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<h3>
Olivier Sallou pushed to branch master
at <a href="https://salsa.debian.org/med-team/biomaj3">Debian Med / biomaj3</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/biomaj3/commit/1cf1bd0650107a6cf53d0174f13146f982afdacb">1cf1bd06</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2019-11-12T10:29:01Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 3.1.14</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biomaj3/commit/5ef9d67dda21da7d6fbd9b4371b752e980a40c0c">5ef9d67d</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2019-11-12T10:29:02Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/3.1.14'
Update to upstream version '3.1.14'
with Debian dir efe2dea6ed9d5e510e9ef9d012fdd251224c849f</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biomaj3/commit/b84bc377072a9158ccb18ee8e1fc48d3874cb3ce">b84bc377</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2019-11-12T10:29:48Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">new upstream 3.1.14
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biomaj3/commit/11a9fbb0c5c426e54e60d453a9e28b765fc51635">11a9fbb0</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2019-11-12T10:40:36Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">move cli to suggests
</pre>
</li>
</ul>
<h4>13 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
</a>
</li>
<li class="file-stats">
<a href="#3251d7a8143ce2e789f0468513df8f285f842c3a">
CHANGES.txt
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#03e244d01bd4c585be00ff4e16f2cc19751a2df3">
biomaj/bank.py
</a>
</li>
<li class="file-stats">
<a href="#2666e9fb236a6acf6678fd9eeaf94acfa7ec17ce">
biomaj/process/metaprocess.py
</a>
</li>
<li class="file-stats">
<a href="#a6bf41e90a3de0ee2ee99b67cb28f3eb8a85b227">
biomaj/workflow.py
</a>
</li>
<li class="file-stats">
<a href="#df5a4730e21738e9ac0435c9a2d469643e0fad87">
config.yml
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#ba6c57ef27e0fe355f18a348b98d1e03fbc131a9">
global.properties.example
</a>
</li>
<li class="file-stats">
<a href="#19359a61ae2446b51b549167b014da2fcf265768">
requirements.txt
</a>
</li>
<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
setup.py
</a>
</li>
<li class="file-stats">
<a href="#a5b5d0c7b9c558d9142a199ec517b633dd40faf5">
tests/biomaj_tests.py
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="dea01dd89a3b602828e630677fde5d77c06441c8">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#dea01dd89a3b602828e630677fde5d77c06441c8"><strong>.travis.yml</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,15 +2,20 @@ language: python</td>
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<td class="diff-line-num new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="yaml"><span class="na" style="color: #008080;">sudo</span><span class="pi">:</span> <span class="no" style="color: #008080;">false</span></span>
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<td class="diff-line-num old_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC3" class="line" lang="yaml"><span class="na" style="color: #008080;">python</span><span class="pi">:</span></span>
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<td class="diff-line-num new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">2.7'</span></span>
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<td class="diff-line-num old old_line" data-linenumber="5" 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="5" 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="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC5" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">3.4'</span></span>
</pre>
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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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<td class="diff-line-num new_line old" data-linenumber="5" 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="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC6" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">3.5'</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">3.6'</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="8" 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">
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<td class="diff-line-num new new_line" data-linenumber="6" 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">
6
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC6" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">3.7'</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="8" 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">
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<td class="diff-line-num new new_line" data-linenumber="7" 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">
7
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC7" class="line" lang="yaml"><span class="pi">-</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">3.8'</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC8" class="line" lang="yaml"><span class="na" style="color: #008080;">services</span><span class="pi">:</span></span>
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<td class="diff-line-num old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="yaml"><span class="pi">-</span> <span class="s" style="color: #d14;">mongodb</span></span>
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<td class="diff-line-num old_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="yaml"><span class="pi">-</span> <span class="s" style="color: #d14;">elasticsearch</span></span>
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<td class="diff-line-num old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="yaml"><span class="na" style="color: #008080;">branches</span><span class="pi">:</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="yaml"> <span class="na" style="color: #008080;">except</span><span class="pi">:</span></span>
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<td class="diff-line-num old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="yaml"> <span class="pi">-</span> <span class="s2" style="color: #d14;">"</span><span class="s" style="color: #d14;">/^feature.*$/"</span></span>
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<td class="diff-line-num new old_line" data-linenumber="14" 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">
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<td class="diff-line-num new new_line" data-linenumber="14" 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">
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="yaml"><span class="na" style="color: #008080;">before_install</span><span class="pi">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="15" 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">
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="yaml"> <span class="pi">-</span> <span class="s" style="color: #d14;">sudo apt-get install -y libgnutls-dev</span></span>
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<td class="diff-line-num new new_line" data-linenumber="16" 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">
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="yaml"><span class="na" style="color: #008080;">addons</span><span class="pi">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="17" 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">
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="yaml"> <span class="na" style="color: #008080;">apt</span><span class="pi">:</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="yaml"> <span class="na" style="color: #008080;">update</span><span class="pi">:</span> <span class="no" style="color: #008080;">true</span></span>
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14
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19
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="yaml"><span class="na" style="color: #008080;">install</span><span class="pi">:</span></span>
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15
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="yaml"><span class="pi">-</span> <span class="s" style="color: #d14;">pip install flake8</span></span>
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16
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="yaml"><span class="pi">-</span> <span class="s" style="color: #d14;">pip install -r requirements.txt</span></span>
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<li id="3251d7a8143ce2e789f0468513df8f285f842c3a">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#3251d7a8143ce2e789f0468513df8f285f842c3a"><strong>CHANGES.txt</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">3.1.14:</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"> Add repair option</span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">3.1.13:</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Add process name and status in logs</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> PR #116 update to use download 3.1.0</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">3.1.12:</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> In case of multiple matches for release regexp, try to determine most recent one</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> #115 Correctly use save_as for release file name</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">3.1.11:</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> Increase one log level</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> #110 Allow ftps and directftps protocols (needs biomaj-download 3.0.26 and biomaj-core 3.0.19)</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> #111 locked bank after bad update command</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> Ignore UTF-8 errors in release file</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> Add plugin support via biomaj-plugins repo (https://github.com/genouest/biomaj-plugins) to get release and list of files to download from a plugin script.</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> Add support for protocol options in global and bank properties (options.names=x,y options.x=val options.y=val). Options may be ignored or used differently depending on used protocol.</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">3.1.10:</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> Allow to use hardlinks when reusing files from previous releases</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">3.1.9:</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> Fix remote.files recursion</span>
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1
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20
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">3.1.8:</span>
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2
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"> Fix uncompress when saved files contains subdirectory</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">3.1.7:</span>
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<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d"><strong>README.md</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">@@ -49,42 +49,41 @@ Application Features</td>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">====================</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="markdown"><span class="p">*</span> Synchronisation:</span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="markdown"><span class="p"> <span class="idiff left">*</span></span><span class="idiff right"> Multiple remote protocols (ftp, sftp</span>, http, local copy, etc.)</span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="markdown"><span class="p"> *</span> Data transfers integrity check</span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="markdown"><span class="p"> *</span> Release versioning using a incremental approach</span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="markdown"><span class="p"> *</span> Multi threading</span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="markdown"><span class="p"> *</span> Data extraction (gzip, tar, bzip)</span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="markdown"><span class="p"> *</span> Data tree directory normalisation</span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="markdown"><span class="p"> <span class="idiff left"> *</span></span><span class="idiff right"> Multiple remote protocols (ftp, ftps</span>, http, local copy, etc.)</span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Data transfers integrity check</span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Release versioning using a incremental approach</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Multi threading</span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Data extraction (gzip, tar, bzip)</span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Data tree directory normalisation</span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="markdown"><span class="p"> *</span> Plugins support for custom downloads</span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="markdown"><span class="p">*</span> Pre &Post processing :</span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="markdown"><span class="p"> *</span> Advanced workflow description (D.A.G)</span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="markdown"><span class="p"> *</span> Post-process indexation for various bioinformatics software (blast, srs, fastacmd, readseq, etc.)</span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="markdown"><span class="p"> *</span> Easy integration of personal scripts for bank post-processing automation</span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="markdown"><span class="p"> *</span> Advanced workflow description (D.A.G)</span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="markdown"><span class="p"> *</span> Post-process indexation for various bioinformatics software (blast, srs, fastacmd, readseq, etc.)</span>
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63
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="markdown"><span class="p"> *</span> Easy integration of personal scripts for bank post-processing automation</span>
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64
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="markdown"><span class="p">*</span> Supervision:</span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="markdown"><span class="p"> *</span> Optional Administration web interface (biomaj-watcher)</span>
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="markdown"><span class="p"> *</span> CLI management</span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="markdown"><span class="p"> *</span> Mail alerts for the update cycle supervision</span>
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="markdown"><span class="p"> *</span> Prometheus and Influxdb optional integration</span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="markdown"><span class="p"> *</span> Optional consul supervision of processes</span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Optional Administration web interface (biomaj-watcher)</span>
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67
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> CLI management</span>
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68
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Mail alerts for the update cycle supervision</span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Prometheus and Influxdb optional integration</span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Optional consul supervision of processes</span>
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71
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="markdown"></span>
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72
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="markdown"></span>
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74
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73
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="markdown"><span class="p">*</span> Scalability:</span>
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75
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="markdown"><span class="p"> *</span> Monolithic (local install) or microservice architecture (remote access to a BioMAJ server)</span>
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76
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="markdown"><span class="p"> *</span> Microservice installation allows per process scalability and supervision (number of process in charge of download, execution, etc.)</span>
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77
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="markdown"></span>
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74
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="markdown"><span class="p"> *</span> Monolithic (local install) or microservice architecture (remote access to a BioMAJ server)</span>
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75
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="markdown"><span class="p"> *</span> Microservice installation allows per process scalability and supervision (number of process in charge of download, execution, etc.)</span>
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78
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76
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<pre style="margin: 0;"> <span id="LC76" class="line" lang="markdown"></span>
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79
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77
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="markdown"><span class="p">*</span> Remote access:</span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="markdown"><span class="p"> *</span> Optional FTP server providing authenticated or anonymous data access</span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="markdown"><span class="p"> <span class="idiff left right"> </span>*</span> Optional FTP server providing authenticated or anonymous data access</span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Dependencies</span></span>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">============</span></span>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="markdown">Packages:</span>
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="markdown"><span class="p"> *</span> Debian: libcurl-dev, gcc</span>
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="markdown"><span class="p"> *</span> CentOs: libcurl-devel, openldap-devel, gcc</span>
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="markdown"><span class="p">*</span> Debian: libcurl-dev, gcc</span>
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="markdown"><span class="p">*</span> CentOs: libcurl-devel, openldap-devel, gcc</span>
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="markdown"> Linux tools: tar, unzip, gunzip, bunzip</span>
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="markdown"></span>
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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">@@ -115,7 +114,6 @@ From packages:</td>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="markdown"><span class="sb" style="color: #d14;"> pip install biomaj biomaj-cli biomaj-daemon</span></span>
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="markdown">You should consider using a Python virtual environment (virtualenv) to install BioMAJ.</span>
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="markdown">In tools/examples, copy the global.properties and update it to match your local</span>
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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">@@ -123,13 +121,11 @@ installation.</td>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="markdown">The tools/process contains example process files (python and shell).</span>
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<pre style="margin: 0;"> <span id="LC123" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Docker</span></span>
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<pre style="margin: 0;"> <span id="LC125" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">======</span></span>
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<pre style="margin: 0;"> <span id="LC126" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC127" class="line" lang="markdown">You can use BioMAJ with Docker (genouest/biomaj)</span>
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<pre style="margin: 0;"> <span id="LC128" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="markdown"><span class="sb" style="color: #d14;"> docker pull genouest/biomaj</span></span>
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<pre style="margin: 0;"> <span id="LC130" class="line" lang="markdown"><span class="sb" style="color: #d14;"> docker pull mongo</span></span>
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="markdown"><span class="sb" style="color: #d14;"> docker run --name biomaj-mongodb -d mongo</span></span>
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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">@@ -147,6 +143,51 @@ No default bank property file or process are available in the container.</td>
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC144" class="line" lang="markdown">Examples are available at https://github.com/genouest/biomaj-data</span>
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Import bank templates</span></span>
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">=====================</span></span>
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="markdown">Once biomaj is installed, it is possible to import some bank examples with the biomaj client</span>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # List available templates</span></span>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="markdown"><span class="sb" style="color: #d14;"> biomaj-cli ... --data-list</span></span>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # Import a bank template</span></span>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="markdown"><span class="sb" style="color: #d14;"> biomaj-cli ... --data-import --bank alu</span></span>
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # then edit bank template in config directory if needed and launch bank update</span></span>
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="markdown"><span class="sb" style="color: #d14;"> biomaj-cli ... --update --bank alu</span></span>
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159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Plugins</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">=======</span></span>
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="markdown">BioMAJ support python plugins to manage custom downloads where supported protocols</span>
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="markdown">are not enough (http page with unformatted listing, access to protected pages, etc.).</span>
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165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="markdown">Example of plugins and how to configure them are available on <span class="p">[</span><span class="nv" style="color: #008080;">biomaj-plugins</span><span class="p">](</span><span class="sx" style="color: #d14;">https://github.com/genouest/biomaj-plugins</span><span class="p">)</span> repository.</span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="markdown">Plugins can define a specific way to:</span>
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169
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="markdown"></span>
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170
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="markdown"><span class="p">*</span> retreive release</span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="markdown"><span class="p">*</span> list remote files to download</span>
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172
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="markdown"><span class="p">*</span> download remote files</span>
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173
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="markdown">Plugin can define one or many of those features.</span>
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175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="markdown">Basically, one defined in bank property file:</span>
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="markdown"></span>
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # Location of plugins</span></span>
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179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="markdown"><span class="sb" style="color: #d14;"> plugins_dir=/opt/biomaj-plugins</span></span>
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180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # Use plugin to fetch release</span></span>
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181
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="markdown"><span class="sb" style="color: #d14;"> release.plugin=github</span></span>
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182
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="markdown"><span class="sb" style="color: #d14;"> # List of arguments of plugin function with key=value format, comma separated</span></span>
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="markdown"><span class="sb" style="color: #d14;"> release.plugin_args=repo=osallou/goterra-cli</span></span>
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184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="markdown"></span>
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185
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="markdown">Plugins are used when related workflow step is used:</span>
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186
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="markdown"></span>
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187
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="markdown"><span class="p">*</span> release.plugin <= returns remote release</span>
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188
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="markdown"><span class="p">*</span> remote.plugin <= returns list of files to download</span>
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189
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="markdown"><span class="p">*</span> download.plugin <= download files from list of files</span>
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190
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<pre style="margin: 0;">+<span id="LC190" class="line" lang="markdown"></span>
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150
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">API documentation</span></span>
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151
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">=================</span></span>
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193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="markdown"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="213" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -172,7 +213,6 @@ Execute unit tests but disable ones needing network access</td>
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<pre style="margin: 0;"> <span id="LC213" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="markdown"><span class="sb" style="color: #d14;"> nosetests -a '!network'</span></span>
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC175" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Monitoring</span></span>
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<pre style="margin: 0;"> <span id="LC217" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">==========</span></span>
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<pre style="margin: 0;"> <span id="LC218" class="line" lang="markdown"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="235" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -195,14 +235,12 @@ A-GPL v3+</td>
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195
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235
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<pre style="margin: 0;"> <span id="LC235" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Remarks</span></span>
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196
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<pre style="margin: 0;"> <span id="LC236" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">=======</span></span>
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<pre style="margin: 0;"> <span id="LC237" class="line" lang="markdown"></span>
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198
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<pre style="margin: 0;">-<span id="LC198" class="line" lang="markdown">Biomaj uses libcurl, for sftp libcurl must be compiled with sftp support</span>
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<pre style="margin: 0;">-<span id="LC199" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC238" class="line" lang="markdown">To delete elasticsearch index:</span>
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<pre style="margin: 0;"> <span id="LC239" class="line" lang="markdown"></span>
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<pre style="margin: 0;">-<span id="LC202" class="line" lang="markdown"> curl -XDELETE '<span class="idiff left right">http://localhost:9200/biomaj_test/'</span></span>
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<pre style="margin: 0;">+<span id="LC240" class="line" lang="markdown"> curl -XDELETE '<span class="nv" style="color: #008080;"><span class="idiff left right"><http://localhost:9200/biomaj_test/'></span></span></span>
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<pre style="margin: 0;"> <span id="LC241" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC242" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">Credits</span></span>
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<pre style="margin: 0;">-<span id="LC205" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">======</span></span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="markdown"><span class="gu" style="color: #800080; font-weight: 600;">======<span class="idiff left right">=</span></span></span>
