<!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=utf-8" 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 upstream at <a href="https://salsa.debian.org/med-team/python-pymummer">Debian Med / python-pymummer</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/python-pymummer/-/commit/2a9a5eafa4bebd59931a2256aa6f04cb8396e205">2a9a5eaf</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2025-11-13T21:03:05+01:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 14px; color: #3a383f; position: relative; font-family: "GitLab Mono", "JetBrains Mono", "Menlo", "DejaVu Sans Mono", "Liberation Mono", "Consolas", "Ubuntu Mono", "Courier New", "andale mono", "lucida console", monospace; font-variant-ligatures: none; 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 0.12.0</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
47 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#a5cc2925ca8258af241be7e5b0381edf30266302">
.gitignore
</a>
</li>
<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#8d83b2798a112721bf7e21cdf5ec3ee695171b53">
<span class="new-file">
+
env_osx64.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#54c391de2500e0856c23737daf64f9d931569110">
<span class="new-file">
+
environment.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#e1348b501eec1239859285540fd3f431e8b91a58">
<span class="deleted-file">

pymummer/__init__.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#c90680c2ac281c04fac7404387b7539ad6fc471c">
<span class="deleted-file">

pymummer/tests/coords_file_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#0c9dab96950ac1b0c29078d07a5bfbb5e0167b3c">
<span class="deleted-file">

pymummer/tests/nucmer_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#5771211621e942237496c4ab0daefd95b515da65">
<span class="deleted-file">

pymummer/tests/snp_file_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#405913a15a7128bb8ec1a57171bac8d4121d8b1f">
<span class="deleted-file">

pymummer/tests/snp_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#227886a778a831ee096b2c7e5b3cb07ccf2fb513">
<span class="deleted-file">

pymummer/tests/variant_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#5d07e7d72637aa0d59c89d381fe6dc4cf46e2491">
<span class="new-file">
+
pyproject.toml
</span>
</a>
</li>
<li class="file-stats">
<a href="#a0a6ff919ccb4ae64aeddc44f785978f23e02ea9">
install_dependencies.sh

scripts/install_dependencies.sh
</a>
</li>
<li class="file-stats">
<a href="#8e2edce0d507e1297474f25c00cae94258db38d8">
<span class="deleted-file">

setup.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#4fc56001918a0d241b2146741bea3e91a0ca5ede">
<span class="new-file">
+
src/pymummer/__init__.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#94b06c2880fe490946092bfb4b571128f6ffb634">
pymummer/alignment.py

src/pymummer/alignment.py
</a>
</li>
<li class="file-stats">
<a href="#c3086d2d601ef6673f73554ff86e6384af3393b1">
pymummer/coords_file.py

src/pymummer/coords_file.py
</a>
</li>
<li class="file-stats">
<a href="#0a945ef78f3796abde37382c53f58045e3ba9b3b">
pymummer/nucmer.py

src/pymummer/nucmer.py
</a>
</li>
<li class="file-stats">
<a href="#4bdb70930e76c2283f743a047e73fd233d0087e3">
pymummer/snp.py

src/pymummer/snp.py
</a>
</li>
<li class="file-stats">
<a href="#07888728096bd3b89f74727e9a1e19143d2940d4">
pymummer/snp_file.py

src/pymummer/snp_file.py
</a>
</li>
<li class="file-stats">
<a href="#e6d2a833b7d75a89b5039327db646a18fded9c05">
pymummer/syscall.py

src/pymummer/syscall.py
</a>
</li>
<li class="file-stats">
<a href="#f790c34ee27371eafe508b9dd9a2ac4a7e7b96fc">
pymummer/variant.py

src/pymummer/variant.py
</a>
</li>
<li class="file-stats">
<a href="#151078b9cc57598d4ab90f72dfdfeef48109c60e">
pymummer/tests/alignment_test.py

tests/alignment_test.py
</a>
</li>
<li class="file-stats">
<a href="#c0eb092b8bbc9df1c333b5c099e2242211e546a0">
<span class="new-file">
+
tests/coords_file_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#b006fed22b1fd233e39716c5287d67d802dd729c">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.coords

tests/data/coords_file_test_convert_to_msp_crunch.coords
</a>
</li>
<li class="file-stats">
<a href="#81d5f4dfe0f77fc0e77ee4a49876e102f10498ef">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.no_offset.crunch

tests/data/coords_file_test_convert_to_msp_crunch.no_offset.crunch
</a>
</li>
<li class="file-stats">
<a href="#8a5aded0eb5c5b9128e49e4ce9c839a380aa94d5">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.qry.fa

tests/data/coords_file_test_convert_to_msp_crunch.qry.fa
</a>
</li>
<li class="file-stats">
<a href="#97cc7554ddd573aaa6cbb09f093b9db57b0ced8b">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.qry.fa.fai

tests/data/coords_file_test_convert_to_msp_crunch.qry.fa.fai
</a>
</li>
<li class="file-stats">
<a href="#c10a7eac7c1a8717503331d22bdd0bfbbedf41de">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.ref.fa

