.org/pluralize/-/pluralize-8.0.0.tgz", @@ -22952,6 +23014,22 @@ "url": "https://github.com/sponsors/ljharb" } }, + "node_modules/quansync": { + "version": "0.2.11", + "resolved": "https://registry.npmjs.org/quansync/-/quansync-0.2.11.tgz", + "integrity": "sha512-AifT7QEbW9Nri4tAwR5M/uzpBuqfZf+zwaEM/QkzEjj7NBuFD2rBuy0K3dE+8wltbezDV7JMA0WfnCPYRSYbXA==", + "funding": [ + { + "type": "individual", + "url": "https://github.com/sponsors/antfu" + }, + { + "type": "individual", + "url": "https://github.com/sponsors/sxzz" + } + ], + "license": "MIT" + }, "node_modules/queue-microtask": { "version": "1.2.3", "resolved": "https://registry.npmjs.org/queue-microtask/-/queue-microtask-1.2.3.tgz", @@ -24497,6 +24575,7 @@ "hast-util-definition-list": "^2.0.0", "mdast-util-definition-list": "^2.0.0", "micromark-extension-definition-list": "^2.0.0" + } }, "node_modules/remark-deflist": { "version": "1.0.0", @@ -25506,6 +25585,12 @@ "url": "https://github.com/sponsors/isaacs" } }, + "node_modules/robust-predicates": { + "version": "3.0.2", + "resolved": "https://registry.npmjs.org/robust-predicates/-/robust-predicates-3.0.2.tgz", + "integrity": "sha512-IXgzBWvWQwE6PrDI05OvmXUIruQTcoMDzRsOd5CDvHCVLcLHMTSYvOK5Cm46kWqlV3yAbuSpBZdJ5oP5OUoStg==", + "license": "Unlicense" + }, "node_modules/roughjs": { "version": "4.6.6", "resolved": "https://registry.npmjs.org/roughjs/-/roughjs-4.6.6.tgz", @@ -27123,6 +27208,7 @@ "version": "1.10.2", "resolved": "https://registry.npmjs.org/yaml/-/yaml-1.10.2.tgz", "integrity": "sha512-r3vXyErRCYJ7wg28yvBY5VSoAF8ZvlcW9/BwUzEtUsjvX/DKs24dIkuwjtuprwJJHsbyUbLApepYTR1BN4uHrg==", + "license": "ISC", "engines": { "node": ">= 6" } @@ -27708,6 +27794,12 @@ "dev": true, "license": "MIT" }, + "node_modules/ufo": { + "version": "1.6.1", + "resolved": "https://registry.npmjs.org/ufo/-/ufo-1.6.1.tgz", + "integrity": "sha512-9a4/uxlTWJ4+a5i0ooc1rU7C7YOw3wT+UGqdeNNHWnOF9qcMBgLRS+4IYUqbczewFx4mLEig6gawh7X6mFlEkA==", + "license": "MIT" + }, "node_modules/unbox-primitive": { "version": "1.1.0", "resolved": "https://registry.npmjs.org/unbox-primitive/-/unbox-primitive-1.1.0.tgz", @@ -29198,6 +29290,7 @@ "version": "2.8.1", "resolved": "https://registry.npmjs.org/yaml/-/yaml-2.8.1.tgz", "integrity": "sha512-lcYcMxX2PO9XMGvAJkJ3OsNMw+/7FKes7/hgerGUYWIoWu5j/+YQqcZr5JnPZWzOsEBgMbSbiSTn/dv/69Mkpw==", + "license": "ISC", "bin": { "yaml": "bin.mjs" }, diff --git a/package.json b/package.json index 5a9d1d86d..4a2a4b71f 100644 --- a/package.json +++ b/package.json @@ -54,12 +54,12 @@ "rehype-katex": "^7.0.1", "remark-code-import": "^1.2.0", "remark-definition-list": "^2.0.0", + "remark-deflist": "^1.0.0", + "remark-math": "^6.0.0", "remark-sectionize": "^2.1.0", "remark-yaml-to-table": "github:seqeralabs/remark-yaml-to-table", "unist-util-visit": "^5.0.0", "webpack-dev-server": "^5.2.2", - "remark-math": "^6.0.0", - "remark-deflist": "^1.0.0", "yaml": "^2.8.1" }, "devDependencies": { From b56a94b8f2a8bd627c3b02fdc60d15fea4cea2de Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 19 Sep 2025 12:33:22 +1200 Subject: [PATCH 51/54] Update top nav --- .../SeqeraHeader/HeaderDesktop/NavItems/index.jsx | 12 +++--------- 1 file changed, 3 insertions(+), 9 deletions(-) diff --git a/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx b/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx index 155f78c2d..a3c7ed9b2 100644 --- a/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx +++ b/src/theme/Navbar/Layout/SeqeraHeader/HeaderDesktop/NavItems/index.jsx @@ -57,15 +57,9 @@ const NavItems = ({ isDark = false, hideMenu }) => {
