<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN" "http://www.w3.org/TR/REC-html40/loose.dtd">
<html lang="en" style='--code-editor-font: var(--default-mono-font, "GitLab Mono"), JetBrains Mono, Menlo, DejaVu Sans Mono, Liberation Mono, Consolas, Ubuntu Mono, Courier New, andale mono, lucida console, monospace;'>
<head>
<meta content="text/html; charset=US-ASCII" http-equiv="Content-Type">
<title>
GitLab
</title>
<style data-premailer="ignore" type="text/css">
a { color: #1068bf; }
</style>
<style>img {
max-width: 100%; height: auto;
}
body {
font-size: .875rem;
}
body {
-webkit-text-shadow: rgba(255,255,255,.01) 0 0 1px;
}
body {
font-family: "GitLab Sans",-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,.01) 0 0 1px; font-family: "GitLab Sans",-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/augur">Debian Med / augur</a>
</h3>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
Commits:
</h4>
<ul>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/augur/-/commit/51f06ee02151d232ed4fd0106dd52b192325dac3">51f06ee0</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2024-11-02T14:29:38+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #28272d; position: relative; font-family: "GitLab Mono","JetBrains Mono","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: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>New upstream version 26.0.0</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/augur/-/commit/eae621a469bd6d4fa1d12444e3f0f2cc4c0cef17">eae621a4</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2024-11-02T14:29:56+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #28272d; position: relative; font-family: "GitLab Mono","JetBrains Mono","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: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>Update upstream source from tag 'upstream/26.0.0'
Update to upstream version '26.0.0'
with Debian dir 5264bafe3eca653214f023d5c04e119a65add5ca</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/augur/-/commit/f2aa8a92e4ced8ba5dd941ee726fe937ff50dffd">f2aa8a92</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2024-11-02T14:35:35+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #28272d; position: relative; font-family: "GitLab Mono","JetBrains Mono","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: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>d/p/*.patch: unfuzz patches.
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/augur/-/commit/134eeb7971e2938e36189512099b0c5a2bd80d29">134eeb79</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2024-11-02T14:48:44+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #28272d; position: relative; font-family: "GitLab Mono","JetBrains Mono","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: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>disable-coverage.patch: new: do not run test coverage measurement.
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/augur/-/commit/57662b21e05ec845395d4da60a9974b677afb172">57662b21</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2024-11-02T14:53:39+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #28272d; position: relative; font-family: "GitLab Mono","JetBrains Mono","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: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>d/changelog: update and introduce TODO item.
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
30 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#99d2d4406193bf0dc3e7b84a6c9b9109997a4864">
.github/pull_request_template.md
</a>
</li>
<li class="file-stats">
<a href="#a91b1970808e533a5de67f93824231e12770a765">
.github/workflows/ci.yaml
</a>
</li>
<li class="file-stats">
<a href="#a5cc2925ca8258af241be7e5b0381edf30266302">
.gitignore
</a>
</li>
<li class="file-stats">
<a href="#d0e9cb1fab10296d90ef8e144f981f659bbd59ad">
.mailmap
</a>
</li>
<li class="file-stats">
<a href="#7facec255884dc55d3818e4dfbea89b1bdd7f49e">
CHANGES.md
</a>
</li>
<li class="file-stats">
<a href="#6ca59afb12c23b4746a592248ac713dc856a3a53">
DEPRECATED.md
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#69f17ab31be5979667265a94a4d0ec2749588bd4">
augur/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#d09e9089c9e4c13bdc30d2c06154ec1537c93bc2">
augur/__main__.py
</a>
</li>
<li class="file-stats">
<a href="#a1a05fb3eb681edc11e8c987f65967f416af0ee1">
augur/__version__.py
</a>
</li>
<li class="file-stats">
<a href="#bb76796c5cc72d0d793ca79a16fcc39c7558002d">
augur/argparse_.py
</a>
</li>
<li class="file-stats">
<a href="#4b2cb3fd2c6295549feab623262a7cf668060f30">
augur/curate/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#33af817e298dc1204b2129139370a31c77dba360">
<span class="new-file">
+
augur/curate/abbreviate_authors.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#cba963b598f3c255bc32d15963d37475b4318ead">
<span class="new-file">
+
augur/curate/apply_geolocation_rules.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#823f73403455fa92d0bad26d5c3aae693cb90d58">
<span class="new-file">
+
augur/curate/apply_record_annotations.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#5cbf9b0c8cc23facd1774a3a4a86f651e64e3efa">
augur/curate/format_dates.py
</a>
</li>
<li class="file-stats">
<a href="#6c4f2ba0249a0322f18e544332083885d2ec939d">
<span class="new-file">
+
augur/curate/parse_genbank_location.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#d9af041d45cfd274509e5aa25aef8a78f54e47c3">
<span class="new-file">
+
augur/curate/rename.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#f5cb68bad7b8f1d8b9d46b0b57e1866827582efe">
augur/curate/titlecase.py
</a>
</li>
<li class="file-stats">
<a href="#b722964e0b0f6fbdad18e7b7d190aca6084ceb11">
<span class="new-file">
+
augur/curate/transform_strain_name.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#a0508a2760f02d37008d7e9861705c407a325891">
augur/data/colors.tsv
</a>
</li>
<li class="file-stats">
<a href="#115af9080d0d8b00261609b39b151188f7b8c4e0">
augur/dates/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#859514e9fb008514afa06ac783ca8c98a03cf0fd">
<span class="new-file">
+
augur/debug.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#7051dc1354d6bc0d4b68367cda18a5846f82adb6">
augur/export_v2.py
</a>
</li>
<li class="file-stats">
<a href="#5bb08271547dfe8f07ed8ba7352fae5f858d2a47">
<span class="deleted-file">
−
augur/filenames.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#556a16db4c4f8132d22cb1ead75a60fd116b7f5f">
augur/filter/__init__.py
</a>
</li>
<li class="file-stats">
<a href="#a5c2dcec326ca242aabcf55f6878d55b20c35368">
augur/filter/_run.py
</a>
</li>
<li class="file-stats">
<a href="#457d59fed48d10a87e557ecaa12091afa6423c8c">
augur/filter/include_exclude_rules.py
</a>
</li>
<li class="file-stats">
<a href="#64f652ea167fdf9718238aaa1361f3b89217863d">
augur/filter/io.py
</a>
</li>
<li class="file-stats">
<a href="#2f398d4f40bea172fd4bcfdf5f27f9f63c9d3bf4">
augur/filter/subsample.py
</a>
</li>
</ul>
<h5 style="margin-top: 10px; margin-bottom: 10px; font-size: .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: #737278;">
—
<br>
<a href="https://salsa.debian.org/med-team/augur/-/compare/da0cfadba328613dd2c103fc6f0585d26056e312...57662b21e05ec845395d4da60a9974b677afb172">View it on GitLab</a>.
<br>
You're receiving this email because of your account on <a target="_blank" rel="noopener noreferrer" href="https://salsa.debian.org">salsa.debian.org</a>. <a href="https://salsa.debian.org/-/profile/notifications" target="_blank" rel="noopener noreferrer" class="mng-notif-link">Manage all notifications</a> · <a href="https://salsa.debian.org/help" target="_blank" rel="noopener noreferrer" class="help-link">Help</a>
</p>
</div>
</body>
</html>