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<h3>
Andreas Tille pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/multiqc">Debian Med / multiqc</a>
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<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/multiqc/-/commit/acd21c053acd93dd8670995e652ad1fb067bf139">acd21c05</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-03-26T18:13:41+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.8+dfsg</pre>
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<strong><a href="https://salsa.debian.org/med-team/multiqc/-/commit/23563178985e66e92f9161d81447d86cfc02c006">23563178</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-03-26T18:15:26+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.8+dfsg</pre>
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<strong><a href="https://salsa.debian.org/med-team/multiqc/-/commit/365794f0e4b055aee0129531c30e66aaec21cc5e">365794f0</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-03-26T18:30:26+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.8+dfsg</pre>
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<h4>10 changed files:</h4>
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.github/CONTRIBUTING.md
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multiqc/templates/default/assets/css/bootstrap.min.css
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multiqc/templates/default/assets/css/jquery.toast.css
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multiqc/templates/geo/assets/css/bootstrap.min.css
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<h4>Changes:</h4>
<li id="ae5630a05ddad4894e9282007ac11985393a696f">
<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#ae5630a05ddad4894e9282007ac11985393a696f"><strong>.github/CONTRIBUTING.md</strong>
deleted
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="gh" style="color: #999;"># MultiQC Contributing Guidelines</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown">Hi there! Many thanks for taking an interest in improving MultiQC.</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"></span>
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown">I try to manage the required tasks for MultiQC using GitHub issues, you probably came to this page when creating one. Most issues come in two flavours - either reporting a problem or requesting a feature. Please use the template prefilled into new issues when this is the case as it saves time. The most common reason for long-running issues is module requests without any example log files for example.</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"></span>
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<td class="diff-line-num old old_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown">However, don't be put off by this template - other more general issues and suggestions are welcome! Contributions to the code are even more welcome ;)</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"><span class="gt" style="color: #a00;">> _If you need help using MultiQC then the best place to go is the Gitter chatroom where you can ask me questions directly: https://gitter.im/ewels/MultiQC_</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">## Contribution workflow</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown">If you'd like to write some code for MultiQC, the standard workflow</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown">is as follows:</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"><span class="p">1.</span> Check that there isn't already an issue about your idea in the</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"> <span class="p">[</span><span class="nv" style="color: #008080;">MultiQC issues</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/ewels/MultiQC/issues</span><span class="p">)</span> to avoid</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown"> duplicating work.</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="markdown"><span class="p"> *</span> Feel free to add a new issue here for the same reason.</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="markdown"><span class="p">2.</span> Fork the MultiQC repository to your GitHub account</span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="markdown"><span class="p">3.</span> Make the necessary changes / additions within your forked repository</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="markdown"><span class="p">4.</span> Submit a Pull Request and wait for the code to be reviewed and merged.</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="markdown">If you're not used to this workflow with git, you can start with some <span class="p">[</span><span class="nv" style="color: #008080;">basic docs from GitHub</span><span class="p">](</span><span class="sx" style="color: #d14;">https://help.github.com/articles/fork-a-repo/</span><span class="p">)</span> or even their <span class="p">[</span><span class="nv" style="color: #008080;">excellent interactive tutorial</span><span class="p">](</span><span class="sx" style="color: #d14;">https://try.github.io/</span><span class="p">)</span>.</span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="markdown">When it comes to MultiQC, please consult the <span class="p">[</span><span class="nv" style="color: #008080;">MultiQC documentation</span><span class="p">](</span><span class="sx" style="color: #d14;">http://multiqc.info/docs/</span><span class="p">)</span> and don't hesitate to get in touch on <span class="p">[</span><span class="nv" style="color: #008080;">gitter</span><span class="p">](</span><span class="sx" style="color: #d14;">https://gitter.im/ewels/MultiQC</span><span class="p">)</span> for help and feedback.</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="markdown">A few pointers to bear in mind:</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="markdown"><span class="p">*</span> New modules should be _fast_</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="markdown"><span class="p"> *</span> MultiQC modules parse log files, they _don't_ calculating new metrics (typically).