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206
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<pre style="margin: 0;"> <span id="LC244" class="line" lang="markdown"></span>
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="markdown">Special thanks for tuco at Pasteur Institute for the intensive testing and new ideas.</span>
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208
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="markdown">Thanks to the old BioMAJ team for the work they have done.</span>
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<br>
</li>
<li id="03e244d01bd4c585be00ff4e16f2cc19751a2df3">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#03e244d01bd4c585be00ff4e16f2cc19751a2df3"><strong>biomaj/bank.py</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -13,6 +13,7 @@ from biomaj.mongo_connector import MongoConnector</td>
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.session</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Session</span></span>
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">UpdateWorkflow</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">RemoveWorkflow</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">RepairWorkflow</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Workflow</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">ReleaseCheckWorkflow</span></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_core.config</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">BiomajConfig</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="502" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="503" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -502,8 +503,10 @@ class Bank(object):</td>
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503
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Insert session</span></span>
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<pre style="margin: 0;"> <span id="LC504" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'action'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'update'</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC505" class="line" lang="python"> <span class="n" style="color: #333;">action</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'last_update_session'</span></span>
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505
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<pre style="margin: 0;">-<span id="LC505" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'action'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'remove'</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC506" class="line" lang="python"> <span class="k" style="font-weight: 600;"><span class="idiff left right">el</span>if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'action'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'remove'</span><span class="p">:</span></span>
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507
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<pre style="margin: 0;"> <span id="LC507" class="line" lang="python"> <span class="n" style="color: #333;">action</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'last_remove_session'</span></span>
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508
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<pre style="margin: 0;">+<span id="LC508" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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509
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<pre style="margin: 0;">+<span id="LC509" class="line" lang="python"> <span class="n" style="color: #333;">action</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'last_update_session'</span></span>
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510
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<pre style="margin: 0;"> <span id="LC510" class="line" lang="python"></span>
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508
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511
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="python"> <span class="n" style="color: #333;">cache_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'cache.dir'</span><span class="p">)</span></span>
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509
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512
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<pre style="margin: 0;"> <span id="LC512" class="line" lang="python"> <span class="n" style="color: #333;">download_files</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'download_files'</span><span class="p">)</span></span>
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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">@@ -1112,6 +1115,74 @@ class Bank(object):</td>
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1112
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1115
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<pre style="margin: 0;"> <span id="LC1115" class="line" lang="python"></span>
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1113
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1116
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<pre style="margin: 0;"> <span id="LC1116" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">res</span></span>
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1114
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1117
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<pre style="margin: 0;"> <span id="LC1117" class="line" lang="python"></span>
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1118
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<pre style="margin: 0;">+<span id="LC1118" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">repair</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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1119
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<pre style="margin: 0;">+<span id="LC1119" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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1120
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<pre style="margin: 0;">+<span id="LC1120" class="line" lang="python"><span class="s" style="color: #d14;"> Launch a bank repair</span></span>
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1121
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<pre style="margin: 0;">+<span id="LC1121" class="line" lang="python"></span>
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1122
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<pre style="margin: 0;">+<span id="LC1122" class="line" lang="python"><span class="s" style="color: #d14;"> :return: bool</span></span>
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1123
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<pre style="margin: 0;">+<span id="LC1123" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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1124
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<pre style="margin: 0;">+<span id="LC1124" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">warning</span><span class="p">(</span><span class="s" style="color: #d14;">'Bank:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':Repair'</span><span class="p">)</span></span>
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1125
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<pre style="margin: 0;">+<span id="LC1125" class="line" lang="python"> <span class="n" style="color: #333;">start_time</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">datetime</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">now</span><span class="p">()</span></span>
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1126
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<pre style="margin: 0;">+<span id="LC1126" class="line" lang="python"> <span class="n" style="color: #333;">start_time</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">time</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">mktime</span><span class="p">(</span><span class="n" style="color: #333;">start_time</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">timetuple</span><span class="p">())</span></span>
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1127
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<pre style="margin: 0;">+<span id="LC1127" class="line" lang="python"></span>
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1128
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<pre style="margin: 0;">+<span id="LC1128" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">is_owner</span><span class="p">():</span></span>
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1129
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<pre style="margin: 0;">+<span id="LC1129" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Not authorized, bank owned by '</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="p">[</span><span class="s" style="color: #d14;">'properties'</span><span class="p">][</span><span class="s" style="color: #d14;">'owner'</span><span class="p">])</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1130" 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">
1130
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<pre style="margin: 0;">+<span id="LC1130" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="nb" style="color: #0086b3;">Exception</span><span class="p">(</span><span class="s" style="color: #d14;">'Not authorized, bank owned by '</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="p">[</span><span class="s" style="color: #d14;">'properties'</span><span class="p">][</span><span class="s" style="color: #d14;">'owner'</span><span class="p">])</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1131" 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">
1131
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<pre style="margin: 0;">+<span id="LC1131" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="1132" 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">
1132
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<pre style="margin: 0;">+<span id="LC1132" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">run_depends</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1133" 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">
1133
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<pre style="margin: 0;">+<span id="LC1133" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="1134" 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">
1134
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<pre style="margin: 0;">+<span id="LC1134" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">controls</span><span class="p">()</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1135" 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">
1135
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<pre style="margin: 0;">+<span id="LC1135" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1136" 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">
1136
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<pre style="margin: 0;">+<span id="LC1136" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Bank:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':Release:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1137" 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">
1137
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<pre style="margin: 0;">+<span id="LC1137" class="line" lang="python"> <span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_session_from_release</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1138" 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">
1138
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<pre style="margin: 0;">+<span id="LC1138" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># No session in prod</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1139" 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">
1139
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<pre style="margin: 0;">+<span id="LC1139" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">s</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1140" 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">
1140
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<pre style="margin: 0;">+<span id="LC1140" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Release does not exists: '</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1141" 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">
1141
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<pre style="margin: 0;">+<span id="LC1141" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1142" 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">
1142
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<pre style="margin: 0;">+<span id="LC1142" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">load_session</span><span class="p">(</span><span class="n" style="color: #333;">UpdateWorkflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">FLOW</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1143" 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">
1143
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<pre style="margin: 0;">+<span id="LC1143" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1144" 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">
1144
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<pre style="margin: 0;">+<span id="LC1144" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Bank:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':Release:latest'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1145" 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">
1145
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<pre style="margin: 0;">+<span id="LC1145" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">load_session</span><span class="p">(</span><span class="n" style="color: #333;">UpdateWorkflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">FLOW</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1146" 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">
1146
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<pre style="margin: 0;">+<span id="LC1146" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'action'</span><span class="p">,</span> <span class="s" style="color: #d14;">'update'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1147" 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">
1147
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<pre style="margin: 0;">+<span id="LC1147" class="line" lang="python"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start_repair</span><span class="p">()</span></span>
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1148
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<pre style="margin: 0;">+<span id="LC1148" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'workflow_status'</span><span class="p">,</span> <span class="n" style="color: #333;">res</span><span class="p">)</span></span>
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1149
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<pre style="margin: 0;">+<span id="LC1149" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">save_session</span><span class="p">()</span></span>
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1150
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<pre style="margin: 0;">+<span id="LC1150" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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1151
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<pre style="margin: 0;">+<span id="LC1151" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">__stats</span><span class="p">()</span></span>
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1152
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<pre style="margin: 0;">+<span id="LC1152" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">Exception</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1153" 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">
1153
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<pre style="margin: 0;">+<span id="LC1153" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exception</span><span class="p">(</span><span class="s" style="color: #d14;">'Failed to send stats'</span><span class="p">)</span></span>
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1154
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<pre style="margin: 0;">+<span id="LC1154" class="line" lang="python"> <span class="n" style="color: #333;">end_time</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">datetime</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">now</span><span class="p">()</span></span>
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1155
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<pre style="margin: 0;">+<span id="LC1155" class="line" lang="python"> <span class="n" style="color: #333;">end_time</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">time</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">mktime</span><span class="p">(</span><span class="n" style="color: #333;">end_time</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">timetuple</span><span class="p">())</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1156" 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">
1156
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<pre style="margin: 0;">+<span id="LC1156" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">history</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">insert</span><span class="p">({</span></span>
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1157
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<pre style="margin: 0;">+<span id="LC1157" class="line" lang="python"> <span class="s" style="color: #d14;">'bank'</span><span class="p">:</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">,</span></span>
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1158
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<pre style="margin: 0;">+<span id="LC1158" class="line" lang="python"> <span class="s" style="color: #d14;">'error'</span><span class="p">:</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">res</span><span class="p">,</span></span>
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1159
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<pre style="margin: 0;">+<span id="LC1159" class="line" lang="python"> <span class="s" style="color: #d14;">'start'</span><span class="p">:</span> <span class="n" style="color: #333;">start_time</span><span class="p">,</span></span>
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1160
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<pre style="margin: 0;">+<span id="LC1160" class="line" lang="python"> <span class="s" style="color: #d14;">'end'</span><span class="p">:</span> <span class="n" style="color: #333;">end_time</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1161" 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">
1161
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<pre style="margin: 0;">+<span id="LC1161" class="line" lang="python"> <span class="s" style="color: #d14;">'action'</span><span class="p">:</span> <span class="s" style="color: #d14;">'repair'</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1162" 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">
1162
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<pre style="margin: 0;">+<span id="LC1162" class="line" lang="python"> <span class="s" style="color: #d14;">'updated'</span><span class="p">:</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'update'</span><span class="p">)</span></span>
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1163
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<pre style="margin: 0;">+<span id="LC1163" class="line" lang="python"> <span class="p">})</span></span>
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1164
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<pre style="margin: 0;">+<span id="LC1164" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">res</span></span>
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1165
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<pre style="margin: 0;">+<span id="LC1165" class="line" lang="python"></span>
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1166
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<pre style="margin: 0;">+<span id="LC1166" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">start_repair</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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1167
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<pre style="margin: 0;">+<span id="LC1167" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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1168
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<pre style="margin: 0;">+<span id="LC1168" class="line" lang="python"><span class="s" style="color: #d14;"> Start an repair workflow</span></span>
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1169
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<pre style="margin: 0;">+<span id="LC1169" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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1170
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<pre style="margin: 0;">+<span id="LC1170" class="line" lang="python"> <span class="n" style="color: #333;">workflow</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">RepairWorkflow</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">)</span></span>
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1171
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<pre style="margin: 0;">+<span id="LC1171" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span> <span class="ow" style="font-weight: 600;">and</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_host'</span><span class="p">):</span></span>
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1172
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<pre style="margin: 0;">+<span id="LC1172" class="line" lang="python"> <span class="n" style="color: #333;">redis_client</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">redis</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">StrictRedis</span><span class="p">(</span></span>
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1173
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<pre style="margin: 0;">+<span id="LC1173" class="line" lang="python"> <span class="n" style="color: #333;">host</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_host'</span><span class="p">),</span></span>
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1174
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<pre style="margin: 0;">+<span id="LC1174" class="line" lang="python"> <span class="n" style="color: #333;">port</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_port'</span><span class="p">),</span></span>
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1175
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<pre style="margin: 0;">+<span id="LC1175" class="line" lang="python"> <span class="n" style="color: #333;">db</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_db'</span><span class="p">),</span></span>
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1176
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<pre style="margin: 0;">+<span id="LC1176" class="line" lang="python"> <span class="n" style="color: #333;">decode_responses</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">True</span></span>
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1177
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<pre style="margin: 0;">+<span id="LC1177" class="line" lang="python"> <span class="p">)</span></span>
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1178
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<pre style="margin: 0;">+<span id="LC1178" class="line" lang="python"> <span class="n" style="color: #333;">workflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">redis_client</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">redis_client</span></span>
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1179
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<pre style="margin: 0;">+<span id="LC1179" class="line" lang="python"> <span class="n" style="color: #333;">workflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">redis_prefix</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_prefix'</span><span class="p">)</span></span>
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1180
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<pre style="margin: 0;">+<span id="LC1180" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">redis_client</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_prefix'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':action:cancel'</span><span class="p">):</span></span>
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1181
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<pre style="margin: 0;">+<span id="LC1181" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">warn</span><span class="p">(</span><span class="s" style="color: #d14;">'Cancel requested, stopping update'</span><span class="p">)</span></span>
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1182
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<pre style="margin: 0;">+<span id="LC1182" class="line" lang="python"> <span class="n" style="color: #333;">redis_client</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">delete</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'redis_prefix'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">':action:cancel'</span><span class="p">)</span></span>
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1183
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<pre style="margin: 0;">+<span id="LC1183" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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1184
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<pre style="margin: 0;">+<span id="LC1184" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">workflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start</span><span class="p">()</span></span>
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1185
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<pre style="margin: 0;">+<span id="LC1185" class="line" lang="python"></span>
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1115
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1186
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<pre style="margin: 0;"> <span id="LC1186" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">update</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">depends</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">):</span></span>
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1116
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1187
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<pre style="margin: 0;"> <span id="LC1187" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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1117
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1188
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<pre style="margin: 0;"> <span id="LC1188" class="line" lang="python"><span class="s" style="color: #d14;"> Launch a bank update</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1236" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1165,7 +1236,9 @@ class Bank(object):</td>
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1165
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<td class="diff-line-num new_line" data-linenumber="1236" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1236
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<pre style="margin: 0;"> <span id="LC1236" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">reset</span><span class="p">:</span></span>
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1166
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<td class="diff-line-num new_line" data-linenumber="1237" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1237
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<pre style="margin: 0;"> <span id="LC1237" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"Process </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s not found in </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">proc</span><span class="p">),</span> <span class="n" style="color: #333;">task</span><span class="p">[</span><span class="s" style="color: #d14;">'name'</span><span class="p">]))</span></span>
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<td class="diff-line-num old_line" data-linenumber="1167" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1167
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<td class="diff-line-num new_line" data-linenumber="1238" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1238
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<pre style="margin: 0;"> <span id="LC1238" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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1168
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<td class="diff-line-num new_line old" data-linenumber="1239" 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="LC1168" class="line" lang="python"></span>
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<td class="diff-line-num new old_line" data-linenumber="1169" 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">
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<td class="diff-line-num new new_line" data-linenumber="1239" 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">
1239
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<pre style="margin: 0;">+<span id="LC1239" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">set_to_false</span><span class="p">:</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1169" 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">
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<td class="diff-line-num new new_line" data-linenumber="1240" 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">
1240
