Mercurial > repos > engineson > multiqc
comparison readme.rst @ 16:5e4080791d90 draft default tip
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author | engineson |
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date | Mon, 24 Jul 2017 08:43:45 -0400 |
parents | 784165ccd3c1 |
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1 ======================== | |
2 Galaxy multiqc wrapper | |
3 ======================== | |
1 | 4 |
5 Aggregate results from bioinformatics analyses across many samples into a single report | |
2 | 6 |
7 MultiQC searches a given directory for analysis logs and compiles a HTML report. It's a general use tool, perfect for summarising the output from numerous bioinformatics tools. | |
3 | 8 |
9 ============ | |
10 Installation | |
11 ============ | |
4 | 12 |
13 Requirements: pkg-config | |
5 | 14 |
15 Conda recipe: A conda recipe exists in bioconda repository. If you have a recent Galaxy release, the packages installation is not mandatory. | |
6 | 16 |
7 <!DOCTYPE html> | 17 ================ |
8 <html lang="en"> | 18 Prevent displaying MultiQC webpage as gibberish |
9 <head> | 19 ================ |
10 <meta charset="utf-8"> | |
11 <link rel="dns-prefetch" href="https://assets-cdn.github.com"> | |
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16 <link rel="dns-prefetch" href="https://github-cloud.s3.amazonaws.com"> | |
17 <link rel="dns-prefetch" href="https://user-images.githubusercontent.com/"> | |
18 | 20 |
21 For Galaxy to display MultiQC's HTML output properly, you need to either: | |
19 | 22 |
23 1. Deactivate the sanitize_all_html option in galaxy.ini (sanitize_all_html = False), or | |
24 2. Whitelist the tool in "Manage Display Whitelist" after installing | |
20 | 25 |
21 <link crossorigin="anonymous" href="https://assets-cdn.github.com/assets/frameworks-e04a23d39bf81b7db3c635177756ef51bc171feb440be9e174933c6eb56382da.css" media="all" rel="stylesheet" /> | 26 ======= |
22 <link crossorigin="anonymous" href="https://assets-cdn.github.com/assets/github-caabe7e9677dbaa4c88db92fcc52ed61b0def1a9d2e3d3ab196c0a5c81d20d04.css" media="all" rel="stylesheet" /> | 27 History |
23 | 28 ======= |
24 | |
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26 | |
27 | 29 |
28 <meta name="viewport" content="width=device-width"> | 30 * v1.0.0.0 Update to multiQC 1.0, add additional supported tools |
29 | 31 * v0.6: Initial public release |
30 <title>galaxy_tools/readme.rst at master · EnginesOn/galaxy_tools · GitHub</title> | |
31 <link rel="search" type="application/opensearchdescription+xml" href="/opensearch.xml" title="GitHub"> | |
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34 | 32 |
35 | 33 ========== |
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35 ========== | |
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38 <link rel="assets" href="https://assets-cdn.github.com/"> | 37 Created by EnginesOn company |
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432 <div id="readme" class="readme blob instapaper_body"> | |
433 <article class="markdown-body entry-content" itemprop="text"><a name="user-content-galaxy-multiqc-wrapper"></a> | |
434 <h2><a id="user-content-galaxy-multiqc-wrapper" class="anchor" href="#galaxy-multiqc-wrapper" aria-hidden="true"><svg aria-hidden="true" class="octicon octicon-link" height="16" version="1.1" viewBox="0 0 16 16" width="16"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>Galaxy multiqc wrapper</h2> | |
435 <p>Aggregate results from bioinformatics analyses across many samples into a single report</p> | |