</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="markdown"><span class="p">*</span> New modules must scale well</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="markdown"><span class="p"> *</span> Try to imagine what will happen if someone runs your module with 5000 samples</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="markdown"><span class="p">*</span> Code must run on both Python 2 and 3</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">### Review workflow</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="markdown">Once you've submitted a new pull request, here's what you can expect from me:</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="markdown"><span class="p">*</span> I usually don't look at your code at all until the automated tests pass</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="markdown"><span class="p"> *</span> The tests use example data in the <span class="p">[</span><span class="nv" style="color: #008080;">MultiQC_TestData</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/ewels/MultiQC_TestData</span><span class="p">)</span> repository, so you'll need some files there before the PR will go any further.</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="markdown"><span class="p"> *</span> You can set up <span class="p">[</span><span class="nv" style="color: #008080;">Travis</span><span class="p">](</span><span class="sx" style="color: #d14;">https://travis-ci.org</span><span class="p">)</span> to run the same tests on your fork really easily - just enable the repo.</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="markdown"><span class="p">*</span> First pass - I go through and give feedback just by reading the code</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="markdown"><span class="p">*</span> Second pass - I download and run your code, usually more feedback</span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="markdown"><span class="p">*</span> Merge! Once we're both happy, I merge into the main codebase.</span></pre>
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<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#a03585ab89eed5e0782a1875b2d8153b97865d30"><strong>.github/ISSUE_TEMPLATE/bug_report.md</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown"><span class="na" style="color: #008080;">name</span><span class="pi">:</span> <span class="s" style="color: #d14;">Bug report</span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown"><span class="na" style="color: #008080;">about</span><span class="pi">:</span> <span class="s" style="color: #d14;">MultiQC is breaking / not behaving in the way you expect</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"></span>
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<td class="diff-line-num old old_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Description of bug:**</span></span>
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<td class="diff-line-num old old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown">A clear and concise description of what the bug is.</span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**MultiQC Error log:**</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown"><span class="p">```</span></span>
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<td class="diff-line-num old old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown">Please paste your MultiQC error log here.</span>
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<td class="diff-line-num old old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown">Use the triple backticks for code formatting (use a blank line before and after your log)</span>
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<td class="diff-line-num old old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown"><span class="p">```</span></span>
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15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"></span>
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16
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**File that triggers the error:**</span></span>
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<td class="diff-line-num old old_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
17
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown">Please drag and drop (and upload to the GitHub issue) an input file that I can use to replicate the error.</span>
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18
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="markdown"></span>
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<td class="diff-line-num old old_line" data-linenumber="19" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**MultiQC run details (please complete the following):**</span></span>
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<td class="diff-line-num old old_line" data-linenumber="20" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="markdown"><span class="p"> -</span> Command used to run MultiQC: <span class="p">[</span><span class="nv" style="color: #008080;">eg. `multiqc .`</span><span class="p">]</span></span>
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<td class="diff-line-num old old_line" data-linenumber="21" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="markdown"><span class="p"> -</span> MultiQC Version: <span class="p">[</span><span class="nv" style="color: #008080;">eg. MultiQC v1.1</span><span class="p">]</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="22" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
22
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="markdown"><span class="p"> -</span> Operating System: <span class="p">[</span><span class="nv" style="color: #008080;">eg. macOS Sierra 10.12.5</span><span class="p">]</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="markdown"><span class="p"> -</span> Python Version: <span class="p">[</span><span class="nv" style="color: #008080;">eg. Python 2.7.12</span><span class="p">]</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="24" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
24
