<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN" "http://www.w3.org/TR/REC-html40/loose.dtd">
<html lang="en">
<head>
<meta content="text/html; charset=US-ASCII" http-equiv="Content-Type">
<title>
GitLab
</title>
<style>img {
max-width: 100%; height: auto;
}
body {
font-size: 0.875rem;
}
body {
-webkit-text-shadow: rgba(255,255,255,0.01) 0 0 1px;
}
body {
font-family: -apple-system, BlinkMacSystemFont, "Segoe UI", Roboto, "Noto Sans", Ubuntu, Cantarell, "Helvetica Neue", sans-serif, "Apple Color Emoji", "Segoe UI Emoji", "Segoe UI Symbol", "Noto Color Emoji"; font-size: inherit;
}
</style>
</head>
<body style='font-size: inherit; -webkit-text-shadow: rgba(255,255,255,0.01) 0 0 1px; font-family: -apple-system, BlinkMacSystemFont, "Segoe UI", Roboto, "Noto Sans", Ubuntu, Cantarell, "Helvetica Neue", sans-serif, "Apple Color Emoji", "Segoe UI Emoji", "Segoe UI Symbol", "Noto Color Emoji";'>
<div class="content">
<h3 style="margin-top: 20px; margin-bottom: 10px;">
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/spades" style="color: #1068bf; text-decoration: none;">Debian Med / spades</a>
</h3>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
</h4>
<ul>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/a5759a720aa19a814f51193310ed0c271690a743" style="color: #1068bf; text-decoration: none;">a5759a72</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:28:32+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>routine-update: New upstream version
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/3d6cb8fc3954b52b33a05e4b3b0515a750628653" style="color: #1068bf; text-decoration: none;">3d6cb8fc</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:28:33+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>New upstream version 3.15.5+dfsg</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/45a82de84a30b4d29ac878522c26084726026bab" style="color: #1068bf; text-decoration: none;">45a82de8</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:29:05+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>Update upstream source from tag 'upstream/3.15.5+dfsg'
Update to upstream version '3.15.5+dfsg'
with Debian dir a17493c8ed5ba416403b6612073676665f8232ef</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/d315ca2d8b612e851872637526db22c2557fccb5" style="color: #1068bf; text-decoration: none;">d315ca2d</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:37:41+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>python3.patch: refresh.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/f2112b46502d56233d3446e9bb63ae16c349b706" style="color: #1068bf; text-decoration: none;">f2112b46</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:38:53+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>0003_accept-system-bwa.patch: unfuzz.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/2a839c342ee8cc77b9a04f44a89269ae9d7f43f4" style="color: #1068bf; text-decoration: none;">2a839c34</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:39:11+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>yaml_load.patch: unfuzz.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/e7b11d7b2bed2648c853ea8c0abb5ac40eafda82" style="color: #1068bf; text-decoration: none;">e7b11d7b</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T07:41:27+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>fix-privacy-breaches.patch: update badges list.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/spades/-/commit/fbfcea010aef8ce5bd51ae473a8e6e7bee66b7c9" style="color: #1068bf; text-decoration: none;">fbfcea01</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2022-07-24T09:24:27+02:00</i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.8125rem; color: #303030; position: relative; font-family: "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; word-break: break-all; word-wrap: break-word; background-color: #fafafa; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dbdbdb;'>update changelog