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<pre style="margin: 0;">+<span id="LC1240" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'No task found named </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_option</span><span class="p">(</span><span class="s" style="color: #d14;">'from_task'</span><span class="p">)))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1241" 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">
1241
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<pre style="margin: 0;">+<span id="LC1241" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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1169
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<td class="diff-line-num new_line" data-linenumber="1242" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1242
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<pre style="margin: 0;"> <span id="LC1242" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'action'</span><span class="p">,</span> <span class="s" style="color: #d14;">'update'</span><span class="p">)</span></span>
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<td class="diff-line-num old_line" data-linenumber="1170" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1170
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<td class="diff-line-num new_line" data-linenumber="1243" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1243
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<pre style="margin: 0;"> <span id="LC1243" class="line" lang="python"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start_update</span><span class="p">()</span></span>
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<td class="diff-line-num old_line" data-linenumber="1171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1171
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<td class="diff-line-num new_line" data-linenumber="1244" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1244
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<pre style="margin: 0;"> <span id="LC1244" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'workflow_status'</span><span class="p">,</span> <span class="n" style="color: #333;">res</span><span class="p">)</span></span>
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<li id="2666e9fb236a6acf6678fd9eeaf94acfa7ec17ce">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#2666e9fb236a6acf6678fd9eeaf94acfa7ec17ce"><strong>biomaj/process/metaprocess.py</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="262" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="262" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -262,8 +262,11 @@ class MetaProcess(threading.Thread):</td>
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262
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<td class="diff-line-num new_line" data-linenumber="262" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
262
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<pre style="margin: 0;"> <span id="LC262" class="line" lang="python"> <span class="n" style="color: #333;">processes_status</span><span class="p">[</span><span class="n" style="color: #333;">bprocess</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">res</span></span>
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<td class="diff-line-num old_line" data-linenumber="263" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
263
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<td class="diff-line-num new_line" data-linenumber="263" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
263
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<pre style="margin: 0;"> <span id="LC263" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">set_progress</span><span class="p">(</span><span class="n" style="color: #333;">bmaj_process</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">,</span> <span class="n" style="color: #333;">res</span><span class="p">)</span></span>
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264
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264
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<pre style="margin: 0;"> <span id="LC264" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">res</span><span class="p">:</span></span>
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<td class="diff-line-num new old_line" data-linenumber="265" 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">
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<td class="diff-line-num new new_line" data-linenumber="265" 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">
265
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"PROC:META:RUN:PROCESS:ERROR:"</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">bmaj_process</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">)</span></span>
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265
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<td class="diff-line-num new_line" data-linenumber="266" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
266
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<pre style="margin: 0;"> <span id="LC266" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">global_status</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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266
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267
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<pre style="margin: 0;"> <span id="LC267" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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<td class="diff-line-num new new_line" data-linenumber="268" 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">
268
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<pre style="margin: 0;">+<span id="LC268" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="269" 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">
269
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<pre style="margin: 0;">+<span id="LC269" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"PROC:META:RUN:PROCESS:OK:"</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">bmaj_process</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">)</span></span>
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<td class="diff-line-num old_line" data-linenumber="267" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
267
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<td class="diff-line-num new_line" data-linenumber="270" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
270
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<pre style="margin: 0;"> <span id="LC270" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">simulate</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC271" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_lock</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC272" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_lock</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">acquire</span><span class="p">()</span></span>
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<li id="a6bf41e90a3de0ee2ee99b67cb28f3eb8a85b227">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#a6bf41e90a3de0ee2ee99b67cb28f3eb8a85b227"><strong>biomaj/workflow.py</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">@@ -16,7 +16,7 @@ import sys</td>
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16
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_core.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Utils</span></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.downloadclient</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DownloadClient</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.message</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">downmessage_pb2</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.<span class="idiff left right">http</span></span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">HTTPParse</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.<span class="idiff left right">curl</span></span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">HTTPParse</span></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.localcopy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">LocalDownload</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.mongo_connector</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">MongoConnector</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="24" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="24" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -24,6 +24,7 @@ from biomaj.options import Options</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.process.processfactory</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">RemoveProcessFactory</span><span class="p">,</span> <span class="n" style="color: #333;">PreProcessFactory</span><span class="p">,</span> <span class="n" style="color: #333;">PostProcessFactory</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_zipkin.zipkin</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Zipkin</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">yapsy.PluginManager</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">PluginManager</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">Workflow</span><span class="p">(</span><span class="nb" style="color: #0086b3;">object</span><span class="p">):</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="334" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -334,6 +335,28 @@ class UpdateWorkflow(Workflow):</td>
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<pre style="margin: 0;"> <span id="LC335" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">'New workflow'</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC336" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_session</span><span class="p">[</span><span class="s" style="color: #d14;">'update'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">True</span></span>
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337
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<pre style="margin: 0;"> <span id="LC337" class="line" lang="python"></span>
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338
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<pre style="margin: 0;">+<span id="LC338" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">_get_plugin</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">name</span><span class="p">,</span> <span class="n" style="color: #333;">plugin_args</span><span class="p">):</span></span>
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339
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<pre style="margin: 0;">+<span id="LC339" class="line" lang="python"> <span class="n" style="color: #333;">options</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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340
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="python"> <span class="n" style="color: #333;">plugins_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'plugins_dir'</span><span class="p">)</span></span>
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341
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<pre style="margin: 0;">+<span id="LC341" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">plugins_dir</span><span class="p">:</span></span>
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342
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<pre style="margin: 0;">+<span id="LC342" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">None</span></span>
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343
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<pre style="margin: 0;">+<span id="LC343" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">plugin_args</span><span class="p">:</span></span>
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344
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">plugin_arg</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">plugin_args</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">','</span><span class="p">):</span></span>
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345
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<pre style="margin: 0;">+<span id="LC345" class="line" lang="python"> <span class="n" style="color: #333;">arg</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">plugin_arg</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">'='</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span></span>
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346
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<pre style="margin: 0;">+<span id="LC346" class="line" lang="python"> <span class="n" style="color: #333;">options</span><span class="p">[</span><span class="n" style="color: #333;">arg</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">arg</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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347
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<pre style="margin: 0;">+<span id="LC347" class="line" lang="python"> <span class="n" style="color: #333;">requested_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">None</span></span>
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348
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<pre style="margin: 0;">+<span id="LC348" class="line" lang="python"> <span class="n" style="color: #333;">simplePluginManager</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">PluginManager</span><span class="p">()</span></span>
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349
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<pre style="margin: 0;">+<span id="LC349" class="line" lang="python"> <span class="n" style="color: #333;">simplePluginManager</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">setPluginPlaces</span><span class="p">([</span><span class="n" style="color: #333;">plugins_dir</span><span class="p">])</span></span>
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350
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<pre style="margin: 0;">+<span id="LC350" class="line" lang="python"> <span class="n" style="color: #333;">simplePluginManager</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">collectPlugins</span><span class="p">()</span></span>
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351
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<pre style="margin: 0;">+<span id="LC351" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Load plugins from </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">plugins_dir</span><span class="p">))</span></span>
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352
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<pre style="margin: 0;">+<span id="LC352" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">pluginInfo</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">simplePluginManager</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">getAllPlugins</span><span class="p">():</span></span>
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353
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<pre style="margin: 0;">+<span id="LC353" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">pluginInfo</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">plugin_object</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">name</span><span class="p">:</span></span>
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354
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<pre style="margin: 0;">+<span id="LC354" class="line" lang="python"> <span class="n" style="color: #333;">requested_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">pluginInfo</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">plugin_object</span></span>
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355
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">requested_plugin</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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356
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">None</span></span>
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="python"> <span class="n" style="color: #333;">requested_plugin</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">configure</span><span class="p">(</span><span class="n" style="color: #333;">options</span><span class="p">)</span></span>
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358
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<pre style="margin: 0;">+<span id="LC358" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">requested_plugin</span></span>
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359
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<pre style="margin: 0;">+<span id="LC359" class="line" lang="python"></span>
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337
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360
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">wf_init</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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338
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361
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<pre style="margin: 0;"> <span id="LC361" class="line" lang="python"> <span class="n" style="color: #333;">err</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">super</span><span class="p">(</span><span class="n" style="color: #333;">UpdateWorkflow</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">wf_init</span><span class="p">()</span></span>
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339
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362
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<pre style="margin: 0;"> <span id="LC362" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">err</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="431" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="454" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -431,6 +454,7 @@ class UpdateWorkflow(Workflow):</td>
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431
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454
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<pre style="margin: 0;"> <span id="LC454" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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432
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455
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<pre style="margin: 0;"> <span id="LC455" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_copydepends'</span><span class="p">)</span></span>
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433
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456
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<pre style="margin: 0;"> <span id="LC456" class="line" lang="python"> <span class="n" style="color: #333;">deps</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_dependencies</span><span class="p">()</span></span>
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457
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<pre style="margin: 0;">+<span id="LC457" class="line" lang="python"> <span class="n" style="color: #333;">cf</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span></span>
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434
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458
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<pre style="margin: 0;"> <span id="LC458" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">dep</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">deps</span><span class="p">:</span></span>
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435
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459
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<pre style="margin: 0;"> <span id="LC459" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="n" style="color: #333;">dep</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.files.move'</span><span class="p">):</span></span>
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436
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460
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<pre style="margin: 0;"> <span id="LC460" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Worflow:wf_depends:Files:Move:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="n" style="color: #333;">dep</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.files.move'</span><span class="p">))</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="467" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -443,7 +467,10 @@ class UpdateWorkflow(Workflow):</td>
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443
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467
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<pre style="margin: 0;"> <span id="LC467" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Could not find a session update for bank '</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">dep</span><span class="p">)</span></span>
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444
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468
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<pre style="margin: 0;"> <span id="LC468" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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445
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469
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<pre style="margin: 0;"> <span id="LC469" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># b = self.bank.get_bank(dep, no_log=True)</span></span>
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<pre style="margin: 0;">-<span id="LC446" class="line" lang="python"> <span class="n" style="color: #333;">locald</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">LocalDownload</span><span class="p">(</span><span class="n" style="color: #333;">bdir</span><span class="p">)</span></span>
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470
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<pre style="margin: 0;">+<span id="LC470" class="line" lang="python"> <span class="n" style="color: #333;">locald</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">LocalDownload</span><span class="p">(</span></span>
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471
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<pre style="margin: 0;">+<span id="LC471" class="line" lang="python"> <span class="n" style="color: #333;">bdir</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC472" class="line" lang="python"> <span class="n" style="color: #333;">use_hardlinks</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_bool</span><span class="p">(</span><span class="s" style="color: #d14;">"use_hardlinks"</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC473" class="line" lang="python"> <span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC474" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">file_list</span><span class="p">,</span> <span class="n" style="color: #333;">dir_list</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">locald</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">list</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC475" class="line" lang="python"> <span class="n" style="color: #333;">locald</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="n" style="color: #333;">dep</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.files.move'</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(),</span> <span class="n" style="color: #333;">file_list</span><span class="p">,</span> <span class="n" style="color: #333;">dir_list</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC476" class="line" lang="python"> <span class="n" style="color: #333;">bankdepdir</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_full_release_directory</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">"/"</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">dep</span></span>
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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">@@ -484,11 +511,38 @@ class UpdateWorkflow(Workflow):</td>
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511
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="python"> <span class="n" style="color: #333;">MongoConnector</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">banks</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">({</span><span class="s" style="color: #d14;">'name'</span><span class="p">:</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span><span class="p">},</span></span>
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<pre style="margin: 0;"> <span id="LC512" class="line" lang="python"> <span class="n" style="color: #333;">info</span><span class="p">)</span></span>
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513
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<pre style="margin: 0;"> <span id="LC513" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC514" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">__findLastRelease</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">releases</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC515" class="line" lang="python"> <span class="s" style="color: #d14;">'''</span></span>
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<pre style="margin: 0;">+<span id="LC516" class="line" lang="python"><span class="s" style="color: #d14;"> Try to find most release from releases input array</span></span>
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<pre style="margin: 0;">+<span id="LC517" class="line" lang="python"><span class="s" style="color: #d14;"> '''</span></span>
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<pre style="margin: 0;">+<span id="LC518" class="line" lang="python"> <span class="n" style="color: #333;">release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">releases</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC519" class="line" lang="python"> <span class="n" style="color: #333;">releaseElts</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">re</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">r'\.|-'</span><span class="p">,</span> <span class="n" style="color: #333;">release</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC520" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">'found a release </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">release</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC521" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">rel</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">releases</span><span class="p">:</span></span>
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522
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<pre style="margin: 0;">+<span id="LC522" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">rel</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">release</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC523" class="line" lang="python"> <span class="k" style="font-weight: 600;">continue</span></span>
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<pre style="margin: 0;">+<span id="LC524" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">'compare next release </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">rel</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC525" class="line" lang="python"> <span class="n" style="color: #333;">relElts</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">re</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">r'\.|-'</span><span class="p">,</span> <span class="n" style="color: #333;">rel</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC526" class="line" lang="python"> <span class="n" style="color: #333;">index</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span></span>
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527
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<pre style="margin: 0;">+<span id="LC527" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">relElt</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">relElts</span><span class="p">:</span></span>
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528
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<pre style="margin: 0;">+<span id="LC528" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">"compare release major,minor,etc. : </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s >? </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">relElt</span><span class="p">,</span> <span class="n" style="color: #333;">releaseElts</span><span class="p">[</span><span class="n" style="color: #333;">index</span><span class="p">]))</span></span>
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529
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<pre style="margin: 0;">+<span id="LC529" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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530
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<pre style="margin: 0;">+<span id="LC530" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">int</span><span class="p">(</span><span class="n" style="color: #333;">relElt</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="nb" style="color: #0086b3;">int</span><span class="p">(</span><span class="n" style="color: #333;">releaseElts</span><span class="p">[</span><span class="n" style="color: #333;">index</span><span class="p">]):</span></span>
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531
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<pre style="margin: 0;">+<span id="LC531" class="line" lang="python"> <span class="n" style="color: #333;">release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rel</span></span>
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532
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<pre style="margin: 0;">+<span id="LC532" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">"found newer release </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">rel</span><span class="p">))</span></span>
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533
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<pre style="margin: 0;">+<span id="LC533" class="line" lang="python"> <span class="k" style="font-weight: 600;">break</span></span>
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534