436 <p>MultiQC searches a given directory for analysis logs and compiles a HTML report. It's a general use tool, perfect for summarising the output from numerous bioinformatics tools.</p> | |
437 <a name="user-content-installation"></a> | |
438 <h2><a id="user-content-installation" class="anchor" href="#installation" aria-hidden="true"><svg aria-hidden="true" class="octicon octicon-link" height="16" version="1.1" viewBox="0 0 16 16" width="16"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>Installation</h2> | |
439 <p>Requirements: pkg-config</p> | |
440 <p>Conda recipe: A conda recipe exists in bioconda repository. If you have a recent Galaxy release, the packages installation is not mandatory.</p> | |
441 <a name="user-content-prevent-displaying-multiqc-webpage-as-gibberish"></a> | |
442 <h2><a id="user-content-prevent-displaying-multiqc-webpage-as-gibberish" class="anchor" href="#prevent-displaying-multiqc-webpage-as-gibberish" aria-hidden="true"><svg aria-hidden="true" class="octicon octicon-link" height="16" version="1.1" viewBox="0 0 16 16" width="16"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>Prevent displaying MultiQC webpage as gibberish</h2> | |
443 <p>For Galaxy to display MultiQC's HTML output properly, you need to either:</p> | |
444 <ol> | |
445 <li>Deactivate the sanitize_all_html option in galaxy.ini (sanitize_all_html = False), or</li> | |
446 <li>Whitelist the tool in "Manage Display Whitelist" after installing</li> | |
447 </ol> | |
448 <a name="user-content-history"></a> | |
449 <h2><a id="user-content-history" class="anchor" href="#history" aria-hidden="true"><svg aria-hidden="true" class="octicon octicon-link" height="16" version="1.1" viewBox="0 0 16 16" width="16"><path fill-rule="evenodd" d="M4 9h1v1H4c-1.5 0-3-1.69-3-3.5S2.55 3 4 3h4c1.45 0 3 1.69 3 3.5 0 1.41-.91 2.72-2 3.25V8.59c.58-.45 1-1.27 1-2.09C10 5.22 8.98 4 8 4H4c-.98 0-2 1.22-2 2.5S3 9 4 9zm9-3h-1v1h1c1 0 2 1.22 2 2.5S13.98 12 13 12H9c-.98 0-2-1.22-2-2.5 0-.83.42-1.64 1-2.09V6.25c-1.09.53-2 1.84-2 3.25C6 11.31 7.55 13 9 13h4c1.45 0 3-1.69 3-3.5S14.5 6 13 6z"></path></svg></a>History</h2> | |
450 <blockquote> | |
451 <ul> | |
452 <li>v1.0.0.0 Update to multiQC 1.0, add additional supported tools</li> | |
453 <li>v0.6: Initial public release</li> | |
454 </ul> | |
455 </blockquote> | |
456 <a name="user-content-citation"></a> | |
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528 <svg aria-hidden="true" class="octicon octicon-alert" height="16" version="1.1" viewBox="0 0 16 16" width="16"><path fill-rule="evenodd" d="M8.865 1.52c-.18-.31-.51-.5-.87-.5s-.69.19-.87.5L.275 13.5c-.18.31-.18.69 0 1 .19.31.52.5.87.5h13.7c.36 0 .69-.19.86-.5.17-.31.18-.69.01-1L8.865 1.52zM8.995 13h-2v-2h2v2zm0-3h-2V6h2v4z"/></svg> | |
529 <span class="signed-in-tab-flash">You signed in with another tab or window. <a href="">Reload</a> to refresh your session.</span> | |
530 <span class="signed-out-tab-flash">You signed out in another tab or window. <a href="">Reload</a> to refresh your session.</span> | |
531 </div> | |
532 <div class="facebox" id="facebox" style="display:none;"> | |
533 <div class="facebox-popup"> | |
534 <div class="facebox-content" role="dialog" aria-labelledby="facebox-header" aria-describedby="facebox-description"> | |
535 </div> | |
536 <button type="button" class="facebox-close js-facebox-close" aria-label="Close modal"> | |
537 <svg aria-hidden="true" class="octicon octicon-x" height="16" version="1.1" viewBox="0 0 12 16" width="12"><path fill-rule="evenodd" d="M7.48 8l3.75 3.75-1.48 1.48L6 9.48l-3.75 3.75-1.48-1.48L4.52 8 .77 4.25l1.48-1.48L6 6.52l3.75-3.75 1.48 1.48z"/></svg> | |
538 </button> | |
539 </div> | |
540 </div> | |
541 | |
542 | |
543 </body> | |
544 </html> | |
545 |