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| @@ -0,0 +1 @@ | ||
| please look at: docs/_Getting-Started/02-contributing.md |
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| Original file line number | Diff line number | Diff line change |
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| <title>The NFDI4Microbiota Knowledge Base</title> | ||
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| <script src="{{ '/assets/js/color-modes.js' | relative_url }}"></script> | ||
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| <link rel="stylesheet" href="{{ '/assets/css/docsearch.css' | relative_url }}"> | ||
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| <link href="{{ '/assets/css/bootstrap53..min.css' | relative_url }}" rel="stylesheet"> | ||
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| <link href="{{ '/assets/css/bootstrap53.min.css' | relative_url }}" rel="stylesheet"> | ||
| <link href="{{ '/assets/css/docs53.css' | relative_url }}" rel="stylesheet"> | ||
| <link rel="stylesheet" href="{{ '/assets/css/docsearch.css' | relative_url }}"> | ||
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| <link href="{{ '/assets/css/main.css' | relative_url }}" rel="stylesheet"> | ||
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| <script src="{{ '/assets/js/color-modes.js' | relative_url }}"></script> | ||
| <script defer src="{{ '/assets/js/usefathom.js' | relative_url }}" data-site="ITUSEYJG"></script> | ||
| <script src="{{ '/assets/js/boostrap53.bundle.min.js' | relative_url }}"></script> | ||
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| integrity="sha256-H+K7U5CnXl1h5ywQfKtSj8PCmoN9aaq30gDh27Xc0jk=" | ||
| crossorigin="anonymous"></script> | ||
| <script src="{{ '/assets/js/main.js' | relative_url }}"></script> | ||
| <script> | ||
| document.querySelectorAll('.btn-edit').forEach(btn => { | ||
| btn.addEventListener('click', event => { | ||
| const htmlSnippet = event.target.closest('.bd-code-snippet').querySelector('.bd-example').innerHTML | ||
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| const classes = Array.from(event.target.closest('.bd-code-snippet').querySelector('.bd-example').classList).join(' ') | ||
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| const jsSnippet = event.target.closest('.bd-code-snippet').querySelector('.btn-edit').getAttribute('data-sb-js-snippet') | ||
| StackBlitzSDK.openBootstrapSnippet(htmlSnippet, jsSnippet, classes) | ||
| }) | ||
| }) | ||
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| StackBlitzSDK.openBootstrapSnippet = (htmlSnippet, jsSnippet, classes) => { | ||
| const markup = `<!doctype html> | ||
| <html lang="en"> | ||
| <head> | ||
| <meta charset="utf-8"> | ||
| <meta name="viewport" content="width=device-width, initial-scale=1"> | ||
| <link href="https:\/\/cdn.jsdelivr.net\/npm\/[email protected]\/dist\/css\/bootstrap.min.css" rel="stylesheet"> | ||
| <link href="https://getbootstrap.com/docs/5.3/assets/css/docs.css" rel="stylesheet"> | ||
| <title>Bootstrap Example</title> | ||
| <${'script'} src="https:\/\/cdn.jsdelivr.net\/npm\/[email protected]\/dist\/js\/bootstrap.bundle.min.js"></${'script'}> | ||
| </head> | ||
| <body class="p-3 m-0 border-0 ${classes}"> | ||
| <!-- Example Code --> | ||
| ${htmlSnippet.replace(/^/gm, ' ')} | ||
| <!-- End Example Code --> | ||
| </body> | ||
| </html>` | ||
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| const jsSnippetContent = jsSnippet ? '\/\/ NOTICE!!! Initially embedded in our docs this JavaScript\n\/\/ file contains elements that can help you create reproducible\n\/\/ use cases in StackBlitz for instance.\n\/\/ In a real project please adapt this content to your needs.\n\/\/ \u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\u002b\n\n\/*!\n * JavaScript for Bootstrap\u0027s docs (https:\/\/getbootstrap.com\/)\n * Copyright 2011-2023 The Bootstrap Authors\n * Licensed under the Creative Commons Attribution 3.0 Unported License.