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<pre style="margin: 0;">+<span id="LC534" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">ValueError</span><span class="p">:</span></span>
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535
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<pre style="margin: 0;">+<span id="LC535" class="line" lang="python"> <span class="k" style="font-weight: 600;">pass</span></span>
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536
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<pre style="margin: 0;">+<span id="LC536" class="line" lang="python"> <span class="k" style="font-weight: 600;">finally</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC537" class="line" lang="python"> <span class="n" style="color: #333;">index</span> <span class="o" style="font-weight: 600;">+=</span> <span class="mi" style="color: #099;">1</span></span>
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538
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<pre style="margin: 0;">+<span id="LC538" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">release</span></span>
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539
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<pre style="margin: 0;">+<span id="LC539" class="line" lang="python"></span>
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540
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">wf_release</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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488
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541
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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489
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542
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<pre style="margin: 0;"> <span id="LC542" class="line" lang="python"><span class="s" style="color: #d14;"> Find current release on remote</span></span>
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490
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543
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<pre style="margin: 0;"> <span id="LC543" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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491
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544
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release'</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC545" class="line" lang="python"> <span class="n" style="color: #333;">release</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">None</span></span>
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492
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546
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<pre style="margin: 0;"> <span id="LC546" class="line" lang="python"> <span class="n" style="color: #333;">cf</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span></span>
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493
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'ref.release'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">and</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">depends</span><span class="p">:</span></span>
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548
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Bank is a computed bank and we ask to set release to the same</span></span>
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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">@@ -531,6 +585,28 @@ class UpdateWorkflow(Workflow):</td>
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585
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<pre style="margin: 0;"> <span id="LC585" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'previous_release'</span><span class="p">)</span></span>
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532
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586
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<pre style="margin: 0;"> <span id="LC586" class="line" lang="python"></span>
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533
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587
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<pre style="margin: 0;"> <span id="LC587" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release:previous_session:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span><span class="p">))</span></span>
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588
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<pre style="margin: 0;">+<span id="LC588" class="line" lang="python"></span>
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589
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<pre style="margin: 0;">+<span id="LC589" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.plugin'</span><span class="p">):</span></span>
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590
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<pre style="margin: 0;">+<span id="LC590" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Release already set from a previous run or an other bank</span></span>
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591
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<pre style="margin: 0;">+<span id="LC591" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release:plugin:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.plugin'</span><span class="p">)))</span></span>
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592
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<pre style="margin: 0;">+<span id="LC592" class="line" lang="python"> <span class="n" style="color: #333;">plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_get_plugin</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.plugin'</span><span class="p">),</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.plugin_args'</span><span class="p">))</span></span>
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593
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<pre style="margin: 0;">+<span id="LC593" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">plugin</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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594
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<pre style="margin: 0;">+<span id="LC594" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">"Could not load plugin"</span><span class="p">)</span></span>
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595
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<pre style="margin: 0;">+<span id="LC595" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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596
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<pre style="margin: 0;">+<span id="LC596" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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597
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<pre style="margin: 0;">+<span id="LC597" class="line" lang="python"> <span class="n" style="color: #333;">plugin_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">plugin</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">release</span><span class="p">()</span></span>
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598
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<pre style="margin: 0;">+<span id="LC598" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release:plugin:</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s:</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.plugin'</span><span class="p">),</span> <span class="n" style="color: #333;">plugin_release</span><span class="p">))</span></span>
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599
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<pre style="margin: 0;">+<span id="LC599" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">,</span> <span class="n" style="color: #333;">plugin_release</span><span class="p">)</span></span>
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600
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<pre style="margin: 0;">+<span id="LC600" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'remoterelease'</span><span class="p">,</span> <span class="n" style="color: #333;">plugin_release</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="601" 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">
601
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<pre style="margin: 0;">+<span id="LC601" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span> <span class="o" style="font-weight: 600;">==</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">and</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_bool</span><span class="p">(</span><span class="s" style="color: #d14;">'release.control'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">):</span></span>
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602
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<pre style="margin: 0;">+<span id="LC602" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release:same_as_previous_session'</span><span class="p">)</span></span>
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603
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<pre style="margin: 0;">+<span id="LC603" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">no_need_to_update</span><span class="p">()</span></span>
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<td class="diff-line-num new new_line" data-linenumber="604" 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">
604
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<pre style="margin: 0;">+<span id="LC604" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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605
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<pre style="margin: 0;">+<span id="LC605" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">True</span></span>
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606
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<pre style="margin: 0;">+<span id="LC606" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">Exception</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">e</span><span class="p">:</span></span>
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607
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<pre style="margin: 0;">+<span id="LC607" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exception</span><span class="p">(</span><span class="s" style="color: #d14;">"Plugin failed to get a release </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">e</span><span class="p">)))</span></span>
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608
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<pre style="margin: 0;">+<span id="LC608" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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609
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<pre style="margin: 0;">+<span id="LC609" class="line" lang="python"></span>
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534
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610
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<pre style="margin: 0;"> <span id="LC610" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">):</span></span>
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535
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611
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<pre style="margin: 0;"> <span id="LC611" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Release already set from a previous run or an other bank</span></span>
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536
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612
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<pre style="margin: 0;"> <span id="LC612" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_release:session:'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">)))</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="603" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -603,7 +679,7 @@ class UpdateWorkflow(Workflow):</td>
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603
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679
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<pre style="margin: 0;"> <span id="LC679" class="line" lang="python"></span>
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604
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680
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<pre style="margin: 0;"> <span id="LC680" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">None</span></span>
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605
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681
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<pre style="margin: 0;"> <span id="LC681" class="line" lang="python"> <span class="n" style="color: #333;">method</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">'GET'</span></span>
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606
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<pre style="margin: 0;">-<span id="LC606" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;"><span class="idiff left">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">'directftp'</span></span><span class="p">:</span></span>
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682
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<pre style="margin: 0;">+<span id="LC682" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="ow" style="font-weight: 600;"><span class="idiff left">in</span></span><span class="idiff"> </span><span class="p"><span class="idiff">[</span></span><span class="s" style="color: #d14;"><span class="idiff">'directftp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directftps'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="p"><span class="idiff right">]</span>:</span></span>
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607
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683
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<pre style="margin: 0;"> <span id="LC683" class="line" lang="python"> <span class="n" style="color: #333;">keys</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'url.params'</span><span class="p">)</span></span>
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608
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<pre style="margin: 0;"> <span id="LC684" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">keys</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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609
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<pre style="margin: 0;"> <span id="LC685" class="line" lang="python"> <span class="n" style="color: #333;">params</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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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">@@ -631,6 +707,19 @@ class UpdateWorkflow(Workflow):</td>
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<pre style="margin: 0;"> <span id="LC707" class="line" lang="python"> <span class="n" style="color: #333;">params</span><span class="p">[</span><span class="s" style="color: #d14;">'protocol'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'irods.protocol'</span><span class="p">))</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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708
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<pre style="margin: 0;"> <span id="LC708" class="line" lang="python"> <span class="n" style="color: #333;">params</span><span class="p">[</span><span class="s" style="color: #d14;">'zone'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'irods.zone'</span><span class="p">))</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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709
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<pre style="margin: 0;"> <span id="LC709" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC710" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Protocol options: as for params, a field contains the name</span></span>
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<pre style="margin: 0;">+<span id="LC711" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># of the options (options.names) and the values are in another</span></span>
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<pre style="margin: 0;">+<span id="LC712" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># field named options.<option_name>.</span></span>
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<pre style="margin: 0;">+<span id="LC713" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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<pre style="margin: 0;">+<span id="LC714" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'options.names'</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC715" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">option_names</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC716" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_names</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">','</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC717" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">option_name</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">option_names</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC718" class="line" lang="python"> <span class="n" style="color: #333;">option_name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_name</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC719" class="line" lang="python"> <span class="n" style="color: #333;">param</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'options.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">option_name</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC720" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="p">[</span><span class="n" style="color: #333;">option_name</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">param</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC721" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">"Protocol options: "</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">protocol_options</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC722" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC723" class="line" lang="python"> <span class="n" style="color: #333;">release_downloader</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dserv</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_handler</span><span class="p">(</span></span>
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<pre style="margin: 0;"> <span id="LC724" class="line" lang="python"> <span class="n" style="color: #333;">protocol</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC725" class="line" lang="python"> <span class="n" style="color: #333;">server</span><span class="p">,</span></span>
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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">@@ -643,10 +732,11 @@ class UpdateWorkflow(Workflow):</td>
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<pre style="margin: 0;"> <span id="LC732" class="line" lang="python"> <span class="n" style="color: #333;">proxy_auth</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">proxy_auth</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC733" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">save_as</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC734" class="line" lang="python"> <span class="n" style="color: #333;">timeout_download</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'timeout.download'</span><span class="p">),</span></span>
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646
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<pre style="margin: 0;">-<span id="LC646" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">()</span></span>
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735
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<pre style="margin: 0;">+<span id="LC735" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">(),</span></span>
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736
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<pre style="margin: 0;">+<span id="LC736" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">protocol_options</span></span>
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647
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737
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<pre style="margin: 0;"> <span id="LC737" class="line" lang="python"> <span class="p">)</span></span>
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648
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738
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<pre style="margin: 0;"> <span id="LC738" class="line" lang="python"></span>
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649
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<pre style="margin: 0;">-<span id="LC649" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;"><span class="idiff left">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">'directftp'</span></span><span class="p">:</span></span>
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739
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<pre style="margin: 0;">+<span id="LC739" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="ow" style="font-weight: 600;"><span class="idiff left">in</span></span><span class="idiff"> </span><span class="p"><span class="idiff">[</span></span><span class="s" style="color: #d14;"><span class="idiff">'directftp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directftps'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="p"><span class="idiff right">]</span>:</span></span>
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650
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740
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<pre style="margin: 0;"> <span id="LC740" class="line" lang="python"> <span class="n" style="color: #333;">release_downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">set_files_to_download</span><span class="p">(</span><span class="n" style="color: #333;">remotes</span><span class="p">)</span></span>
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741
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<pre style="margin: 0;"> <span id="LC741" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># """"""""""""""""""""""""</span></span>
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742
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<pre style="margin: 0;"> <span id="LC742" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="774" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -684,10 +774,13 @@ class UpdateWorkflow(Workflow):</td>
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<pre style="margin: 0;"> <span id="LC774" class="line" lang="python"> <span class="n" style="color: #333;">tmp_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">tempfile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">mkdtemp</span><span class="p">(</span><span class="s" style="color: #d14;">'biomaj'</span><span class="p">)</span></span>
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775
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<pre style="margin: 0;"> <span id="LC775" class="line" lang="python"> <span class="n" style="color: #333;">rel_files</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">release_downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">download</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span><span class="p">)</span></span>
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686
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776
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<pre style="margin: 0;"> <span id="LC776" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">None</span></span>
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777
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<pre style="margin: 0;">+<span id="LC777" class="line" lang="python"> <span class="n" style="color: #333;">rel_file_name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rel_files</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="s" style="color: #d14;">'name'</span><span class="p">]</span></span>
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778
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<pre style="margin: 0;">+<span id="LC778" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="s" style="color: #d14;">'save_as'</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">rel_files</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="ow" style="font-weight: 600;">and</span> <span class="n" style="color: #333;">rel_files</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="s" style="color: #d14;">'save_as'</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC779" class="line" lang="python"> <span class="n" style="color: #333;">rel_file_name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rel_files</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">][</span><span class="s" style="color: #d14;">'save_as'</span><span class="p">]</span></span>
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687
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780
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<pre style="margin: 0;"> <span id="LC780" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">version_info</span> <span class="o" style="font-weight: 600;">></span> <span class="p">(</span><span class="mi" style="color: #099;">3</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">)):</span></span>
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688
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<pre style="margin: 0;">-<span id="LC688" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">rel_file<span class="idiff left">s</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">][</span></span><span class="s" style="color: #d14;"><span class="idiff">'name'</span></span><span class="p"><span class="idiff">],</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">encoding</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="s" style="color: #d14;"><span class="idiff right">'utf-8</span>'</span><span class="p">)</span></span>
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781
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<pre style="margin: 0;">+<span id="LC781" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">rel_file<span class="idiff left">_name</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">encoding</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="s" style="color: #d14;"><span class="idiff">'utf-8'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">errors</span></span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="s" style="color: #d14;"><span class="idiff right">'ignore</span>'</span><span class="p">)</span></span>
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689
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782
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<pre style="margin: 0;"> <span id="LC782" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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690
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<pre style="margin: 0;">-<span id="LC690" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">rel_file<span class="idiff left">s</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">][</span></span><span class="s" style="color: #d14;"><span class="idiff">'name'</span></span><span class="p"><span class="idiff right">]</span>)</span></span>
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783
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<pre style="margin: 0;">+<span id="LC783" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'/'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">rel_file<span class="idiff left right">_name</span></span><span class="p">)</span></span>
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691
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784
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<pre style="margin: 0;"> <span id="LC784" class="line" lang="python"> <span class="n" style="color: #333;">rel_content</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rel_file</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">read</span><span class="p">()</span></span>
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692
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785
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<pre style="margin: 0;"> <span id="LC785" class="line" lang="python"> <span class="n" style="color: #333;">rel_file</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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693
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786
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<pre style="margin: 0;"> <span id="LC786" class="line" lang="python"> <span class="n" style="color: #333;">shutil</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">rmtree</span><span class="p">(</span><span class="n" style="color: #333;">tmp_dir</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="696" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="789" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -696,11 +789,18 @@ class UpdateWorkflow(Workflow):</td>
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696
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789
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<pre style="margin: 0;"> <span id="LC789" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'release.regexp defined but does not match any file content'</span><span class="p">)</span></span>
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697
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790
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<pre style="margin: 0;"> <span id="LC790" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_close_download_service</span><span class="p">(</span><span class="n" style="color: #333;">dserv</span><span class="p">)</span></span>
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698
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791
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<pre style="margin: 0;"> <span id="LC791" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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792