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="markdown"><span class="p"> -</span> Method of MultiQC installation: <span class="p">[</span><span class="nv" style="color: #008080;">eg. pip, conda, manual</span><span class="p">]</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="25" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
25
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="markdown"></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="26" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="markdown"> <span class="gs" style="font-weight: 600;">**Additional context**</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="markdown"> Add any other context about the problem here.</span></pre>
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<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#67c0231b0ea83057a5f5c051eb28641a29af34a6"><strong>.github/ISSUE_TEMPLATE/feature_request.md</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown"><span class="na" style="color: #008080;">name</span><span class="pi">:</span> <span class="s" style="color: #d14;">Feature request</span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown"><span class="na" style="color: #008080;">about</span><span class="pi">:</span> <span class="s" style="color: #d14;">Suggest an idea for MultiQC</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Is your feature request related to a problem? Please describe.**</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown">A clear and concise description of what the problem is. Ex. I'm always frustrated when <span class="p">[</span><span class="nv" style="color: #008080;">...</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Describe the solution you'd like**</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown">A clear and concise description of what you want to happen.</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Describe alternatives you've considered**</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown">A clear and concise description of any alternative solutions or features you've considered.</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Additional context**</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown">Add any other context or screenshots about the feature request here.</span></pre>
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<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#b48ba74ae44312c254dc8f56dd5314b1dbb78085"><strong>.github/ISSUE_TEMPLATE/module-request.md</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown"><span class="na" style="color: #008080;">name</span><span class="pi">:</span> <span class="s" style="color: #d14;">Module request</span></span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown"><span class="na" style="color: #008080;">about</span><span class="pi">:</span> <span class="s" style="color: #d14;">Request support for a new bioinformatics tool in MultiQC</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown"><span class="nn" style="color: #555;">---</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Tool Details**</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown"><span class="p"> -</span> Name of tool: <span class="p">[</span><span class="nv" style="color: #008080;">eg. My Tool</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"><span class="p"> -</span> Tool homepage: <span class="p">[</span><span class="nv" style="color: #008080;">eg. http://www.github/me/mytool</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"><span class="p"> -</span> Tool description: <span class="p">[</span><span class="nv" style="color: #008080;">eg. My Tool is a really excellent tool that does what no other tool can do</span><span class="p">]</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown"><span class="p"> -</span> Data suitable for MultiQC plot(s): <span class="p">[</span><span class="nv" style="color: #008080;">eg. amazing Histogram</span><span class="p">]</span></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown"><span class="p"> -</span> Most interesting data for General Stats table: <span class="p">[</span><span class="nv" style="color: #008080;">eg. Interesting Metric number 14</span><span class="p">]</span></span>
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<td class="diff-line-num old old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown"></span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown"><span class="gs" style="font-weight: 600;">**Tool output:**</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"><span class="p"> -</span> Log filename pattern: <span class="p">[</span><span class="nv" style="color: #008080;">eg. `*_mytool.txt`</span><span class="p">]</span></span>
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<td class="diff-line-num old old_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"><span class="p"> *</span> Only for file that contains information interesting to MultiQC.</span>
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<td class="diff-line-num old old_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown"><span class="p"> *</span> Only if standardised by the tool and NOT specified by user (eg. consistent for all runs of tool by whoever)</span>
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<td class="diff-line-num old old_line" data-linenumber="18" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="markdown"><span class="p"> -</span> File contents</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="markdown"><span class="p"> *</span> Please drag and drop a file to upload to the issue, or submit as a pull-request to https://github.com/ewels/MultiQC_TestData</span>
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<td class="diff-line-num old old_line" data-linenumber="20" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="markdown"><span class="p"> *</span> _Please don't just paste contents._ GitHub can alter whitespace and formatting. Instead, please attach a file by dragging and dropping onto the issue.</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="markdown"><span class="p"> *</span> If the file is many MBs then it's ok to truncate it, though please leave a few lines of data in so that it's clear what the format is.</span></pre>
