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<h3>
Dylan Aïssi pushed to branch master
at <a href="https://salsa.debian.org/med-team/snakemake">Debian Med / snakemake</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/snakemake/commit/703c50a3f500e83b1253f79237bd607ee426127c">703c50a3</a></strong>
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<span>by Dylan Aïssi</span>
<i>at 2019-07-16T06:16:05Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Apply patch from Chris Lamb to make the build reproducible (Closes: #932116)
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<h4>3 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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+
debian/patches/0012-reproducible-build.patch
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/snakemake/commit/703c50a3f500e83b1253f79237bd607ee426127c#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">snakemake (5.5.3-2) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Apply patch from Chris Lamb to make the build reproducible</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> (Closes: #932116).</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> -- Dylan Aïssi <daissi@debian.org> Tue, 16 Jul 2019 08:13:48 +0200</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">snakemake (5.5.3-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> * Team upload.</span>
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<li id="14311a7e2fde4d3f5412d248239270f0dcead73f">
<a href="https://salsa.debian.org/med-team/snakemake/commit/703c50a3f500e83b1253f79237bd607ee426127c#14311a7e2fde4d3f5412d248239270f0dcead73f"><strong>debian/patches/0012-reproducible-build.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Description: Make the build reproducible</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Author: Chris Lamb <lamby@debian.org></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Last-Update: 2019-07-15</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- snakemake-5.5.3.orig/snakemake/report/__init__.py</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ snakemake-5.5.3/snakemake/report/__init__.py</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -98,10 +98,12 @@ def data_uri_from_file(file, defaultenc=</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> def report(text, path,</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- stylesheet=os.path.join(os.path.dirname(__file__), "report.css"),</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ stylesheet=None,</span></span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> defaultenc="utf8",</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> template=None,</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> metadata=None, **files):</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ if stylesheet is None:</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ stylesheet = os.path.join(os.path.dirname(__file__), "report.css")</span></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> outmime, _ = mimetypes.guess_type(path)</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> if outmime != "text/html":</span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> raise ValueError("Path to report output has to be an HTML file.")</span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- snakemake-5.5.3.orig/snakemake/utils.py</span></span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ snakemake-5.5.3/snakemake/utils.py</span></span>
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<td class="diff-line-num new new_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -189,7 +189,7 @@ def makedirs(dirnames):</span></span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> </span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> </span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> def report(text, path,</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- stylesheet=os.path.join(os.path.dirname(__file__), "report.css"),</span></span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ stylesheet=None,</span></span>
</pre>
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29
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> defaultenc="utf8",</span>
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30
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> template=None,</span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"> metadata=None, **files):</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -233,6 +233,8 @@ def report(text, path,</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> metadata (str): E.g. an optional author name or email address.</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> """</span>
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36
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ if stylesheet is None:</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ stylesheet = os.path.join(os.path.dirname(__file__), "report.css")</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"> try:</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"> import snakemake.report</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"> except ImportError:</span></pre>
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<a href="https://salsa.debian.org/med-team/snakemake/commit/703c50a3f500e83b1253f79237bd607ee426127c#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -9,3 +9,4 @@</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">0009-skip-test-without-google-cloud-sdk.patch</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"># 0010-skip-test-without-rmarkdown.patch</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">0011-fix-privacy-breach.patch</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">0012-reproducible-build.patch</span></pre>
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