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<pre style="margin: 0;">+<span id="LC792" class="line" lang="python"> <span class="n" style="color: #333;">rels</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">re</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">findall</span><span class="p">(</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release.regexp'</span><span class="p">),</span> <span class="n" style="color: #333;">rel_content</span><span class="p">)</span></span>
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793
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<pre style="margin: 0;">+<span id="LC793" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">rels</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">:</span></span>
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794
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<pre style="margin: 0;">+<span id="LC794" class="line" lang="python"> <span class="n" style="color: #333;">release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rels</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span></span>
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795
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<pre style="margin: 0;">+<span id="LC795" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC796" class="line" lang="python"> <span class="n" style="color: #333;">release</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">__findLastRelease</span><span class="p">(</span><span class="n" style="color: #333;">rels</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC797" class="line" lang="python"> <span class="s" style="color: #d14;">'''</span></span>
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798
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<pre style="margin: 0;"> <span id="LC798" class="line" lang="python"><span class="s" style="color: #d14;"> # If regexp contains matching group, else take whole match</span></span>
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700
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799
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<pre style="margin: 0;"> <span id="LC799" class="line" lang="python"><span class="s" style="color: #d14;"> if len(rel.groups()) > 0:</span></span>
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800
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<pre style="margin: 0;"> <span id="LC800" class="line" lang="python"><span class="s" style="color: #d14;"> release = rel.group(1)</span></span>
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801
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<pre style="margin: 0;"> <span id="LC801" class="line" lang="python"><span class="s" style="color: #d14;"> else:</span></span>
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703
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802
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<pre style="margin: 0;"> <span id="LC802" class="line" lang="python"><span class="s" style="color: #d14;"> release = rel.group(0)</span></span>
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803
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<pre style="margin: 0;">+<span id="LC803" class="line" lang="python"><span class="s" style="color: #d14;"> '''</span></span>
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804
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<pre style="margin: 0;"> <span id="LC804" class="line" lang="python"></span>
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705
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805
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<pre style="margin: 0;"> <span id="LC805" class="line" lang="python"> <span class="n" style="color: #333;">release_downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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706
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806
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<pre style="margin: 0;"> <span id="LC806" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_close_download_service</span><span class="p">(</span><span class="n" style="color: #333;">dserv</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="974" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1074" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -974,6 +1074,7 @@ class UpdateWorkflow(Workflow):</td>
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1074
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<pre style="margin: 0;"> <span id="LC1074" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"Workflow:wf_download:DownloadSession:"</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">session</span><span class="p">))</span></span>
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1075
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<pre style="margin: 0;"> <span id="LC1075" class="line" lang="python"></span>
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976
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1076
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<pre style="margin: 0;"> <span id="LC1076" class="line" lang="python"> <span class="n" style="color: #333;">use_remote_list</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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1077
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<pre style="margin: 0;">+<span id="LC1077" class="line" lang="python"> <span class="n" style="color: #333;">use_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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977
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1078
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<pre style="margin: 0;"> <span id="LC1078" class="line" lang="python"></span>
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978
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1079
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<pre style="margin: 0;"> <span id="LC1079" class="line" lang="python"> <span class="n" style="color: #333;">http_parse</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">HTTPParse</span><span class="p">(</span></span>
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979
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1080
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<pre style="margin: 0;"> <span id="LC1080" class="line" lang="python"> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'http.parse.dir.line'</span><span class="p">),</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1058" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1058,6 +1159,19 @@ class UpdateWorkflow(Workflow):</td>
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1058
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1159
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<pre style="margin: 0;"> <span id="LC1159" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.file.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.name'</span><span class="p">):</span></span>
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1059
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1160
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<pre style="margin: 0;"> <span id="LC1160" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.file.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.name'</span><span class="p">)</span></span>
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1060
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1161
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<pre style="margin: 0;"> <span id="LC1161" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC1162" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Protocol options: as for params, a field contains the name</span></span>
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<pre style="margin: 0;">+<span id="LC1163" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># of the options (options.names) and the values are in another</span></span>
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1164
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<pre style="margin: 0;">+<span id="LC1164" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># field named options.<option_name>.</span></span>
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1165
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<pre style="margin: 0;">+<span id="LC1165" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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1166
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<pre style="margin: 0;">+<span id="LC1166" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.file.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.options.names'</span><span class="p">)</span></span>
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1167
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<pre style="margin: 0;">+<span id="LC1167" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">option_names</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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1168
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<pre style="margin: 0;">+<span id="LC1168" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_names</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">','</span><span class="p">)</span></span>
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1169
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<pre style="margin: 0;">+<span id="LC1169" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">option_name</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">option_names</span><span class="p">:</span></span>
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1170
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<pre style="margin: 0;">+<span id="LC1170" class="line" lang="python"> <span class="n" style="color: #333;">option_name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_name</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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1171
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<pre style="margin: 0;">+<span id="LC1171" class="line" lang="python"> <span class="n" style="color: #333;">param</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.file.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.options.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">option_name</span><span class="p">)</span></span>
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1172
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<pre style="margin: 0;">+<span id="LC1172" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="p">[</span><span class="n" style="color: #333;">option_name</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">param</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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1173
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<pre style="margin: 0;">+<span id="LC1173" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">"Protocol options: "</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">protocol_options</span><span class="p">))</span></span>
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1174
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<pre style="margin: 0;">+<span id="LC1174" class="line" lang="python"></span>
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1061
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1175
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<pre style="margin: 0;"> <span id="LC1175" class="line" lang="python"> <span class="n" style="color: #333;">subdownloader</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dserv</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_handler</span><span class="p">(</span></span>
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1062
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1176
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<pre style="margin: 0;"> <span id="LC1176" class="line" lang="python"> <span class="n" style="color: #333;">protocol</span><span class="p">,</span></span>
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1063
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1177
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<pre style="margin: 0;"> <span id="LC1177" class="line" lang="python"> <span class="n" style="color: #333;">server</span><span class="p">,</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1070,7 +1184,8 @@ class UpdateWorkflow(Workflow):</td>
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1070
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1184
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<pre style="margin: 0;"> <span id="LC1184" class="line" lang="python"> <span class="n" style="color: #333;">proxy_auth</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">proxy_auth</span><span class="p">,</span></span>
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1071
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1185
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<pre style="margin: 0;"> <span id="LC1185" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">save_as</span><span class="p">,</span></span>
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1072
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1186
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<pre style="margin: 0;"> <span id="LC1186" class="line" lang="python"> <span class="n" style="color: #333;">timeout_download</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'timeout.download'</span><span class="p">),</span></span>
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1073
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<pre style="margin: 0;">-<span id="LC1073" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC1187" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">(),</span></span>
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1188
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<pre style="margin: 0;">+<span id="LC1188" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">protocol_options</span></span>
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1074
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1189
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<pre style="margin: 0;"> <span id="LC1189" class="line" lang="python"> <span class="p">)</span></span>
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1075
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1190
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<pre style="margin: 0;"> <span id="LC1190" class="line" lang="python"> <span class="n" style="color: #333;">subdownloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">set_files_to_download</span><span class="p">(</span><span class="n" style="color: #333;">remotes</span><span class="p">)</span></span>
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1076
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1191
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<pre style="margin: 0;"> <span id="LC1191" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1094" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1209" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1094,7 +1209,7 @@ class UpdateWorkflow(Workflow):</td>
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1094
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1209
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<pre style="margin: 0;"> <span id="LC1209" class="line" lang="python"></span>
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1095
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1210
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<pre style="margin: 0;"> <span id="LC1210" class="line" lang="python"> <span class="n" style="color: #333;">remote_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.dir'</span><span class="p">)</span></span>
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1096
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1211
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<pre style="margin: 0;"> <span id="LC1211" class="line" lang="python"></span>
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1097
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<pre style="margin: 0;">-<span id="LC1097" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;"><span class="idiff left">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">'directftp'</span></span><span class="p">:</span></span>
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1212
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<pre style="margin: 0;">+<span id="LC1212" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="ow" style="font-weight: 600;"><span class="idiff left">in</span></span><span class="idiff"> </span><span class="p"><span class="idiff">[</span></span><span class="s" style="color: #d14;"><span class="idiff">'directftp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directftps'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="p"><span class="idiff right">]</span>:</span></span>
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1098
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1213
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<pre style="margin: 0;"> <span id="LC1213" class="line" lang="python"> <span class="n" style="color: #333;">keys</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'url.params'</span><span class="p">)</span></span>
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1099
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1214
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<pre style="margin: 0;"> <span id="LC1214" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">keys</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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1100
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1215
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<pre style="margin: 0;"> <span id="LC1215" class="line" lang="python"> <span class="n" style="color: #333;">params</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1120" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -1120,6 +1235,19 @@ class UpdateWorkflow(Workflow):</td>
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1120
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1235
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<pre style="margin: 0;"> <span id="LC1235" class="line" lang="python"></span>
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1121
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1236
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<pre style="margin: 0;"> <span id="LC1236" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'target.name'</span><span class="p">)</span></span>
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1122
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1237
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<pre style="margin: 0;"> <span id="LC1237" class="line" lang="python"></span>
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1238
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<pre style="margin: 0;">+<span id="LC1238" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Protocol options: as for params, a field contains the name</span></span>
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1239
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<pre style="margin: 0;">+<span id="LC1239" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># of the options (options.names) and the values are in another</span></span>
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1240
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<pre style="margin: 0;">+<span id="LC1240" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># field named options.<option_name>.</span></span>
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1241
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<pre style="margin: 0;">+<span id="LC1241" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{}</span></span>
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1242
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<pre style="margin: 0;">+<span id="LC1242" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'options.names'</span><span class="p">)</span></span>
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1243
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<pre style="margin: 0;">+<span id="LC1243" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">option_names</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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1244
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<pre style="margin: 0;">+<span id="LC1244" class="line" lang="python"> <span class="n" style="color: #333;">option_names</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_names</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(</span><span class="s" style="color: #d14;">','</span><span class="p">)</span></span>
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1245
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<pre style="margin: 0;">+<span id="LC1245" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">option_name</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">option_names</span><span class="p">:</span></span>
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1246
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<pre style="margin: 0;">+<span id="LC1246" class="line" lang="python"> <span class="n" style="color: #333;">option_name</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">option_name</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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1247
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<pre style="margin: 0;">+<span id="LC1247" class="line" lang="python"> <span class="n" style="color: #333;">param</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'options.'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">option_name</span><span class="p">)</span></span>
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1248
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<pre style="margin: 0;">+<span id="LC1248" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="p">[</span><span class="n" style="color: #333;">option_name</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">param</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">strip</span><span class="p">()</span></span>
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1249
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<pre style="margin: 0;">+<span id="LC1249" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">"Protocol options: "</span> <span class="o" style="font-weight: 600;">+</span> <span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">protocol_options</span><span class="p">))</span></span>
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1250
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<pre style="margin: 0;">+<span id="LC1250" class="line" lang="python"></span>
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1123
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1251
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<pre style="margin: 0;"> <span id="LC1251" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dserv</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_handler</span><span class="p">(</span></span>
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1124
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1252
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<pre style="margin: 0;"> <span id="LC1252" class="line" lang="python"> <span class="n" style="color: #333;">protocol</span><span class="p">,</span></span>
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1125
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1253
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<pre style="margin: 0;"> <span id="LC1253" class="line" lang="python"> <span class="n" style="color: #333;">server</span><span class="p">,</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1132" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1260" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1132,10 +1260,11 @@ class UpdateWorkflow(Workflow):</td>
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1132
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1260
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<pre style="margin: 0;"> <span id="LC1260" class="line" lang="python"> <span class="n" style="color: #333;">proxy_auth</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">proxy_auth</span><span class="p">,</span></span>
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1133
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1261
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<pre style="margin: 0;"> <span id="LC1261" class="line" lang="python"> <span class="n" style="color: #333;">save_as</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">save_as</span><span class="p">,</span></span>
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1134
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1262
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<pre style="margin: 0;"> <span id="LC1262" class="line" lang="python"> <span class="n" style="color: #333;">timeout_download</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'timeout.download'</span><span class="p">),</span></span>
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1135
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<pre style="margin: 0;">-<span id="LC1135" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">()</span></span>
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1263
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<pre style="margin: 0;">+<span id="LC1263" class="line" lang="python"> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_offline_directory</span><span class="p">(),</span></span>
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1264
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<pre style="margin: 0;">+<span id="LC1264" class="line" lang="python"> <span class="n" style="color: #333;">protocol_options</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">protocol_options</span></span>
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1136
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1265
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<pre style="margin: 0;"> <span id="LC1265" class="line" lang="python"> <span class="p">)</span></span>
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1137
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1266
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<pre style="margin: 0;"> <span id="LC1266" class="line" lang="python"></span>
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1138
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<pre style="margin: 0;">-<span id="LC1138" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;"><span class="idiff left">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="idiff"> </span><span class="ow" style="font-weight: 600;"><span class="idiff">or</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">protocol</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">==</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff right">'directftp'</span></span><span class="p">:</span></span>
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1267
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<pre style="margin: 0;">+<span id="LC1267" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">protocol</span> <span class="ow" style="font-weight: 600;"><span class="idiff left">in</span></span><span class="idiff"> </span><span class="p"><span class="idiff">[</span></span><span class="s" style="color: #d14;"><span class="idiff">'directftp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directftps'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttp'</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="s" style="color: #d14;"><span class="idiff">'directhttps'</span></span><span class="p"><span class="idiff right">]</span>:</span></span>
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1139
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1268
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<pre style="margin: 0;"> <span id="LC1268" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">set_files_to_download</span><span class="p">(</span><span class="n" style="color: #333;">remotes</span><span class="p">)</span></span>
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1140
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1269
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<pre style="margin: 0;"> <span id="LC1269" class="line" lang="python"></span>
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1141
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1270
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<pre style="margin: 0;"> <span id="LC1270" class="line" lang="python"> <span class="n" style="color: #333;">remote_list</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.list'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1144" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1273" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1144,6 +1273,13 @@ class UpdateWorkflow(Workflow):</td>
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1144
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1273
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<pre style="margin: 0;"> <span id="LC1273" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_get_list_from_file</span><span class="p">(</span><span class="n" style="color: #333;">remote_list</span><span class="p">)</span></span>
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1145
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1274
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<pre style="margin: 0;"> <span id="LC1274" class="line" lang="python"> <span class="n" style="color: #333;">use_remote_list</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">True</span></span>
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1146
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1275