tests/data/coords_file_test_convert_to_msp_crunch.ref.fa
</a>
</li>
<li class="file-stats">
<a href="#6e0747fa7729ebf7da008c698f0f4d70d420095a">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.ref.fa.fai

tests/data/coords_file_test_convert_to_msp_crunch.ref.fa.fai
</a>
</li>
<li class="file-stats">
<a href="#894f4c3836d6232d707d3dd7cf787c90dd5b2093">
pymummer/tests/data/coords_file_test_convert_to_msp_crunch.with_offset.crunch

tests/data/coords_file_test_convert_to_msp_crunch.with_offset.crunch
</a>
</li>
<li class="file-stats">
<a href="#c3e165655ecdb451a4c0045bfc0badacefc77ca0">
pymummer/tests/data/coords_file_test_no_header.coords

tests/data/coords_file_test_no_header.coords
</a>
</li>
<li class="file-stats">
<a href="#4589f65d780afb7ff5cc87058b865cd131bb3687">
pymummer/tests/data/coords_file_test_with_header.coords

tests/data/coords_file_test_with_header.coords
</a>
</li>
<li class="file-stats">
<a href="#dbc4c403c2fea81dc35e18715aa55ed9de99fe53">
pymummer/tests/data/nucmer_test_out.coords

tests/data/nucmer_test_out.coords
</a>
</li>
<li class="file-stats">
<a href="#6aa9c556c1937cb8d1f6e883eeafa22733e9b5c1">
pymummer/tests/data/nucmer_test_out.coords.snps

tests/data/nucmer_test_out.coords.snps
</a>
</li>
<li class="file-stats">
<a href="#fb751345b2b095e89334a31baf2934d4b1b9144a">
pymummer/tests/data/nucmer_test_qry.fa

tests/data/nucmer_test_qry.fa
</a>
</li>
<li class="file-stats">
<a href="#930566a088997d319add2f5e85cded16a9711297">
pymummer/tests/data/nucmer_test_ref.fa

tests/data/nucmer_test_ref.fa
</a>
</li>
<li class="file-stats">
<a href="#69eed169f16f2a1feefd55103cd34521c8163bc0">
pymummer/tests/data/nucmer_test_write_script_no_snps.sh

tests/data/nucmer_test_write_script_no_snps.sh
</a>
</li>
<li class="file-stats">
<a href="#846b979a98f2b6347b175fc9680f1f4c786bd4f3">
pymummer/tests/data/nucmer_test_write_script_with_snps.sh

tests/data/nucmer_test_write_script_with_snps.sh
</a>
</li>
<li class="file-stats">
<a href="#29bcbce8ca54b6010b65809378c209ba6cc71510">
pymummer/tests/data/snp_file_test_get_all_variants.snps

tests/data/snp_file_test_get_all_variants.snps
</a>
</li>
<li class="file-stats">
<a href="#d39c05af8618f07cca6615de4c752b9da09a1d93">
pymummer/tests/data/snp_file_test_no_header.snps

tests/data/snp_file_test_no_header.snps
</a>
</li>
<li class="file-stats">
<a href="#ee092314eaaddc4d4c1fc420864fc27319e9f813">
pymummer/tests/data/snp_file_test_with_header.snps

tests/data/snp_file_test_with_header.snps
</a>
</li>
<li class="file-stats">
<a href="#1d9c22c89b5f086dfcf1a7bf4793e028f5d338d8">
<span class="new-file">
+
tests/nucmer_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#74de1026b4d7ae9f6acba5f2c5bd9898982e62e6">
<span class="new-file">
+
tests/snp_file_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#0d7ccdc159c7d34d295ae2f0ddfc0d347cf7ee93">
<span class="new-file">
+
tests/snp_test.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#d9b6caa96b2a6180852ab2aebc944f3f26aa00f0">
pymummer/tests/syscall_test.py

tests/syscall_test.py
</a>
</li>
<li class="file-stats">
<a href="#9360e2b934e9a3db8ce06eae19a620a915ce510a">
<span class="new-file">
+
tests/variant_test.py
</span>
</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: #626168;">

<br>
<a href="https://salsa.debian.org/med-team/python-pymummer/-/commit/2a9a5eafa4bebd59931a2256aa6f04cb8396e205">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>
<span style="color: transparent; font-size: 0; display: none; overflow: hidden; opacity: 0; width: 0; height: 0; max-width: 0; max-height: 0;">
Notification message regarding https://salsa.debian.org/med-team/python-pymummer/-/commit/2a9a5eafa4bebd59931a2256aa6f04cb8396e205 at 1763065564
</span>
<script type="application/ld+json">{"@context":"http://schema.org","@type":"EmailMessage","action":{"@type":"ViewAction","name":"View Commit","url":"https://salsa.debian.org/med-team/python-pymummer/-/commit/2a9a5eafa4bebd59931a2256aa6f04cb8396e205"}}</script>


</p>
</div>
</body>
</html>