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<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#b8baf23d7ed7f2b79b86aeb041867428fb196428"><strong>.github/PULL_REQUEST_TEMPLATE.md</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown">Many thanks to contributing to MultiQC!</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown">Please fill in the appropriate checklist below (delete whatever is not relevant). These are the most common things I request on pull requests (PRs).</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">## If this PR is _not_ a new module</span></span>
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<td class="diff-line-num old old_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> This comment contains a description of changes (with reason)</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="sb" style="color: #d14;">`CHANGELOG.md`</span> has been updated</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="p">(</span><span class="sx" style="color: #d14;">optional</span> but recommended): https://github.com/ewels/MultiQC_TestData contains test data for this change</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">## If this PR is for a new module</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> There is example tool output for tools in the https://github.com/ewels/MultiQC_TestData repository</span>
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<td class="diff-line-num old old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> Code is tested and works locally (including with <span class="sb" style="color: #d14;">`--lint`</span> flag)</span>
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<td class="diff-line-num old old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="sb" style="color: #d14;">`CHANGELOG.md`</span> is updated</span>
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<td class="diff-line-num old old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="sb" style="color: #d14;">`README.md`</span> is updated</span>
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<td class="diff-line-num old old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="sb" style="color: #d14;">`docs/README.md`</span> is updated with link to below</span>
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<td class="diff-line-num old old_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
16
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> <span class="sb" style="color: #d14;">`docs/modulename.md`</span> is created</span>
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<td class="diff-line-num old old_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
17
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> Everything that can be represented with a plot instead of a table is a plot</span>
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<td class="diff-line-num old old_line" data-linenumber="18" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
18
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> Report sections have a description and help text (with <span class="sb" style="color: #d14;">`self.add_section`</span>)</span>
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<td class="diff-line-num old old_line" data-linenumber="19" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> There aren't any huge tables with > 6 columns (explain reasoning if so)</span>
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<td class="diff-line-num old old_line" data-linenumber="20" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> Each table column has a different colour scale to its neighbour, which relates to the data (eg. if high numbers are bad, they're red)</span>
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21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="markdown"><span class="p"> -</span> <span class="p">[</span><span class="nv" style="color: #008080;"> </span><span class="p">]</span> Module does not do any significant computational work</span></pre>
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<li id="dae3fc4e29b55e46fd89b844c82bd649cef74d44">
<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#dae3fc4e29b55e46fd89b844c82bd649cef74d44"><strong>.github/RELEASE_CHECKLIST.md</strong>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="markdown"><span class="gh" style="color: #999;"># Release checklist</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="markdown">This checklist is for my own reference, as I forget the steps every time.</span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="markdown"></span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="markdown"><span class="p">1.</span> Check that everything is up to date and ready to go</span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="markdown"><span class="p">2.</span> Figure out what this release should be called</span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="markdown"><span class="p">3.</span> Update version numbers in code: <span class="sb" style="color: #d14;">`setup.py`</span>, <span class="sb" style="color: #d14;">`CHANGELOG.md`</span></span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="markdown"><span class="p">4.</span> Link the changelog subheading to the as yet non-existant release URL. Add date.</span>