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<pre style="margin: 0;"> <span id="LC1275" class="line" lang="python"></span>
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1276
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<pre style="margin: 0;">+<span id="LC1276" class="line" lang="python"> <span class="n" style="color: #333;">remote_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.plugin'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1277" 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">
1277
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<pre style="margin: 0;">+<span id="LC1277" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">remote_plugin</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1278" 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">
1278
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<pre style="margin: 0;">+<span id="LC1278" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"Use list from plugin </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">remote_plugin</span><span class="p">))</span></span>
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1279
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<pre style="margin: 0;">+<span id="LC1279" class="line" lang="python"> <span class="n" style="color: #333;">plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_get_plugin</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.plugin'</span><span class="p">),</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.plugin_args'</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1280" 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">
1280
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<pre style="margin: 0;">+<span id="LC1280" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">plugin</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">list</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">))</span></span>
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1281
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<pre style="margin: 0;">+<span id="LC1281" class="line" lang="python"> <span class="n" style="color: #333;">use_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">True</span></span>
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1282
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<pre style="margin: 0;">+<span id="LC1282" class="line" lang="python"></span>
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1147
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1283
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<pre style="margin: 0;"> <span id="LC1283" class="line" lang="python"> <span class="n" style="color: #333;">downloaders</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">append</span><span class="p">(</span><span class="n" style="color: #333;">downloader</span><span class="p">)</span></span>
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1148
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1284
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<pre style="margin: 0;"> <span id="LC1284" class="line" lang="python"></span>
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1149
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1285
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<pre style="margin: 0;"> <span id="LC1285" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_close_download_service</span><span class="p">(</span><span class="n" style="color: #333;">dserv</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1160" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1296" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1160,6 +1296,10 @@ class UpdateWorkflow(Workflow):</td>
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1160
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<td class="diff-line-num new_line" data-linenumber="1296" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1296
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<pre style="margin: 0;"> <span id="LC1296" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span><span class="p">:</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1161
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<td class="diff-line-num new_line" data-linenumber="1297" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1297
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<pre style="margin: 0;"> <span id="LC1297" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'remoterelease'</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span><span class="p">)</span></span>
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<td class="diff-line-num old_line" data-linenumber="1162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1162
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<td class="diff-line-num new_line" data-linenumber="1298" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1298
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<pre style="margin: 0;"> <span id="LC1298" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">no_need_to_update</span><span class="p">()</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1163" 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">
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<td class="diff-line-num new new_line" data-linenumber="1299" 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">
1299
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<pre style="margin: 0;">+<span id="LC1299" class="line" lang="python"> <span class="k" style="font-weight: 600;">elif</span> <span class="n" style="color: #333;">use_plugin</span><span class="p">:</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1163" 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">
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<td class="diff-line-num new new_line" data-linenumber="1300" 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">
1300
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<pre style="margin: 0;">+<span id="LC1300" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span><span class="p">:</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1163" 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">
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<td class="diff-line-num new new_line" data-linenumber="1301" 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">
1301
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<pre style="margin: 0;">+<span id="LC1301" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'remoterelease'</span><span class="p">,</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span><span class="p">)</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1163" 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">
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<td class="diff-line-num new new_line" data-linenumber="1302" 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">
1302
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<pre style="margin: 0;">+<span id="LC1302" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">no_need_to_update</span><span class="p">()</span></span>
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<td class="diff-line-num old_line" data-linenumber="1163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1163
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<td class="diff-line-num new_line" data-linenumber="1303" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1303
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<pre style="margin: 0;"> <span id="LC1303" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num old_line" data-linenumber="1164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1164
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<td class="diff-line-num new_line" data-linenumber="1304" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1304
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<pre style="margin: 0;"> <span id="LC1304" class="line" lang="python"> <span class="p">(</span><span class="n" style="color: #333;">file_list</span><span class="p">,</span> <span class="n" style="color: #333;">dir_list</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">list</span><span class="p">()</span></span>
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<td class="diff-line-num old_line" data-linenumber="1165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1165
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<td class="diff-line-num new_line" data-linenumber="1305" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1305
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<pre style="margin: 0;"> <span id="LC1305" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">match</span><span class="p">(</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.files'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'.*'</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">(),</span> <span class="n" style="color: #333;">file_list</span><span class="p">,</span> <span class="n" style="color: #333;">dir_list</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1169" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1309" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1169,6 +1309,8 @@ class UpdateWorkflow(Workflow):</td>
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<td class="diff-line-num old_line" data-linenumber="1169" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1169
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<td class="diff-line-num new_line" data-linenumber="1309" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1309
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<pre style="margin: 0;"> <span id="LC1309" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="s" style="color: #d14;">'save_as'</span> <span class="ow" style="font-weight: 600;">not</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">f</span> <span class="ow" style="font-weight: 600;">or</span> <span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">f</span><span class="p">[</span><span class="s" style="color: #d14;">'save_as'</span><span class="p">]:</span></span>
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<td class="diff-line-num old_line" data-linenumber="1170" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1170
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<td class="diff-line-num new_line" data-linenumber="1310" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1310
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<pre style="margin: 0;"> <span id="LC1310" class="line" lang="python"> <span class="n" style="color: #333;">f</span><span class="p">[</span><span class="s" style="color: #d14;">'save_as'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">f</span><span class="p">[</span><span class="s" style="color: #d14;">'name'</span><span class="p">]</span></span>
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<td class="diff-line-num old_line" data-linenumber="1171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1171
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<td class="diff-line-num new_line" data-linenumber="1311" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1311
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<pre style="margin: 0;"> <span id="LC1311" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">p</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.files'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="s" style="color: #d14;">'.*'</span><span class="p">)</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">split</span><span class="p">():</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1172" 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">
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<td class="diff-line-num new new_line" data-linenumber="1312" 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">
1312
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<pre style="margin: 0;">+<span id="LC1312" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'.*'</span> <span class="ow" style="font-weight: 600;">or</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">'**/*'</span><span class="p">:</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1172" 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">
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<td class="diff-line-num new new_line" data-linenumber="1313" 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">
1313
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<pre style="margin: 0;">+<span id="LC1313" class="line" lang="python"> <span class="k" style="font-weight: 600;">continue</span></span>
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<td class="diff-line-num old_line" data-linenumber="1172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1172
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<td class="diff-line-num new_line" data-linenumber="1314" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1314
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<pre style="margin: 0;"> <span id="LC1314" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">startswith</span><span class="p">(</span><span class="s" style="color: #d14;">'^'</span><span class="p">):</span></span>
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<td class="diff-line-num old_line" data-linenumber="1173" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1173
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<td class="diff-line-num new_line" data-linenumber="1315" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1315
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<pre style="margin: 0;"> <span id="LC1315" class="line" lang="python"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">replace</span><span class="p">(</span><span class="s" style="color: #d14;">'^'</span><span class="p">,</span> <span class="s" style="color: #d14;">'^/'</span><span class="p">)</span></span>
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1174
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1316
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<pre style="margin: 0;"> <span id="LC1316" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1183" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1325" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1183,7 +1325,6 @@ class UpdateWorkflow(Workflow):</td>
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1183
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1325
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<pre style="margin: 0;"> <span id="LC1325" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'download_files'</span><span class="p">,</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span><span class="p">)</span></span>
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1184
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1326
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<pre style="margin: 0;"> <span id="LC1326" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_session</span><span class="p">[</span><span class="s" style="color: #d14;">'stats'</span><span class="p">][</span><span class="s" style="color: #d14;">'nb_downloaded_files'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">files_to_download</span><span class="p">)</span></span>
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<td class="diff-line-num old_line" data-linenumber="1185" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1185
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<td class="diff-line-num new_line" data-linenumber="1327" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1327
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<pre style="margin: 0;"> <span id="LC1327" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_download:nb_files_to_download:</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">d'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="n" style="color: #333;">files_to_download</span><span class="p">)))</span></span>
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1186
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<td class="diff-line-num new_line old" data-linenumber="1328" 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="LC1186" class="line" lang="python"></span>
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1187
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1328
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<pre style="margin: 0;"> <span id="LC1328" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">and</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_bool</span><span class="p">(</span><span class="s" style="color: #d14;">'release.control'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">):</span></span>
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1188
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1329
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<pre style="margin: 0;"> <span id="LC1329" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">previous_release</span> <span class="o" style="font-weight: 600;">==</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remoterelease'</span><span class="p">):</span></span>
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<td class="diff-line-num old_line" data-linenumber="1189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1189
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1330
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<pre style="margin: 0;"> <span id="LC1330" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">is_previous_release_content_identical</span><span class="p">():</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1334" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1475" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1334,7 +1475,10 @@ class UpdateWorkflow(Workflow):</td>
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1334
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1475
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<pre style="margin: 0;"> <span id="LC1475" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">debug</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_download:Copy files from '</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">last_production_dir</span><span class="p">)</span></span>
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<td class="diff-line-num old_line" data-linenumber="1335" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1335
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<td class="diff-line-num new_line" data-linenumber="1476" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1476
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<pre style="margin: 0;"> <span id="LC1476" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">downloader</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">downloaders</span><span class="p">:</span></span>
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1336
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1477
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<pre style="margin: 0;"> <span id="LC1477" class="line" lang="python"> <span class="n" style="color: #333;">copied_files</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_copy</span></span>
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1337
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<pre style="margin: 0;">-<span id="LC1337" class="line" lang="python"> <span class="n" style="color: #333;">Utils</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">copy_files</span><span class="p">(</span><span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_copy</span><span class="p">,</span> <span class="n" style="color: #333;">offline_dir</span><span class="p">)</span></span>
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1478
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<pre style="margin: 0;">+<span id="LC1478" class="line" lang="python"> <span class="n" style="color: #333;">Utils</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">copy_files</span><span class="p">(</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1479" 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">
1479
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<pre style="margin: 0;">+<span id="LC1479" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_copy</span><span class="p">,</span> <span class="n" style="color: #333;">offline_dir</span><span class="p">,</span></span>
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1480
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<pre style="margin: 0;">+<span id="LC1480" class="line" lang="python"> <span class="n" style="color: #333;">use_hardlinks</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_bool</span><span class="p">(</span><span class="s" style="color: #d14;">'use_hardlinks'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">False</span><span class="p">)</span></span>
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1481
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<pre style="margin: 0;">+<span id="LC1481" class="line" lang="python"> <span class="p">)</span></span>
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1482
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<pre style="margin: 0;"> <span id="LC1482" class="line" lang="python"></span>
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1339
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1483
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<pre style="margin: 0;"> <span id="LC1483" class="line" lang="python"> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">close</span><span class="p">()</span></span>
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1340
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1484
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<pre style="margin: 0;"> <span id="LC1484" class="line" lang="python"></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1496" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1352,7 +1496,7 @@ class UpdateWorkflow(Workflow):</td>
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1352
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1496
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<pre style="margin: 0;"> <span id="LC1496" class="line" lang="python"> <span class="n" style="color: #333;">redis_prefix</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">redis_prefix</span></span>
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1353
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1497
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<pre style="margin: 0;"> <span id="LC1497" class="line" lang="python"> <span class="p">)</span></span>
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1354
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1498
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<pre style="margin: 0;"> <span id="LC1498" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">pool_size</span><span class="p">:</span></span>
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1355
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<pre style="margin: 0;">-<span id="LC1355" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;"><span class="idiff left right">debug</span></span><span class="p">(</span><span class="s" style="color: #d14;">'Set rate limiting: </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">pool_size</span><span class="p">)))</span></span>
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1499
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<pre style="margin: 0;">+<span id="LC1499" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;"><span class="idiff left right">info</span></span><span class="p">(</span><span class="s" style="color: #d14;">'Set rate limiting: </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="nb" style="color: #0086b3;">str</span><span class="p">(</span><span class="n" style="color: #333;">pool_size</span><span class="p">)))</span></span>
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1356
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1500
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<pre style="margin: 0;"> <span id="LC1500" class="line" lang="python"> <span class="n" style="color: #333;">dserv</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">set_rate_limiting</span><span class="p">(</span><span class="nb" style="color: #0086b3;">int</span><span class="p">(</span><span class="n" style="color: #333;">pool_size</span><span class="p">))</span></span>
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1357
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1501
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<pre style="margin: 0;"> <span id="LC1501" class="line" lang="python"></span>
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1358
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1502
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<pre style="margin: 0;"> <span id="LC1502" class="line" lang="python"> <span class="k" style="font-weight: 600;">else</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1376" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1520" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1376,6 +1520,7 @@ class UpdateWorkflow(Workflow):</td>
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1376
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1520
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<pre style="margin: 0;"> <span id="LC1520" class="line" lang="python"> <span class="n" style="color: #333;">message</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">bank</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span></span>
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1377
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<td class="diff-line-num new_line" data-linenumber="1521" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1521
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<pre style="margin: 0;"> <span id="LC1521" class="line" lang="python"> <span class="n" style="color: #333;">message</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">session</span></span>
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<td class="diff-line-num old_line" data-linenumber="1378" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1378
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<td class="diff-line-num new_line" data-linenumber="1522" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1522
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<pre style="margin: 0;"> <span id="LC1522" class="line" lang="python"> <span class="n" style="color: #333;">message</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">local_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">offline_dir</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1379" 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">
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<td class="diff-line-num new new_line" data-linenumber="1523" 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">
1523
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<pre style="margin: 0;">+<span id="LC1523" class="line" lang="python"> <span class="n" style="color: #333;">message</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">protocol_options</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">(</span><span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">protocol_options</span><span class="p">)</span></span>
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1379
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1524
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<pre style="margin: 0;"> <span id="LC1524" class="line" lang="python"> <span class="n" style="color: #333;">remote_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">downmessage_pb2</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">DownloadFile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">RemoteFile</span><span class="p">()</span></span>
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1380
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1525
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<pre style="margin: 0;"> <span id="LC1525" class="line" lang="python"> <span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">protocol</span></span>
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1381
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1526
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<pre style="margin: 0;"> <span id="LC1526" class="line" lang="python"> <span class="n" style="color: #333;">remote_file</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">protocol</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">downmessage_pb2</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">DownloadFile</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Protocol</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">Value</span><span class="p">(</span><span class="n" style="color: #333;">protocol</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">upper</span><span class="p">())</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1452" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1597" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1452,6 +1597,19 @@ class UpdateWorkflow(Workflow):</td>
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1452
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1597
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<pre style="margin: 0;"> <span id="LC1597" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"Workflow:wf_download:Download:Waiting"</span><span class="p">)</span></span>
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1453
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1598
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<pre style="margin: 0;"> <span id="LC1598" class="line" lang="python"> <span class="n" style="color: #333;">download_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">False</span></span>
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1454
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1599
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<pre style="margin: 0;"> <span id="LC1599" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1600" 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">
1600