\n * For details, see https:\/\/creativecommons.org\/licenses\/by\/3.0\/.\n *\/\n\n\/* global bootstrap: false *\/\n\n(() =\u003e {\n \u0027use strict\u0027\n\n \/\/ --------\n \/\/ Tooltips\n \/\/ --------\n \/\/ Instantiate all tooltips in a docs or StackBlitz\n document.querySelectorAll(\u0027[data-bs-toggle=\u0022tooltip\u0022]\u0027)\n .forEach(tooltip =\u003e {\n new bootstrap.Tooltip(tooltip)\n })\n\n \/\/ --------\n \/\/ Popovers\n \/\/ --------\n \/\/ Instantiate all popovers in docs or StackBlitz\n document.querySelectorAll(\u0027[data-bs-toggle=\u0022popover\u0022]\u0027)\n .forEach(popover =\u003e {\n new bootstrap.Popover(popover)\n })\n\n \/\/ -------------------------------\n \/\/ Toasts\n \/\/ -------------------------------\n \/\/ Used by \u0027Placement\u0027 example in docs or StackBlitz\n const toastPlacement = document.getElementById(\u0027toastPlacement\u0027)\n if (toastPlacement) {\n document.getElementById(\u0027selectToastPlacement\u0027).addEventListener(\u0027change\u0027, function () {\n if (!toastPlacement.dataset.originalClass) {\n toastPlacement.dataset.originalClass = toastPlacement.className\n }\n\n toastPlacement.className = \u0060${toastPlacement.dataset.originalClass} ${this.value}\u0060\n })\n }\n\n \/\/ Instantiate all toasts in docs pages only\n document.querySelectorAll(\u0027.bd-example .toast\u0027)\n .forEach(toastNode =\u003e {\n const toast = new bootstrap.Toast(toastNode, {\n autohide: false\n })\n\n toast.show()\n })\n\n \/\/ Instantiate all toasts in docs pages only\n \/\/ js-docs-start live-toast\n const toastTrigger = document.getElementById(\u0027liveToastBtn\u0027)\n const toastLiveExample = document.getElementById(\u0027liveToast\u0027)\n\n if (toastTrigger) {\n const toastBootstrap = bootstrap.Toast.getOrCreateInstance(toastLiveExample)\n toastTrigger.addEventListener(\u0027click\u0027, () =\u003e {\n toastBootstrap.show()\n })\n }\n \/\/ js-docs-end live-toast\n\n \/\/ -------------------------------\n \/\/ Alerts\n \/\/ -------------------------------\n \/\/ Used in \u0027Show live alert\u0027 example in docs or StackBlitz\n\n \/\/ js-docs-start live-alert\n const alertPlaceholder = document.getElementById(\u0027liveAlertPlaceholder\u0027)\n const appendAlert = (message, type) =\u003e {\n const wrapper = document.createElement(\u0027div\u0027)\n wrapper.innerHTML = [\n \u0060\u003cdiv class=\u0022alert alert-${type} alert-dismissible\u0022 role=\u0022alert\u0022\u003e\u0060,\n \u0060 \u003cdiv\u003e${message}\u003c\/div\u003e\u0060,\n \u0027 \u003cbutton type=\u0022button\u0022 class=\u0022btn-close\u0022 data-bs-dismiss=\u0022alert\u0022 aria-label=\u0022Close\u0022\u003e\u003c\/button\u003e\u0027,\n \u0027\u003c\/div\u003e\u0027\n ].join(\u0027\u0027)\n\n alertPlaceholder.append(wrapper)\n }\n\n const alertTrigger = document.getElementById(\u0027liveAlertBtn\u0027)\n if (alertTrigger) {\n alertTrigger.addEventListener(\u0027click\u0027, () =\u003e {\n appendAlert(\u0027Nice, you triggered this alert message!\u0027, \u0027success\u0027)\n })\n }\n \/\/ js-docs-end live-alert\n\n \/\/ --------\n \/\/ Carousels\n \/\/ --------\n \/\/ Instantiate all non-autoplaying carousels in docs or StackBlitz\n document.querySelectorAll(\u0027.carousel:not([data-bs-ride=\u0022carousel\u0022])\u0027)\n .forEach(carousel =\u003e {\n bootstrap.Carousel.getOrCreateInstance(carousel)\n })\n\n \/\/ -------------------------------\n \/\/ Checks \u0026 Radios\n \/\/ -------------------------------\n \/\/ Indeterminate checkbox example in docs and StackBlitz\n document.querySelectorAll(\u0027.bd-example-indeterminate [type=\u0022checkbox\u0022]\u0027)\n .forEach(checkbox =\u003e {\n if (checkbox.id.includes(\u0027Indeterminate\u0027)) {\n checkbox.indeterminate = true\n }\n })\n\n \/\/ -------------------------------\n \/\/ Links\n \/\/ -------------------------------\n \/\/ Disable empty links in docs examples only\n document.querySelectorAll(\u0027.bd-content [href=\u0022#\u0022]\u0027)\n .forEach(link =\u003e {\n link.addEventListener(\u0027click\u0027, event =\u003e {\n event.preventDefault()\n })\n })\n\n \/\/ -------------------------------\n \/\/ Modal\n \/\/ -------------------------------\n \/\/ Modal \u0027Varying modal content\u0027 example in docs and StackBlitz\n \/\/ js-docs-start varying-modal-content\n const exampleModal = document.getElementById(\u0027exampleModal\u0027)\n if (exampleModal) {\n exampleModal.addEventListener(\u0027show.bs.modal\u0027, event =\u003e {\n \/\/ Button that triggered the modal\n const button = event.relatedTarget\n \/\/ Extract info from data-bs-* attributes\n const recipient = button.getAttribute(\u0027data-bs-whatever\u0027)\n \/\/ If necessary, you could initiate an Ajax request here\n \/\/ and then do the updating in a callback.\n\n \/\/ Update the modal\u0027s content.\n const modalTitle = exampleModal.querySelector(\u0027.modal-title\u0027)\n const modalBodyInput = exampleModal.querySelector(\u0027.modal-body input\u0027)\n\n modalTitle.textContent = \u0060New message to ${recipient}\u0060\n modalBodyInput.value = recipient\n })\n }\n \/\/ js-docs-end varying-modal-content\n\n \/\/ -------------------------------\n \/\/ Offcanvas\n \/\/ -------------------------------\n \/\/ \u0027Offcanvas components\u0027 example in docs only\n const myOffcanvas = document.querySelectorAll(\u0027.bd-example-offcanvas .offcanvas\u0027)\n if (myOffcanvas) {\n myOffcanvas.forEach(offcanvas =\u003e {\n offcanvas.addEventListener(\u0027show.bs.offcanvas\u0027, event =\u003e {\n event.preventDefault()\n }, false)\n })\n }\n})()\n' : null | ||
| const project = { | ||
| files: { | ||
| 'index.html': markup, | ||
| 'index.js': jsSnippetContent | ||
| }, | ||
| title: 'Bootstrap Example', | ||
| description: `Official example from ${window.location.href}`, | ||
| template: jsSnippet ? 'javascript' : 'html', | ||
| tags: ['bootstrap'] | ||
| } | ||
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| StackBlitzSDK.openProject(project, {openFile: 'index.html'}) | ||
| } | ||
| </script> | ||
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| <script> | ||
| window.ga = window.ga || function () { | ||
| (ga.q = ga.q || []).push(arguments) | ||
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@@ -104,6 +60,29 @@ | |
| })(); | ||
| </script> | ||
| <!-- End Matomo Code --> | ||
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| <!-- Modal --> | ||
| <div class="modal fade" id="citationModal" tabindex="-1" aria-labelledby="citationModalLabel" aria-hidden="true"> | ||
| <div class="modal-dialog modal-lg"> | ||
| <div class="modal-content"> | ||
| <div class="modal-header"> | ||
| <h5 class="modal-title" id="citationModalLabel">Citation for this page</h5> | ||
| <button type="button" class="btn-close" data-bs-dismiss="modal" aria-label="Close"></button> | ||
| </div> | ||
| <div class="modal-body "> | ||
| <p> Research Data Infrastructure for Microbiota Research (NFDI4Microbiota). ({{ | ||
| page.last_modified_at | date: '%Y, %B %d'}}): <i> {{ page.title }}</i>, NFDI4Microbiota Knowledge Base,<a href="https://knowledgebase.nfdi4microbiota.de{{ page.url }}.html"> https://knowledgebase.nfdi4microbiota.de{{ page.url }}.html </a></p> | ||
| </div> | ||
| <div class="modal-footer"> | ||
| <button type="button" class="btn btn-secondary" data-bs-dismiss="modal">Close</button> | ||
| </div> | ||
| </div> | ||
| </div> | ||
| </div> | ||
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| </head> | ||
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| <body data-bs-spy="scroll" data-bs-target="#TableOfContents"> | ||
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@@ -243,17 +222,29 @@ | |
| {% endif %} | ||
| <!-- Heading of the page --> | ||
| <div class="bd-intro pt-2 ps-lg-2"> | ||
| <h1 class="bd-title mb-0 text-center" id="content">{{ page.title }}</h1> | ||
| <br> | ||
| <hr> | ||
| <div class="d-md-flex flex-md-row-reverse align-items-center justify-content-between"> | ||