  • - -
    - Nextflow - -
    -
    + + Nextflow +
  • From 932a14d4887f9f48f465a5c7f262b946c088ef56 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 19 Sep 2025 12:38:27 +1200 Subject: [PATCH 52/54] Update stable Signed-off-by: Christopher Hakkaart --- stableVersion.json | 34 +++++++++++++++++++++++++++++----- 1 file changed, 29 insertions(+), 5 deletions(-) diff --git a/stableVersion.json b/stableVersion.json index 7859f8abc..4cecc7fa3 100644 --- a/stableVersion.json +++ b/stableVersion.json @@ -1,19 +1,43 @@ { "nextflow": [ { - "stable": "stable 24", + "stable": "stable 24.10.0", "replaces": [ - "24.10.chris-edge", + "24.05.0-edge", "24.06.0-edge", "24.07.0-edge", "24.08.0-edge", "24.09.0-edge" ] }, - { - "stable": "stable-1", + { + "stable": "stable 24.04.0", + "replaces": [ + "23.11.0-edge", + "23.12.0-edge", + "24.01.0-edge", + "24.02.0-edge", + "24.03.0-edge" + ] + }, + { + "stable": "stable 23.10.0", + "replaces": [ + "23.05.0-edge", + "23.06.0-edge", + "23.07.0-edge", + "23.08.0-edge", + "23.09.0-edge" + ] + }, + { + "stable": "stable 23.04.0", "replaces": [ - "23.20.1-edge" + "22.11.0-edge", + "22.12.0-edge", + "23.01.0-edge", + "23.02.0-edge", + "23.03.0-edge" ] } ] From 4c9811156ad79091b818b3aa4a6d5df78e522432 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 19 Sep 2025 13:38:33 +1200 Subject: [PATCH 53/54] Update sidebar Signed-off-by: Christopher Hakkaart --- nextflow_docs/sidebar.json | 13 +++++++++++++ 1 file changed, 13 insertions(+) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 8fa62fc00..2186e6676 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -66,6 +66,17 @@ "fusion" ] }, + { + "type": "category", + "label": "Plugins", + "collapsed": true, + "items": [ + "plugins/plugins", + "plugins/using-plugins", + "plugins/developing-plugins", + "plugins/plugin-registry" + ] + }, { "type": "category", "label": "Language reference", @@ -173,6 +184,8 @@ "collapsed": true, "items": [ "guides/aws-java-sdk-v2", + "guides/gradle-plugin", + "guides/migrate-plugin", "guides/updating-spot-retries" ] } From 3447aa6c9adaf2cd1085e270c0701c9ad5abaa50 Mon Sep 17 00:00:00 2001 From: Christopher Hakkaart Date: Fri, 31 Oct 2025 10:23:51 +1300 Subject: [PATCH 54/54] Packages --- nextflow_docs/sidebar.json | 3 ++ package-lock.json | 75 ++++++++++++++++++++++++-------------- 2 files changed, 50 insertions(+), 28 deletions(-) diff --git a/nextflow_docs/sidebar.json b/nextflow_docs/sidebar.json index 2186e6676..4faa23296 100644 --- a/nextflow_docs/sidebar.json +++ b/nextflow_docs/sidebar.json @@ -32,6 +32,7 @@ "script", "working-with-files", "process", + "process-typed", "channel", "workflow", "module", @@ -172,8 +173,10 @@ "label": "Tutorials", "collapsed": true, "items": [ + "tutorials/rnaseq-nf", "tutorials/data-lineage", "tutorials/workflow-outputs", + "tutorials/static-types", "tutorials/metrics", "tutorials/flux" ] diff --git a/package-lock.json b/package-lock.json index 4ead1cb97..3a9a8fc3a 100644 --- a/package-lock.json +++ b/package-lock.json @@ -103,7 +103,6 @@ "resolved": "https://registry.npmjs.org/@algolia/cache-browser-local-storage/-/cache-browser-local-storage-4.25.2.tgz", "integrity": "sha512-tA1rqAafI+gUdewjZwyTsZVxesl22MTgLWRKt1+TBiL26NiKx7SjRqTI3pzm8ngx1ftM5LSgXkVIgk2+SRgPTg==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/cache-common": "4.25.2" } @@ -112,15 +111,13 @@ "version": "4.25.2", "resolved": "https://registry.npmjs.org/@algolia/cache-common/-/cache-common-4.25.2.tgz", "integrity": "sha512-E+aZwwwmhvZXsRA1+8DhH2JJIwugBzHivASTnoq7bmv0nmForLyH7rMG5cOTiDK36DDLnKq1rMGzxWZZ70KZag==", - "license": "MIT", - "peer": true + "license": "MIT" }, "node_modules/@algolia/cache-in-memory": { "version": "4.25.2", "resolved": "https://registry.npmjs.org/@algolia/cache-in-memory/-/cache-in-memory-4.25.2.tgz", "integrity": "sha512-KYcenhfPKgR+WJ6IEwKVEFMKKCWLZdnYuw08+3Pn1cxAXbJcTIKjoYgEXzEW6gJmDaau2l55qNrZo6MBbX7+sw==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/cache-common": "4.25.2" } @@ -145,7 +142,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-account/-/client-account-4.25.2.tgz", "integrity": "sha512-IfRGhBxvjli9mdexrCxX2N4XT9NBN3tvZK5zCaL8zkDcgsthiM9WPvGIZS/pl/FuXB7hA0lE5kqOzsQDP6OmGQ==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/client-common": "4.25.2", "@algolia/client-search": "4.25.2", @@ -157,7 +153,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-common/-/client-common-4.25.2.tgz", "integrity": "sha512-HXX8vbJPYW29P18GxciiwaDpQid6UhpPP9nW9WE181uGUgFhyP5zaEkYWf9oYBrjMubrGwXi5YEzJOz6Oa4faA==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/requester-common": "4.25.2", "@algolia/transporter": "4.25.2" @@ -168,7 +163,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-search/-/client-search-4.25.2.tgz", "integrity": "sha512-pO/LpVnQlbJpcHRk+AroWyyFnh01eOlO6/uLZRUmYvr/hpKZKxI6n7ufgTawbo0KrAu2CePfiOkStYOmDuRjzQ==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/client-common": "4.25.2", "@algolia/requester-common": "4.25.2", @@ -180,7 +174,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-analytics/-/client-analytics-4.25.2.tgz", "integrity": "sha512-4Yxxhxh+XjXY8zPyo+h6tQuyoJWDBn8E3YLr8j+YAEy5p+r3/5Tp+ANvQ+hNaQXbwZpyf5d4ViYOBjJ8+bWNEg==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/client-common": "4.25.2", "@algolia/client-search": "4.25.2", @@ -193,7 +186,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-common/-/client-common-4.25.2.tgz", "integrity": "sha512-HXX8vbJPYW29P18GxciiwaDpQid6UhpPP9nW9WE181uGUgFhyP5zaEkYWf9oYBrjMubrGwXi5YEzJOz6Oa4faA==", "license": "MIT", - "peer": true, "dependencies": { "@algolia/requester-common": "4.25.2", "@algolia/transporter": "4.25.2" @@ -204,7 +196,6 @@ "resolved": "https://registry.npmjs.org/@algolia/client-search/-/client-search-4.25.2.tgz", "integrity": 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