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<td class="diff-line-num old old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="markdown"><span class="p">5.</span> Install the package again in <span class="sb" style="color: #d14;">`install`</span> mode:</span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="markdown"> <span class="p">```</span><span class="nl">bash</span></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="markdown"> python setup.py <span class="nb" style="color: #0086b3;">install</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="markdown"> <span class="p">```</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="markdown"><span class="p"> *</span> This removes the commit hash from the version number when MultiQC runs</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="markdown"><span class="p">6.</span> Run using test data</span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="markdown"><span class="p"> *</span> Check for any command line or javascript errors</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="markdown"><span class="p"> *</span> Check version numbers are printed correctly</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="markdown"><span class="p">7.</span> Create new demo reports for the website and upload.</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="markdown"><span class="p"> *</span> Spot any previously unnoticed bugs and fix</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="markdown"><span class="p">8.</span> Release on PyPI:</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="markdown"> <span class="p">```</span><span class="nl">bash</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: #000080;">-rf</span> dist/</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="markdown"> python setup.py sdist bdist_wheel</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="markdown"> twine upload dist/<span class="k" style="font-weight: 600;">*</span>.tar.gz</span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="markdown"> <span class="p">```</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="markdown"><span class="p">9.</span> Test that it pip installs:</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="markdown"> <span class="p">```</span><span class="nl">bash</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="markdown"> conda create <span class="nt" style="color: #000080;">--name</span> testing <span class="nt" style="color: #000080;">--yes</span> python pip <span class="o" style="font-weight: 600;">&&</span> <span class="nb" style="color: #0086b3;">source </span>activate testing</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="markdown"> pip <span class="nb" style="color: #0086b3;">install </span>multiqc</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="markdown"> multiqc <span class="nb" style="color: #0086b3;">.</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">source </span>deactivate <span class="o" style="font-weight: 600;">&&</span> conda remove <span class="nt" style="color: #000080;">--name</span> testing <span class="nt" style="color: #000080;">--all</span> <span class="nt" style="color: #000080;">--yes</span> <span class="o" style="font-weight: 600;">&&</span> conda clean <span class="nt" style="color: #000080;">--all</span> <span class="nt" style="color: #000080;">--yes</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="markdown"> <span class="p">```</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="markdown"><span class="p">10.</span> Commit and push version updates</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="markdown"><span class="p">11.</span> Make a <span class="p">[</span><span class="nv" style="color: #008080;">release</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/ewels/MultiQC/releases</span><span class="p">)</span> on GitHub - paste changelog section.</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="markdown"><span class="p">12.</span> Check that <span class="p">[</span><span class="nv" style="color: #008080;">PyPI listing page</span><span class="p">](</span><span class="sx" style="color: #d14;">https://pypi.python.org/pypi/multiqc/</span><span class="p">)</span> looks sane</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="markdown"><span class="p">13.</span> Make a new release on <span class="sb" style="color: #d14;">`bioconda`</span>:</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="markdown"> <span class="p">```</span><span class="nl">bash</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Update to latest bioconda</span></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">cd</span> ../bioconda-recipes</span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="markdown"> git checkout master</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="markdown"> git pull upstream master</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="markdown"> git push</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="markdown"> git branch <span class="nt" style="color: #000080;">-D</span> multiqc</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Build new conda recipe from PyPI to automatically collect new dependencies</span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="markdown"> git checkout <span class="nt" style="color: #000080;">-b</span> multiqc</span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">cd </span>recipes</span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Do the conda skeleton to copy the dependencies</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">mkdir </span>mqctemp <span class="o" style="font-weight: 600;">&&</span> <span class="nb" style="color: #0086b3;">cd </span>mqctemp <span class="o" style="font-weight: 600;">&&</span> atom <span class="nb" style="color: #0086b3;">.</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="markdown"> conda skeleton pypi multiqc</span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Update with new release header - see https://goo.gl/ZfRnmj</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">cd</span> ../multiqc <span class="o" style="font-weight: 600;">&&</span> atom <span class="nb" style="color: #0086b3;">.