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<pre style="margin: 0;">+<span id="LC1600" class="line" lang="python"> <span class="n" style="color: #333;">download_plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cf</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'download.plugin'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="bp" style="color: #999;">None</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1601" 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">
1601
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<pre style="margin: 0;">+<span id="LC1601" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">download_plugin</span> <span class="ow" style="font-weight: 600;">is</span> <span class="ow" style="font-weight: 600;">not</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1602" 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">
1602
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<pre style="margin: 0;">+<span id="LC1602" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">downloaded_files</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">copied_files</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1603" 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">
1603
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<pre style="margin: 0;">+<span id="LC1603" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">"Use download from plugin </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">download_plugin</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1604" 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">
1604
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<pre style="margin: 0;">+<span id="LC1604" class="line" lang="python"> <span class="n" style="color: #333;">plugin</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_get_plugin</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'download.plugin'</span><span class="p">),</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.plugin_args'</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1605" 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">
1605
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<pre style="margin: 0;">+<span id="LC1605" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="ow" style="font-weight: 600;">not</span> <span class="nb" style="color: #0086b3;">hasattr</span><span class="p">(</span><span class="n" style="color: #333;">plugin</span><span class="p">,</span> <span class="s" style="color: #d14;">'download'</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1606" 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">
1606
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<pre style="margin: 0;">+<span id="LC1606" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_download:Plugin:</span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s:Error: plugin does not have a download method'</span> <span class="o" style="font-weight: 600;">%</span> <span class="p">(</span><span class="n" style="color: #333;">download_plugin</span><span class="p">))</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1607" 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">
1607
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<pre style="margin: 0;">+<span id="LC1607" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1608" 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">
1608
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<pre style="margin: 0;">+<span id="LC1608" class="line" lang="python"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">plugin</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">download</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">),</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span><span class="p">,</span> <span class="n" style="color: #333;">offline_dir</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">offline_dir</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1609" 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">
1609
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<pre style="margin: 0;">+<span id="LC1609" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_close_download_service</span><span class="p">(</span><span class="n" style="color: #333;">dserv</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1610" 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">
1610
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<pre style="margin: 0;">+<span id="LC1610" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">downloaded_files</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">downloader</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">files_to_download</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1611" 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">
1611
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<pre style="margin: 0;">+<span id="LC1611" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">res</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1612" 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">
1612
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<pre style="margin: 0;">+<span id="LC1612" class="line" lang="python"></span>
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1455
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<td class="diff-line-num new_line" data-linenumber="1613" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1613
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<pre style="margin: 0;"> <span id="LC1613" class="line" lang="python"> <span class="n" style="color: #333;">download_error</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dserv</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">wait_for_download</span><span class="p">()</span></span>
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1456
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1614
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<pre style="margin: 0;"> <span id="LC1614" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">Exception</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">e</span><span class="p">:</span></span>
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1457
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<td class="diff-line-num new_line" data-linenumber="1615" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1615
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<pre style="margin: 0;"> <span id="LC1615" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_close_download_service</span><span class="p">(</span><span class="n" style="color: #333;">dserv</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1561" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1719" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1561,7 +1719,7 @@ class UpdateWorkflow(Workflow):</td>
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1561
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1719
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<pre style="margin: 0;"> <span id="LC1719" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_release_directory</span><span class="p">(),</span></span>
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1562
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1720
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<pre style="margin: 0;"> <span id="LC1720" class="line" lang="python"> <span class="s" style="color: #d14;">'flat'</span></span>
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1563
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1721
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<pre style="margin: 0;"> <span id="LC1721" class="line" lang="python"> <span class="p">)</span></span>
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1564
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<pre style="margin: 0;">-<span id="LC1564" class="line" lang="python"></span>
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1722
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<pre style="margin: 0;">+<span id="LC1722" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># We use move=True so there is no need to try to use hardlinks here</span></span>
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1565
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1723
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<pre style="margin: 0;"> <span id="LC1723" class="line" lang="python"> <span class="n" style="color: #333;">local_files</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Utils</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">copy_files_with_regexp</span><span class="p">(</span><span class="n" style="color: #333;">from_dir</span><span class="p">,</span> <span class="n" style="color: #333;">to_dir</span><span class="p">,</span> <span class="n" style="color: #333;">regexp</span><span class="p">,</span> <span class="bp" style="color: #999;">True</span><span class="p">)</span></span>
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1566
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1724
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<pre style="margin: 0;"> <span id="LC1724" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_session</span><span class="p">[</span><span class="s" style="color: #d14;">'files'</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">local_files</span></span>
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1567
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1725
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<pre style="margin: 0;"> <span id="LC1725" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="nb" style="color: #0086b3;">len</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">_session</span><span class="p">[</span><span class="s" style="color: #d14;">'files'</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">:</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1829" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1987" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1829,3 +1987,43 @@ class ReleaseCheckWorkflow(UpdateWorkflow):</td>
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1829
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1987
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<pre style="margin: 0;"> <span id="LC1987" class="line" lang="python"></span>
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1830
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1988
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<pre style="margin: 0;"> <span id="LC1988" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">wf_progress</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">task</span><span class="p">,</span> <span class="n" style="color: #333;">status</span><span class="p">):</span></span>
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1831
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<td class="diff-line-num new_line" data-linenumber="1989" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1989
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<pre style="margin: 0;"> <span id="LC1989" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span></span>
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1990
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<pre style="margin: 0;">+<span id="LC1990" class="line" lang="python"></span>
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1991
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<pre style="margin: 0;">+<span id="LC1991" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="1992" 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">
1992
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<pre style="margin: 0;">+<span id="LC1992" class="line" lang="python"><span class="k" style="font-weight: 600;">class</span> <span class="nc" style="color: #458; font-weight: 600;">RepairWorkflow</span><span class="p">(</span><span class="n" style="color: #333;">UpdateWorkflow</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1993" 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">
1993
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<pre style="margin: 0;">+<span id="LC1993" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1994" 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">
1994
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<pre style="margin: 0;">+<span id="LC1994" class="line" lang="python"><span class="s" style="color: #d14;"> Workflow to repaire a bank i.e. unlock bank and set all steps to OK (after a manual repair for example)</span></span>
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1995
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<pre style="margin: 0;">+<span id="LC1995" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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1996
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<pre style="margin: 0;">+<span id="LC1996" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="1997" 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">
1997
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<pre style="margin: 0;">+<span id="LC1997" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">__init__</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bank</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1998" 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">
1998
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<pre style="margin: 0;">+<span id="LC1998" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1999" 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">
1999
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<pre style="margin: 0;">+<span id="LC1999" class="line" lang="python"><span class="s" style="color: #d14;"> Instantiate a new workflow</span></span>
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2000
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<pre style="margin: 0;">+<span id="LC2000" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="2001" 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">
2001
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<pre style="margin: 0;">+<span id="LC2001" class="line" lang="python"><span class="s" style="color: #d14;"> :param bank: bank on which to apply the workflow</span></span>
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2002
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<pre style="margin: 0;">+<span id="LC2002" class="line" lang="python"><span class="s" style="color: #d14;"> :type bank: Bank</span></span>
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2003
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<pre style="margin: 0;">+<span id="LC2003" class="line" lang="python"><span class="s" style="color: #d14;"> :param session: session to remove</span></span>
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2004
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<pre style="margin: 0;">+<span id="LC2004" class="line" lang="python"><span class="s" style="color: #d14;"> :type session: :class:`biomaj.session.Session`</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2005" 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">
2005
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<pre style="margin: 0;">+<span id="LC2005" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2006" 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">
2006
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<pre style="margin: 0;">+<span id="LC2006" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">wf_unlock</span><span class="p">(</span><span class="n" style="color: #333;">bank</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2007" 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">
2007
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<pre style="margin: 0;">+<span id="LC2007" class="line" lang="python"> <span class="n" style="color: #333;">UpdateWorkflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">__init__</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bank</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2008" 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">
2008
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<pre style="margin: 0;">+<span id="LC2008" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">skip_all</span> <span class="o" style="font-weight: 600;">=</span> <span class="bp" style="color: #999;">True</span></span>
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2009
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<pre style="margin: 0;">+<span id="LC2009" class="line" lang="python"></span>
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<td class="diff-line-num new new_line" data-linenumber="2010" 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">
2010
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<pre style="margin: 0;">+<span id="LC2010" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">wf_unlock</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">,</span> <span class="n" style="color: #333;">bank</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2011" 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">
2011
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<pre style="margin: 0;">+<span id="LC2011" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="s" style="color: #d14;">'Workflow:wf_unlock'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2012" 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">
2012
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<pre style="margin: 0;">+<span id="LC2012" class="line" lang="python"> <span class="n" style="color: #333;">data_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'data.dir'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2013" 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">
2013
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<pre style="margin: 0;">+<span id="LC2013" class="line" lang="python"> <span class="n" style="color: #333;">lock_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'lock.dir'</span><span class="p">,</span> <span class="n" style="color: #333;">default</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">data_dir</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2014" 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">
2014
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<pre style="margin: 0;">+<span id="LC2014" class="line" lang="python"> <span class="n" style="color: #333;">lock_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">lock_dir</span><span class="p">,</span> <span class="n" style="color: #333;">bank</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'.lock'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2015" 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">
2015
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<pre style="margin: 0;">+<span id="LC2015" class="line" lang="python"> <span class="n" style="color: #333;">maintenance_lock_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">lock_dir</span><span class="p">,</span> <span class="s" style="color: #d14;">'biomaj.lock'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2016" 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">
2016
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<pre style="margin: 0;">+<span id="LC2016" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exists</span><span class="p">(</span><span class="n" style="color: #333;">maintenance_lock_file</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2017" 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">
2017
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<pre style="margin: 0;">+<span id="LC2017" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">error</span><span class="p">(</span><span class="s" style="color: #d14;">'Biomaj is in maintenance'</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2018" 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">
2018
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<pre style="margin: 0;">+<span id="LC2018" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">False</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2019" 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">
2019
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<pre style="margin: 0;">+<span id="LC2019" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exists</span><span class="p">(</span><span class="n" style="color: #333;">lock_file</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2020" 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">
2020
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<pre style="margin: 0;">+<span id="LC2020" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">lock_file</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2021" 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">
2021
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<pre style="margin: 0;">+<span id="LC2021" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">True</span></span>
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<td class="diff-line-num new new_line" data-linenumber="2022" 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">
2022
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<pre style="margin: 0;">+<span id="LC2022" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC2023" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">start</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC2024" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'release'</span><span class="p">)</span> <span class="ow" style="font-weight: 600;">is</span> <span class="bp" style="color: #999;">None</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC2025" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">warn</span><span class="p">(</span><span class="s" style="color: #d14;">'cannot repair bank, no known release'</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC2026" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">True</span></span>
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<pre style="margin: 0;">+<span id="LC2027" class="line" lang="python"> <span class="n" style="color: #333;">Workflow</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">start</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC2028" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">wf_over</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC2029" class="line" lang="python"> <span class="k" style="font-weight: 600;">return</span> <span class="bp" style="color: #999;">True</span></span></pre>
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<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#df5a4730e21738e9ac0435c9a2d469643e0fad87"><strong>config.yml</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="yaml"><span class="na" style="color: #008080;">biomaj</span><span class="pi">:</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="yaml"> <span class="na" style="color: #008080;">global_properties</span><span class="pi">:</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">/<span class="idiff left right">pasteur/services/policy01/banques/biomaj3</span>/global.properties'</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="yaml"> <span class="na" style="color: #008080;">global_properties</span><span class="pi">:</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">/<span class="idiff left right">etc/biomaj</span>/global.properties'</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="yaml"></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="yaml"><span class="na" style="color: #008080;">rabbitmq</span><span class="pi">:</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="yaml"> <span class="na" style="color: #008080;">host</span><span class="pi">:</span> <span class="s1" style="color: #d14;">'</span><span class="s" style="color: #d14;">127.0.0.1'</span></span>
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<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">biomaj3 (3.1.14-1) unstable; 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"> * New upstream release </span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> -- Olivier Sallou <osallou@debian.org> Tue, 12 Nov 2019 10:29:09 +0000</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">biomaj3 (3.1.8-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> * New upstream release </span>
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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">@@ -29,9 +29,9 @@ Architecture: all</td>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext">Depends: ${misc:Depends},</span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> ${python3:Depends},</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> unzip</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext">Recommends: ${python3:Recommends},</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="plaintext"> python3-biomaj3-cli</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext">Recommends: ${python3:Recommends}</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext">Suggests: ${python3:Suggests},</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"> python3-biomaj3-cli,</span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> python3-gunicorn,</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"> mongodb,</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"> redis-server</span>
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<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#ba6c57ef27e0fe355f18a348b98d1e03fbc131a9"><strong>global.properties.example</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">@@ -31,6 +31,17 @@ redis.port=6379</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext">redis.db=0</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext">redis.prefix=biomaj</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext"># options to send to downloaders (protocol dependent)</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext"># options.names=option1,option2</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"># options.option1=value1</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"># options.option2=value2</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext">#</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext"># Example supported options for ftp/http</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext"># tcp_keepalive: number of seconds for curl keep alive (maps to curl option TCP_KEEPALIVE, TCP_KEEPINTVL and TCP_KEEPIDLE)</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext"># ssl_verifyhost: boolean, check or skips SSL host (maps to curl option SSL_VERIFYHOST)</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext"># ssl_verifypeer: boolean, SSL checks (maps to curl option SSL_VERIFYPEER)</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="plaintext"># ssl_server_cert: path to certificate (maps to curl option CAINFO).</span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext"># Influxdb configuration (optional)</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext"># User and db must be manually created in influxdb before use</span>
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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">@@ -102,6 +113,9 @@ bank.num.threads=4</td>
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="plaintext">#Number of threads to use for downloading and processing</span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="plaintext">files.num.threads=4</span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="plaintext">#Timeout for a download, in seconds (applies for each file, not for the whole downloads)</span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="plaintext">timeout.download=3600</span>
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="plaintext">#to keep more than one release increase this value</span>
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="plaintext">keep.old.version=0</span>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="plaintext"></span>
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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">@@ -136,6 +150,9 @@ ftp.active.mode=false</td>
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="plaintext"># Bank default access</span>
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="plaintext">visibility.default=public</span>
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="plaintext"># use hard links instead of copy</span>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="plaintext"># use_hardlinks=0</span>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="plaintext">[loggers]</span>
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="plaintext">keys = root, biomaj</span>
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="plaintext"></span>
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<li id="19359a61ae2446b51b549167b014da2fcf265768">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#19359a61ae2446b51b549167b014da2fcf265768"><strong>requirements.txt</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_core" rel="nofollow noreferrer noopener" target="_blank">biomaj_core</a></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_core" rel="nofollow noreferrer noopener" target="_blank">biomaj_core</a><span class="idiff left right">>=3.0.19</span></span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_user" rel="nofollow noreferrer noopener" target="_blank">biomaj_user</a></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_download" rel="nofollow noreferrer noopener" target="_blank">biomaj_download</a>>=3.<span class="idiff left right">0.2</span>0</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_download" rel="nofollow noreferrer noopener" target="_blank">biomaj_download</a>>=3.<span class="idiff left right">1.</span>0</span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_process" rel="nofollow noreferrer noopener" target="_blank">biomaj_process</a>>=3.0.12</span>
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5
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/biomaj_cli" rel="nofollow noreferrer noopener" target="_blank">biomaj_cli</a></span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/mock" rel="nofollow noreferrer noopener" target="_blank">mock</a></span>
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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">@@ -15,3 +15,4 @@ elasticsearch</td>
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15
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/requests" rel="nofollow noreferrer noopener" target="_blank">requests</a></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/redis" rel="nofollow noreferrer noopener" target="_blank">redis</a></span>