| <div class="mb-3 mb-md-0 d-flex text-nowrap"><a class="btn btn-sm btn-bd-light rounded-2" | ||
| href="https://github.com/NFDI4Microbiota/nfdi4microbiota-knowledge-base/blob/main/{{ git_url }}.md" | ||
| title="View and edit this file on GitHub" | ||
| target="_blank" rel="noopener"> | ||
| View on GitHub | ||
| </a> | ||
| <div class="mb-3 mb-md-0 d-flex "> <!-- flex-column justify-content-center--> | ||
| <div class="mb-3 mb-md-0 d-flex text-nowrap"><a class="btn btn-sm btn-bd-light rounded-2" | ||
| href="https://github.com/NFDI4Microbiota/nfdi4microbiota-knowledge-base/blob/main/{{ git_url }}.md" | ||
| title="View and edit this file on GitHub" target="_blank" rel="noopener"> | ||
| View on GitHub | ||
| </a> | ||
| </div> | ||
| <br> | ||
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| <div class="mb-3 mb-md-0 d-flex text-nowrap"><button type="button" class="btn btn-sm btn-bd-light rounded-2" | ||
| data-bs-toggle="modal" data-bs-target="#citationModal"> | ||
| How to cite us | ||
| </button> | ||
| </div> | ||
| </div> | ||
| <h1 class="bd-title mb-0" id="content">{{ page.title }}</h1> | ||
| <h6><small class="text-muted">Page last modified on: {{ page.last_modified_at | date: '%Y, %B %d' }}</small></h6> | ||
| </div> | ||
| </div> | ||
| <br> | ||
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| <!-- Div for navigation to the topic inside the current page --> | ||
| <div class="bd-toc mt-3 mb-5 my-lg-0 mb-lg-5 px-sm-1 text-body-secondary"> | ||
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@@ -296,9 +287,6 @@ <h1 class="bd-title mb-0" id="content">{{ page.title }}</h1> | |
| <!-- Check if page is under construction --> | ||
| {% if page.empty %} | ||
| <p>This page is currently empty. Please consider contributing! </p> | ||
| {% else %} | ||
| <h2>Citation</h2> | ||
| <p>National Research Data Infrastructure for Microbiota Research (NFDI4Microbiota). ({{ page.last_modified_at | date: '%Y, %B %d'}}). {{ page.title }}. NFDI4Microbiota Knowledge Base. </p> | ||
| {% endif %} | ||
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| </div> | ||
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| Original file line number | Diff line number | Diff line change |
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| @@ -0,0 +1,40 @@ | ||
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| # See https://github.com/inukshuk/jekyll-scholar/issues/30 | ||
| require 'uri' | ||
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| # Updated URL_PATTERN to handle full DOI URLs and simple DOI patterns | ||
| URL_PATTERN = Regexp.compile([ | ||
| '\\\\href\\\\{([^\\\\}]+)\\\\}\\\\{([^\\\\}]+)\\\\}', # For LaTeX href patterns | ||
| URI.regexp(['http', 'https']), # For general URLs | ||
| # DOI patterns to match "10." followed by a series of characters, | ||
| # including full URLs like "https://doi.org/" or "http://dx.doi.org/" | ||
| '(https?:\/\/(doi\.org|dx\.doi\.org)\/10\.[0-9]{4,9}\/[-._;()\/:A-Z0-9]+)', | ||
| '(10\.[0-9]{4,9}\/[-._;()\/:A-Z0-9]+)' | ||
| ].join('|'), Regexp::IGNORECASE) | ||
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| module Jekyll | ||
| class Scholar | ||
| class Markdown < BibTeX::Filter | ||
| def apply(value) | ||
| value.to_s.gsub(URL_PATTERN) do |match| | ||
| if $1 # LaTeX href pattern | ||
| "[#{$2}](#{$1})" | ||
| "<a href=\"#{$1}\">#{$2}</a>" | ||
| elsif match =~ /https?:\/\/(doi\.org|dx\.doi\.org)\/(10\.[0-9]{4,9}\/[-._;()\/:A-Z0-9]+)$/i | ||
| # Handle full DOI URLs | ||
| doi_id = $2 | ||
| "<a href=\"https://doi.org/#{doi_id}\">#{doi_id}</a>" | ||
| elsif match =~ /.*(10\.[0-9]{4,9}\/[-._;()\/:A-Z0-9]+)$/i | ||
| # Handle simple DOI patterns | ||
| doi = $& | ||
| "<a href=\"https://doi.org/#{doi}\">#{doi}</a>" | ||
| else | ||
| # Handle general URLs | ||
| #"test[#{match}](#{match})" | ||
| "<a href=\"#{match}\">#{match}</a>" | ||
| end | ||
| end | ||
| end | ||
| end | ||
| end | ||
| end |
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