</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Get the sha256sum of the release</span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="markdown"> curl <span class="nt" style="color: #000080;">-OL</span> https://github.com/ewels/MultiQC/archive/v1.5.tar.gz</span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="markdown"> shasum <span class="nt" style="color: #000080;">--algorithm</span> 256 v1.5.tar.gz</span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Switch out download for GitHub release and remove all other cruft</span></span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># commit changes</span></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="markdown"> <span class="nb" style="color: #0086b3;">cd</span> ../../</span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="markdown"> git commit <span class="nt" style="color: #000080;">-am</span> <span class="s2" style="color: #d14;">"MultiQC version 1.5 release"</span></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Test locally</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="markdown"> docker pull bioconda/bioconda-utils-build-env</span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="markdown"> circleci build</span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Push updates</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="markdown"> git push <span class="nt" style="color: #000080;">-u</span> origin multiqc</span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="markdown"> <span class="c" style="color: #998; font-style: italic;"># Submit a Pull Request and merge</span></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="markdown"> <span class="p">```</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="markdown"><span class="p">14.</span> Tell UPPMAX about the new version and ask for the module system to be updated.</span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="markdown"><span class="p">15.</span> Describe new release on <span class="p">[</span><span class="nv" style="color: #008080;">SeqAnswers thread</span><span class="p">](</span><span class="sx" style="color: #d14;">http://seqanswers.com/forums/showthread.php?p=195831#post195831</span><span class="p">)</span></span>
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66
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="markdown"><span class="p">16.</span> Tweet that new version is released</span>
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67
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="markdown"><span class="p">17.</span> Update version numbers to new dev version in <span class="sb" style="color: #d14;">`setup.py`</span></span>
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68
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="markdown"><span class="p">18.</span> Add a new section in the changelog for the development version</span>
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69
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="markdown"><span class="p">19.</span> Commit and push. Continue making more awesome :metal:</span></pre>
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<li id="a5cc2925ca8258af241be7e5b0381edf30266302">
<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#a5cc2925ca8258af241be7e5b0381edf30266302"><strong>.gitignore</strong>
deleted
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"># MultiQC files</span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">multiqc_config.yaml</span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext">multiqc_report.html</span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">multiqc_data</span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"></span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"># Byte-compiled / optimized / DLL files</span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">__pycache__/</span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">*.py[cod]</span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext"># Distribution / packaging</span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext">.Python</span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">develop-eggs/</span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext">eggs/</span>
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15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">.eggs/</span>
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16
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext">*.egg-info/</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext">.installed.cfg</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext">*.egg</span>
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19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext">build/</span>
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20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">dist/</span>
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21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext">tmp/</span>
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22
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext"></span>
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23
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext"># OS generated files</span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext">.DS_Store</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext">.DS_Store?</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext">._*</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext">.Spotlight-V100</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="plaintext">.Trashes</span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext">ehthumbs.db</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext">Thumbs.db</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext">.idea/</span></pre>
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<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#a554b825087a20321505efc3f4398416e5bb41f7"><strong>multiqc/templates/default/assets/css/bootstrap.min.css</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="css"><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap</span><span class="o" style="font-weight: 600;">,</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap</span> <span class="o" style="font-weight: 600;">*</span><span class="p">{</span><span class="nl">margin</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">padding</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap</span><span class="p">{</span><span class="nl">display</span><span class="p">:</span><span class="nb" style="color: #0086b3;">block</span><span class="p">;</span><span class="nl">position</span><span class="p">:</span><span class="nb" style="color: #0086b3;">fixed</span><span class="p">;</span><span class="nl">width</span><span class="p">:</span><span class="m" style="color: #099;">250px</span><span class="p">;</span><span class="nl">pointer-events</span><span