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17
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17
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/influxdb" rel="nofollow noreferrer noopener" target="_blank">influxdb</a></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"><a href="https://pypi.python.org/pypi/Yapsy" rel="nofollow noreferrer noopener" target="_blank">Yapsy</a>==1.12.2</span></pre>
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<li id="8e2edce0d507e1297474f25c00cae94258db38d8">
<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#8e2edce0d507e1297474f25c00cae94258db38d8"><strong>setup.py</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">@@ -31,11 +31,12 @@ except UnicodeDecodeError:</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="python"><span class="n" style="color: #333;">config</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="python"> <span class="s" style="color: #d14;">'description'</span><span class="p">:</span> <span class="s" style="color: #d14;">'BioMAJ'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="python"> <span class="s" style="color: #d14;">'long_description'</span><span class="p">:</span> <span class="n" style="color: #333;">README</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'</span><span class="se" style="color: #d14;">\n\n</span><span class="s" style="color: #d14;">'</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">CHANGES</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="python"> <span class="s" style="color: #d14;">'long_description_content_type'</span><span class="p">:</span> <span class="s" style="color: #d14;">'text/markdown'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="python"> <span class="s" style="color: #d14;">'author'</span><span class="p">:</span> <span class="s" style="color: #d14;">'Olivier Sallou'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="python"> <span class="s" style="color: #d14;">'url'</span><span class="p">:</span> <span class="s" style="color: #d14;">'http://biomaj.genouest.org'</span><span class="p">,</span></span>
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37
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="python"> <span class="s" style="color: #d14;">'download_url'</span><span class="p">:</span> <span class="s" style="color: #d14;">'http://biomaj.genouest.org'</span><span class="p">,</span></span>
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38
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="python"> <span class="s" style="color: #d14;">'author_email'</span><span class="p">:</span> <span class="s" style="color: #d14;">'olivier.sallou@irisa.fr'</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="python"> <span class="s" style="color: #d14;">'version'</span><span class="p">:</span> <span class="s" style="color: #d14;">'3.1.<span class="idiff left right">8</span>'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="python"> <span class="s" style="color: #d14;">'version'</span><span class="p">:</span> <span class="s" style="color: #d14;">'3.1.<span class="idiff left right">14</span>'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="python"> <span class="s" style="color: #d14;">'classifiers'</span><span class="p">:</span> <span class="p">[</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># How mature is this project? Common values are</span></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># 3 - Alpha</span></span>
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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">@@ -72,7 +73,8 @@ config = {</td>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="python"> <span class="s" style="color: #d14;">'requests'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="python"> <span class="s" style="color: #d14;">'redis'</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="python"> <span class="s" style="color: #d14;">'elasticsearch'</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="python"> <span class="s" style="color: #d14;">'influxdb'</span></span>
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="python"> <span class="s" style="color: #d14;">'influxdb'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="python"> <span class="s" style="color: #d14;">'Yapsy==1.12.2'</span></span>
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="python"> <span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="python"> <span class="s" style="color: #d14;">'tests_require'</span><span class="p">:</span> <span class="p">[</span><span class="s" style="color: #d14;">'nose'</span><span class="p">,</span> <span class="s" style="color: #d14;">'mock'</span><span class="p">],</span></span>
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="python"> <span class="s" style="color: #d14;">'test_suite'</span><span class="p">:</span> <span class="s" style="color: #d14;">'nose.collector'</span><span class="p">,</span></span>
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<a href="https://salsa.debian.org/med-team/biomaj3/compare/04403ed8b6c68d7e6fe930bb5d1e812014fea884...11a9fbb0c5c426e54e60d453a9e28b765fc51635#a5b5d0c7b9c558d9142a199ec517b633dd40faf5"><strong>tests/biomaj_tests.py</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">@@ -21,12 +21,6 @@ from biomaj.workflow import Workflow</td>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">UpdateWorkflow</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.workflow</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">ReleaseCheckWorkflow</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_core.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Utils</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.ftp</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">FTPDownload</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.direct</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DirectFTPDownload</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.direct</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DirectHttpDownload</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.http</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">HTTPDownload</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.localcopy</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">LocalDownload</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_download.download.downloadthreads</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">DownloadThread</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj_core.config</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">BiomajConfig</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.process.processfactory</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">PostProcessFactory</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">biomaj.process.processfactory</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">PreProcessFactory</span></span>
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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">@@ -103,7 +97,11 @@ class UtilsForTest():</td>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">chmod</span><span class="p">(</span><span class="n" style="color: #333;">to_file</span><span class="p">,</span> <span class="n" style="color: #333;">stat</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">S_IRWXU</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="python"></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Manage local bank test, use bank test subdir as remote</span></span>
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<pre style="margin: 0;">-<span id="LC106" class="line" lang="python"> <span class="n" style="color: #333;">properties</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="s" style="color: #d14;">'multi.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'computederror.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'error.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'local.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'localprocess.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'testhttp.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'computed.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'computed2.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'sub1.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'sub2.properties'</span><span class="p">]</span></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="python"> <span class="n" style="color: #333;">properties</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">[</span><span class="s" style="color: #d14;">'multi.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'computederror.properties'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="python"> <span class="s" style="color: #d14;">'error.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'local.properties'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="python"> <span class="s" style="color: #d14;">'localprocess.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'testhttp.properties'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="python"> <span class="s" style="color: #d14;">'computed.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'computed2.properties'</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="python"> <span class="s" style="color: #d14;">'sub1.properties'</span><span class="p">,</span> <span class="s" style="color: #d14;">'sub2.properties'</span><span class="p">]</span></span>
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">prop</span> <span class="ow" style="font-weight: 600;">in</span> <span class="n" style="color: #333;">properties</span><span class="p">:</span></span>
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="python"> <span class="n" style="color: #333;">from_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">curdir</span><span class="p">,</span> <span class="n" style="color: #333;">prop</span><span class="p">)</span></span>
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109
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<pre style="margin: 0;"> <span id="LC107" class="line" lang="python"> <span class="n" style="color: #333;">to_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">conf_dir</span><span class="p">,</span> <span class="n" style="color: #333;">prop</span><span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="421" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -421,6 +419,58 @@ class TestBiomajFunctional(unittest.TestCase):</td>
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419
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<pre style="margin: 0;"> <span id="LC419" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC420" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertTrue</span><span class="p">(</span><span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'update'</span><span class="p">))</span></span>
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<pre style="margin: 0;"> <span id="LC421" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC422" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_update_hardlinks</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC423" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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<pre style="margin: 0;">+<span id="LC424" class="line" lang="python"><span class="s" style="color: #d14;"> Update a bank twice with hard links. Files copied from previous release</span></span>
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<pre style="margin: 0;">+<span id="LC425" class="line" lang="python"><span class="s" style="color: #d14;"> must be links.</span></span>
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<pre style="margin: 0;">+<span id="LC426" class="line" lang="python"><span class="s" style="color: #d14;"> """</span></span>
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427
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<pre style="margin: 0;">+<span id="LC427" class="line" lang="python"> <span class="n" style="color: #333;">b</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Bank</span><span class="p">(</span><span class="s" style="color: #d14;">'local'</span><span class="p">)</span></span>
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428
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<pre style="margin: 0;">+<span id="LC428" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'keep.old.version'</span><span class="p">,</span> <span class="s" style="color: #d14;">'3'</span><span class="p">)</span></span>
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429
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<pre style="margin: 0;">+<span id="LC429" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">set</span><span class="p">(</span><span class="s" style="color: #d14;">'use_hardlinks'</span><span class="p">,</span> <span class="s" style="color: #d14;">'1'</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC430" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Create a file in bank dir (which is the source dir) so we can manipulate</span></span>
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<pre style="margin: 0;">+<span id="LC431" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># it. The pattern is taken into account by the bank configuration.</span></span>
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<pre style="margin: 0;">+<span id="LC432" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Note that this file is created in the source tree so we remove it after</span></span>
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433
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<pre style="margin: 0;">+<span id="LC433" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># or if this test fails in between.</span></span>
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<pre style="margin: 0;">+<span id="LC434" class="line" lang="python"> <span class="n" style="color: #333;">tmp_remote_file</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">config</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'remote.dir'</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">'test.safe_to_del'</span></span>
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<pre style="margin: 0;">+<span id="LC435" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exists</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC436" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">)</span></span>
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437
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<pre style="margin: 0;">+<span id="LC437" class="line" lang="python"> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">,</span> <span class="s" style="color: #d14;">"w"</span><span class="p">)</span></span>
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438
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<pre style="margin: 0;">+<span id="LC438" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># First update</span></span>
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439
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<pre style="margin: 0;">+<span id="LC439" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">()</span></span>
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440
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<pre style="margin: 0;">+<span id="LC440" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertTrue</span><span class="p">(</span><span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'update'</span><span class="p">))</span></span>
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441
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<pre style="margin: 0;">+<span id="LC441" class="line" lang="python"> <span class="n" style="color: #333;">old_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_full_release_directory</span><span class="p">()</span></span>
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442
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<pre style="margin: 0;">+<span id="LC442" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Touch tmp_remote_file to force update. We set the date to tomorrow so we</span></span>
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443
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<pre style="margin: 0;">+<span id="LC443" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># are sure that a new release will be detected.</span></span>
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<pre style="margin: 0;">+<span id="LC444" class="line" lang="python"> <span class="n" style="color: #333;">tomorrow</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">time</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">time</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">3660</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">24</span> <span class="c1" style="color: #998; font-style: italic;"># 3660s for safety (leap second, etc.)</span></span>
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<pre style="margin: 0;">+<span id="LC445" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">utime</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">tomorrow</span><span class="p">,</span> <span class="n" style="color: #333;">tomorrow</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC446" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Second update</span></span>
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<pre style="margin: 0;">+<span id="LC447" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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<pre style="margin: 0;">+<span id="LC448" class="line" lang="python"> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC449" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertTrue</span><span class="p">(</span><span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get</span><span class="p">(</span><span class="s" style="color: #d14;">'update'</span><span class="p">))</span></span>
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<pre style="margin: 0;">+<span id="LC450" class="line" lang="python"> <span class="n" style="color: #333;">new_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_full_release_directory</span><span class="p">()</span></span>
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<pre style="margin: 0;">+<span id="LC451" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Test that files in both releases are links to the the same file.</span></span>
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<pre style="margin: 0;">+<span id="LC452" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># We can't use tmp_remote_file because it's the source of update and we</span></span>
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<pre style="margin: 0;">+<span id="LC453" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># can't use test.fasta.gz because it is uncompressed and then not the</span></span>
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<pre style="margin: 0;">+<span id="LC454" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># same file.</span></span>
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<pre style="margin: 0;">+<span id="LC455" class="line" lang="python"> <span class="k" style="font-weight: 600;">for</span> <span class="n" style="color: #333;">f</span> <span class="ow" style="font-weight: 600;">in</span> <span class="p">[</span><span class="s" style="color: #d14;">'test2.fasta'</span><span class="p">,</span> <span class="s" style="color: #d14;">'test_100.txt'</span><span class="p">]:</span></span>
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<pre style="margin: 0;">+<span id="LC456" class="line" lang="python"> <span class="n" style="color: #333;">file_old_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">old_release</span><span class="p">,</span> <span class="s" style="color: #d14;">'flat'</span><span class="p">,</span> <span class="n" style="color: #333;">f</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC457" class="line" lang="python"> <span class="n" style="color: #333;">file_new_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">new_release</span><span class="p">,</span> <span class="s" style="color: #d14;">'flat'</span><span class="p">,</span> <span class="n" style="color: #333;">f</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC458" class="line" lang="python"> <span class="k" style="font-weight: 600;">try</span><span class="p">:</span></span>
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459
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<pre style="margin: 0;">+<span id="LC459" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertTrue</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">samefile</span><span class="p">(</span><span class="n" style="color: #333;">file_old_release</span><span class="p">,</span> <span class="n" style="color: #333;">file_new_release</span><span class="p">))</span></span>
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460
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<pre style="margin: 0;">+<span id="LC460" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">AssertionError</span><span class="p">:</span></span>
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461
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<pre style="margin: 0;">+<span id="LC461" class="line" lang="python"> <span class="n" style="color: #333;">msg</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"In </span><span class="si" style="color: #d14;">%</span><span class="s" style="color: #d14;">s: copy worked but hardlinks were not used."</span> <span class="o" style="font-weight: 600;">%</span> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="nb" style="color: #0086b3;">id</span><span class="p">()</span></span>
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462
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<pre style="margin: 0;">+<span id="LC462" class="line" lang="python"> <span class="n" style="color: #333;">logging</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">info</span><span class="p">(</span><span class="n" style="color: #333;">msg</span><span class="p">)</span></span>
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463
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<pre style="margin: 0;">+<span id="LC463" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Test that no links are done for tmp_remote_file</span></span>
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<pre style="margin: 0;">+<span id="LC464" class="line" lang="python"> <span class="n" style="color: #333;">file_old_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">old_release</span><span class="p">,</span> <span class="s" style="color: #d14;">'flat'</span><span class="p">,</span> <span class="s" style="color: #d14;">'test.safe_to_del'</span><span class="p">)</span></span>
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465
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<pre style="margin: 0;">+<span id="LC465" class="line" lang="python"> <span class="n" style="color: #333;">file_new_release</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">new_release</span><span class="p">,</span> <span class="s" style="color: #d14;">'flat'</span><span class="p">,</span> <span class="s" style="color: #d14;">'test.safe_to_del'</span><span class="p">)</span></span>
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466
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<pre style="margin: 0;">+<span id="LC466" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertFalse</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">samefile</span><span class="p">(</span><span class="n" style="color: #333;">file_old_release</span><span class="p">,</span> <span class="n" style="color: #333;">file_new_release</span><span class="p">))</span></span>
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467
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<pre style="margin: 0;">+<span id="LC467" class="line" lang="python"> <span class="k" style="font-weight: 600;">except</span> <span class="nb" style="color: #0086b3;">Exception</span><span class="p">:</span></span>
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468
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<pre style="margin: 0;">+<span id="LC468" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span></span>
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469
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<pre style="margin: 0;">+<span id="LC469" class="line" lang="python"> <span class="k" style="font-weight: 600;">finally</span><span class="p">:</span></span>
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470
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<pre style="margin: 0;">+<span id="LC470" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># Remove file</span></span>
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471
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<pre style="margin: 0;">+<span id="LC471" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">exists</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">):</span></span>
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472
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<pre style="margin: 0;">+<span id="LC472" class="line" lang="python"> <span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">remove</span><span class="p">(</span><span class="n" style="color: #333;">tmp_remote_file</span><span class="p">)</span></span>
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473
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<pre style="margin: 0;">+<span id="LC473" class="line" lang="python"> </span>
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<pre style="margin: 0;"> <span id="LC474" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_fromscratch_update</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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475
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<pre style="margin: 0;"> <span id="LC475" class="line" lang="python"> <span class="s" style="color: #d14;">"""</span></span>
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426
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476
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<pre style="margin: 0;"> <span id="LC476" class="line" lang="python"><span class="s" style="color: #d14;"> Try updating twice, at second time, bank should be updated (force with fromscratc)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="736" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
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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">@@ -736,6 +786,7 @@ class TestBiomajFunctional(unittest.TestCase):</td>
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786
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<pre style="margin: 0;"> <span id="LC786" class="line" lang="python"> <span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">test_multi</span><span class="p">(</span><span class="bp" style="color: #999;">self</span><span class="p">):</span></span>
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737
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787
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<pre style="margin: 0;"> <span id="LC787" class="line" lang="python"> <span class="n" style="color: #333;">b</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">Bank</span><span class="p">(</span><span class="s" style="color: #d14;">'multi'</span><span class="p">)</span></span>
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738
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788
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<pre style="margin: 0;"> <span id="LC788" class="line" lang="python"> <span class="n" style="color: #333;">res</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">update</span><span class="p">()</span></span>
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789
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<pre style="margin: 0;">+<span id="LC789" class="line" lang="python"> <span class="bp" style="color: #999;">self</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">assertTrue</span><span class="p">(</span><span class="n" style="color: #333;">res</span><span class="p">)</span></span>
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739
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790
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<pre style="margin: 0;"> <span id="LC790" class="line" lang="python"> <span class="k" style="font-weight: 600;">with</span> <span class="nb" style="color: #0086b3;">open</span><span class="p">(</span><span class="n" style="color: #333;">os</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">path</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">join</span><span class="p">(</span><span class="n" style="color: #333;">b</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">session</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">get_full_release_directory</span><span class="p">(),</span><span class="s" style="color: #d14;">'flat/test1.json'</span><span class="p">),</span> <span class="s" style="color: #d14;">'r'</span><span class="p">)</span> <span class="k" style="font-weight: 600;">as</span> <span class="n" style="color: #333;">content_file</span><span class="p">:</span></span>
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740
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791
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<pre style="margin: 0;"> <span id="LC791" class="line" lang="python"> <span class="n" style="color: #333;">content</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">content_file</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">read</span><span class="p">()</span></span>
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<pre style="margin: 0;"> <span id="LC792" class="line" lang="python"> <span class="n" style="color: #333;">my_json</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">json</span><span class="o" style="font-weight: 600;">.</span><span class="n" style="color: #333;">loads</span><span class="p">(</span><span class="n" style="color: #333;">content</span><span class="p">)</span></span>
</pre>
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