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">20 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d" style="color: #1068bf; text-decoration: none;">
README.md
</a>
</li>
<li class="file-stats">
<a href="#ae55101b54ce2616006582a65f21f81a27f56ef0" style="color: #1068bf; text-decoration: none;">
assembler/VERSION
</a>
</li>
<li class="file-stats">
<a href="#a9849095d161d6172a4b8c397180ac07a1c37ec4" style="color: #1068bf; text-decoration: none;">
assembler/changelog.html
</a>
</li>
<li class="file-stats">
<a href="#fe7fdbbf8b2079ee15a0add300260abc27048a3e" style="color: #1068bf; text-decoration: none;">
assembler/manual.html
</a>
</li>
<li class="file-stats">
<a href="#dcd694f38b9d988eef66a5f4f147c3bf07985834" style="color: #1068bf; text-decoration: none;">
assembler/src/cmake/pack.cmake
</a>
</li>
<li class="file-stats">
<a href="#2461f718207d4b6e71915c3d925029ccda6cfcb3" style="color: #1068bf; text-decoration: none;">
<span class="new-file">
+
assembler/src/common/assembly_graph/handlers/used_edge_handler.hpp
</span>
</a>
</li>
<li class="file-stats">
<a href="#6b87519efcf2bfa28c1e019b7d831798dcad0805" style="color: #1068bf; text-decoration: none;">
assembler/src/common/modules/alignment/pacbio/gap_filler.hpp
</a>
</li>
<li class="file-stats">
<a href="#f62d3fc9e2b1b443c5e8c8b35bcdd58889b9f02b" style="color: #1068bf; text-decoration: none;">
assembler/src/projects/spades/contig_output_stage.cpp
</a>
</li>
<li class="file-stats">
<a href="#a01bec1175b6b4bf495eef1a6cf54c7ee9a7b3f4" style="color: #1068bf; text-decoration: none;">
assembler/src/projects/spades/domain_matcher.cpp
</a>
</li>
<li class="file-stats">
<a href="#cae247ed2a05b3b84c463e1573071c9fa168bdbe" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/options_parser.py
</a>
</li>
<li class="file-stats">
<a href="#066017f8828ed241ff09ef4a975cb1f2d4f6be77" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/stages/correction_stage.py
</a>
</li>
<li class="file-stats">
<a href="#4ca7358cd786dc7d88506f147334f9435130d750" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/stages/error_correction_stage.py
</a>
</li>
<li class="file-stats">
<a href="#ed083a5a55c9cf1416864acf5c6f9b2612dde905" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/stages/pipeline.py
</a>
</li>
<li class="file-stats">
<a href="#15e14913b0648bc9ab48bd0ffd7e286a964a45b9" style="color: #1068bf; text-decoration: none;">
<span class="deleted-file">
−
assembler/src/spades_pipeline/stages/scaffold_correction_stage.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#e7d52fc6222d2879798307c613ccc5ac8e5e671a" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/stages/spades_iteration_stage.py
</a>
</li>
<li class="file-stats">
<a href="#4ddada5bb56cf32c7e7459698418532494c64c21" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/stages/spades_stage.py
</a>
</li>
<li class="file-stats">
<a href="#0109eb8c8746266314fbfa66403f9a857e555a32" style="color: #1068bf; text-decoration: none;">
assembler/src/spades_pipeline/support.py
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1" style="color: #1068bf; text-decoration: none;">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#b850218084d2a2f6788f48538ed437a42bdc7726" style="color: #1068bf; text-decoration: none;">
debian/patches/0003_accept-system-bwa.patch
</a>
</li>
<li class="file-stats">
<a href="#7a01c537bc6a9a347adc7f1c1a56134ebbcb5d2e" style="color: #1068bf; text-decoration: none;">
debian/patches/fix-privacy-breaches.patch
</a>
</li>
</ul>
<h5 style="margin-top: 10px; margin-bottom: 10px; font-size: 0.875rem;">The diff was not included because it is too large.</h5>
</div>
<div class="footer" style="margin-top: 10px;">
<p style="font-size: small; color: #666;">
—
<br>
<a href="https://salsa.debian.org/med-team/spades/-/compare/29ecdabb8a879e5b8a06b286f3ceff0ec82a56b0...fbfcea010aef8ce5bd51ae473a8e6e7bee66b7c9" style="color: #1068bf; text-decoration: none;">View it on GitLab</a>.
<br>
You're receiving this email because of your account on salsa.debian.org.
If you'd like to receive fewer emails, you can
adjust your notification settings.
</p>
</div>
</body>
</html>