class="p">:</span><span class="nb" style="color: #0086b3;">none</span><span class="cp" style="color: #999; font-weight: 600;">!important</span><span class="p">;</span><span class="nl">letter-spacing</span><span class="p">:</span><span class="nb" style="color: #0086b3;">normal</span><span class="p">;</span><span class="nl">z-index</span><span class="p">:</span><span class="m" style="color: #099;">9000</span><span class="cp" style="color: #999; font-weight: 600;">!important</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap.bottom-left</span><span class="p">{</span><span class="nl">bottom</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">;</span><span class="nl">left</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap.bottom-right</span><span class="p">{</span><span class="nl">bottom</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">;</span><span class="nl">right</span><span class="p">:</span><span class="m" style="color: #099;">40px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap.top-left</span><span class="p">{</span><span class="nl">top</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">;</span><span class="nl">left</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-wrap.top-right</span><span class="p">{</span><span class="nl">top</span><span class="p">:</span><span class="m" style="color: #099;">20px</span><span class="p">;</span><span class="nl">right</span><span class="p">:</span><span class="m" style="color: #099;">40px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-single</span><span class="p">{</span><span class="nl">display</span><span class="p">:</span><span class="nb" style="color: #0086b3;">block</span><span class="p">;</span><span class="nl">width</span><span class="p">:</span><span class="m" style="color: #099;">100%</span><span class="p">;</span><span class="nl">padding</span><span class="p">:</span><span class="m" style="color: #099;">10px</span><span class="p">;</span><span class="nl">margin</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">5px</span><span class="p">;</span><span class="nl">border-radius</span><span class="p">:</span><span class="m" style="color: #099;">4px</span><span class="p">;</span><span class="nl">font-size</span><span class="p">:</span><span class="m" style="color: #099;">12px</span><span class="p">;</span><span class="nl">font-family</span><span class="p">:</span><span class="n" style="color: #333;">arial</span><span class="p">,</span><span class="nb" style="color: #0086b3;">sans-serif</span><span class="p">;</span><span class="nl">line-height</span><span class="p">:</span><span class="m" style="color: #099;">17px</span><span class="p">;</span><span class="nl">position</span><span class="p">:</span><span class="nb" style="color: #0086b3;">relative</span><span class="p">;</span><span class="nl">pointer-events</span><span class="p">:</span><span class="n" style="color: #333;">all</span><span class="cp" style="color: #999; font-weight: 600;">!important</span><span class="p">;</span><span class="nl">background-color</span><span class="p">:</span><span class="m" style="color: #099;">#444</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#fff</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-single</span> <span class="nt" style="color: #000080;">h2</span><span class="p">{</span><span class="nl">font-family</span><span class="p">:</span><span class="n" style="color: #333;">arial</span><span class="p">,</span><span class="nb" style="color: #0086b3;">sans-serif</span><span class="p">;</span><span class="nl">font-size</span><span class="p">:</span><span class="m" style="color: #099;">14px</span><span class="p">;</span><span class="nl">margin</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">7px</span><span class="p">;</span><span class="nl">background</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="nb" style="color: #0086b3;">inherit</span><span class="p">;</span><span class="nl">line-height</span><span class="p">:</span><span class="nb" style="color: #0086b3;">inherit</span><span class="p">;</span><span class="nl">letter-spacing</span><span class="p">:</span><span class="nb" style="color: #0086b3;">normal</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-single</span> <span class="nt" style="color: #000080;">a</span><span class="p">{</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#eee</span><span class="p">;</span><span class="nl">text-decoration</span><span class="p">:</span><span class="nb" style="color: #0086b3;">none</span><span class="p">;</span><span class="nl">font-weight</span><span class="p">:</span><span class="m" style="color: #099;">700</span><span class="p">;</span><span class="nl">border-bottom</span><span class="p">:</span><span class="m" style="color: #099;">1px</span> <span class="nb" style="color: #0086b3;">solid</span> <span class="m" style="color: #099;">#fff</span><span class="p">;</span><span class="nl">padding-bottom</span><span class="p">:</span><span class="m" style="color: #099;">3px</span><span class="p">;</span><span class="nl">font-size</span><span class="p">:</span><span class="m" style="color: #099;">12px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-single</span> <span class="nt" style="color: #000080;">ul</span><span class="p">{</span><span class="nl">margin</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">15px</span><span class="p">;</span><span class="nl">background</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">padding</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-single</span> <span class="nt" style="color: #000080;">ul</span> <span class="nt" style="color: #000080;">li</span><span class="p">{</span><span class="nl">list-style-type</span><span class="p">:</span><span class="nb" style="color: #0086b3;">disc</span><span class="cp" style="color: #999; font-weight: 600;">!important</span><span class="p">;</span><span class="nl">line-height</span><span class="p">:</span><span class="m" style="color: #099;">17px</span><span class="p">;</span><span class="nl">background</span><span class="p">:</span><span class="m" style="color: #099;">0</span> <span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">margin</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">padding</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">letter-spacing</span><span class="p">:</span><span class="nb" style="color: #0086b3;">normal</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.close-jq-toast-single</span><span class="p">{</span><span class="nl">position</span><span class="p">:</span><span class="nb" style="color: #0086b3;">absolute</span><span class="p">;</span><span class="nl">top</span><span class="p">:</span><span class="m" style="color: #099;">3px</span><span class="p">;</span><span class="nl">right</span><span class="p">:</span><span class="m" style="color: #099;">7px</span><span class="p">;</span><span class="nl">font-size</span><span class="p">:</span><span class="m" style="color: #099;">14px</span><span class="p">;</span><span class="nl">cursor</span><span class="p">:</span><span class="nb" style="color: #0086b3;">pointer</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-loader</span><span class="p">{</span><span class="nl">display</span><span class="p">:</span><span class="nb" style="color: #0086b3;">block</span><span class="p">;</span><span class="nl">position</span><span class="p">:</span><span class="nb" style="color: #0086b3;">absolute</span><span class="p">;</span><span class="nl">top</span><span class="p">:</span><span class="m" style="color: #099;">-2px</span><span class="p">;</span><span class="nl">height</span><span class="p">:</span><span class="m" style="color: #099;">5px</span><span class="p">;</span><span class="nl">width</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">left</span><span class="p">:</span><span class="m" style="color: #099;">0</span><span class="p">;</span><span class="nl">border-radius</span><span class="p">:</span><span class="m" style="color: #099;">5px</span><span class="p">;</span><span class="nl">background</span><span class="p">:</span><span class="no" style="color: #008080;">red</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-toast-loaded</span><span class="p">{</span><span class="nl">width</span><span class="p">:</span><span class="m" style="color: #099;">100%</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-has-icon</span><span class="p">{</span><span class="nl">padding</span><span class="p">:</span><span class="m" style="color: #099;">10px</span> <span class="m" style="color: #099;">10px</span> <span class="m" style="color: #099;">10px</span> <span class="m" style="color: #099;">50px</span><span class="p">;</span><span class="nl">background-repeat</span><span class="p">:</span><span class="nb" style="color: #0086b3;">no-repeat</span><span class="p">;</span><span class="nl">background-position</span><span class="p">:</span><span class="m" style="color: #099;">10px</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-icon-info</span><span class="p">{</span><span class="nl">background-image</span><span class="p">:</span><span class="sx" style="color: #d14;">url(data:image/png;base64,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)</span><span class="p">;</span><span class="nl">background-color</span><span class="p">:</span><span class="m" style="color: #099;">#31708f</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#d9edf7</span><span class="p">;</span><span class="nl">border-color</span><span class="p">:</span><span class="m" style="color: #099;">#bce8f1</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-icon-warning</span><span class="p">{</span><span class="nl">background-image</span><span class="p">:</span><span class="sx" style="color: #d14;">url(data:image/png;base64,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)</span><span class="p">;</span><span class="nl">background-color</span><span class="p">:</span><span class="m" style="color: #099;">#8a6d3b</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#fcf8e3</span><span class="p">;</span><span class="nl">border-color</span><span class="p">:</span><span class="m" style="color: #099;">#faebcc</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-icon-error</span><span class="p">{</span><span class="nl">background-image</span><span class="p">:</span><span class="sx" style="color: #d14;">url(data:image/png;base64,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)</span><span class="p">;</span><span class="nl">background-color</span><span class="p">:</span><span class="m" style="color: #099;">#a94442</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#f2dede</span><span class="p">;</span><span class="nl">border-color</span><span class="p">:</span><span class="m" style="color: #099;">#ebccd1</span><span class="p">}</span><span class="nc" style="color: #458; font-weight: 600;">.jq-icon-success</span><span class="p">{</span><span class="nl">background-image</span><span class="p">:</span><span class="sx" style="color: #d14;">url(data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABgAAAAYCAYAAADgdz34AAAAAXNSR0IArs4c6QAAAARnQU1BAACxjwv8YQUAAAAJcEhZcwAADsMAAA7DAcdvqGQAAADsSURBVEhLY2AYBfQMgf///3P8+/evAIgvA/FsIF+BavYDDWMBGroaSMMBiE8VC7AZDrIFaMFnii3AZTjUgsUUWUDA8OdAH6iQbQEhw4HyGsPEcKBXBIC4ARhex4G4BsjmweU1soIFaGg/WtoFZRIZdEvIMhxkCCjXIVsATV6gFGACs4Rsw0EGgIIH3QJYJgHSARQZDrWAB+jawzgs+Q2UO49D7jnRSRGoEFRILcdmEMWGI0cm0JJ2QpYA1RDvcmzJEWhABhD/pqrL0S0CWuABKgnRki9lLseS7g2AlqwHWQSKH4oKLrILpRGhEQCw2LiRUIa4lwAAAABJRU5ErkJggg==)</span><span class="p">;</span><span class="nl">color</span><span class="p">:</span><span class="m" style="color: #099;">#dff0d8</span><span class="p">;</span><span class="nl">background-color</span><span class="p">:</span><span class="m" style="color: #099;">#3c763d</span><span class="p">;</span><span class="nl">border-color</span><span class="p">:</span><span class="m" style="color: #099;">#d6e9c6</span><span class="p">}</span></span></pre>
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<li id="751e579defd53a474b345911d38febc4a1ae6bb0">
<a href="https://salsa.debian.org/med-team/multiqc/-/compare/8e0f0a307732297bf290518b06c3be3f48f40f9a...365794f0e4b055aee0129531c30e66aaec21cc5e#751e579defd53a474b345911d38febc4a1ae6bb0"><strong>multiqc/templates/geo/assets/css/bootstrap.min.css</strong>
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