<!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/samtools">Debian Med / samtools</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/samtools/-/commit/4d88bb51aca0935da90cf1c052624837db76f4a3">4d88bb51</a></strong>
<div>
<span> by Michael R. Crusoe </span> <i> at 2024-11-14T12:34:54+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; 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 1.21</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/604c7739765735c2f7af6df3970d5421724f17dd">604c7739</a></strong>
<div>
<span> by Michael R. Crusoe </span> <i> at 2024-11-14T12:34:54+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; 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
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/70892c0f9027184e53b2d6099c1b744da4f22cbf">70892c0f</a></strong>
<div>
<span> by Michael R. Crusoe </span> <i> at 2024-11-14T12:35:14+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; 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/1.21'
Update to upstream version '1.21'
with Debian dir 56313df8ab2a8964f030941dba216a7a5beb6dd6</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/7e7188014211d26612d2d3412ca2f9a11dd2b6d8">7e718801</a></strong>
<div>
<span> by Michael R. Crusoe </span> <i> at 2024-11-14T20:28:18+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; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>d/rules: build-depend on newer htslib 1.21. Closes: #1087456
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/136ec3beda8452ab756f2a54eabfa5f7cefe9edb">136ec3be</a></strong>
<div>
<span> by Michael R. Crusoe </span> <i> at 2024-11-14T20:29:17+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; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>routine-update: Ready to upload to experimental
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/0f4e00b52009b0f1d7ad205506258552efc271d5">0f4e00b5</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2025-02-06T21:54:42+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; word-break: break-all; word-wrap: break-word; background-color: #fbfafd; border-radius: 2px; margin: 0; padding: 8px 12px; border: 1px solid #dcdcde;'>reproducible.patch: normalise Last-Update timestamp.
</pre>
</li>
<li>
<strong style="font-weight: 600;"><a href="https://salsa.debian.org/med-team/samtools/-/commit/06658a8dc4ccdcefd8a401e578261b50e47120bb">06658a8d</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2025-02-06T22:00:51+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; 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: ready for upload to unstable.
</pre>
</li>
</ul>
<h4 style="margin-top: 10px; margin-bottom: 10px;">
30 changed files:
</h4>
<ul>
<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
</a>
</li>
<li class="file-stats">
<a href="#8e91c39ea457744ee86e8378b154b7f3bb28e325">
NEWS.md
</a>
</li>
<li class="file-stats">
<a href="#69e27356ef629022720d868ab0c0e3394775b6c1">
README
</a>
</li>
<li class="file-stats">
<a href="#a8c86a0fd0345dc5d362ba470fff0ab9a0fc7f1b">
amplicon_stats.c
</a>
</li>
<li class="file-stats">
<a href="#47e9e5b41a99db7f29a9c389319288b5be3dd44d">
bam2depth.c
</a>
</li>
<li class="file-stats">
<a href="#49977dcd2454890ef52ad55cab2161e1108da37c">
bam_ampliconclip.c
</a>
</li>
<li class="file-stats">
<a href="#5d92784e8cc871e26c7833421c96fb4c112cf954">
bam_ampliconclip.h
</a>
</li>
<li class="file-stats">
<a href="#b87c2f698442cf217a3e1f210a9a32243d57e645">
bam_cat.c
</a>
</li>
<li class="file-stats">
<a href="#a570bc81d25a3e7cca80a8fb33741c4cd427a6e0">
bam_consensus.c
</a>
</li>
<li class="file-stats">
<a href="#1b031362756348a3fc06a80a67e2440c22c1f4ad">
bam_fastq.c
</a>
</li>
<li class="file-stats">
<a href="#7e7625df357c73e60fb5763cc5124783c1c76fc6">
bam_import.c
</a>
</li>
<li class="file-stats">
<a href="#9c88dc776e2c0fafefd9efcafebfc5ff56b0e55c">
bam_index.c
</a>
</li>
<li class="file-stats">
<a href="#d4bc32e2570b26508c2d81d71d23edbaaec16180">
bam_mate.c
</a>
</li>
<li class="file-stats">
<a href="#4fc4365483305125a81f12902c48a4deca801439">
bam_md.c
</a>
</li>
<li class="file-stats">
<a href="#4554809383bbbc3e2470c76b4bfd91881ede7125">
bam_sort.c
</a>
</li>
<li class="file-stats">
<a href="#b80f6d653474c3fd4413bdefffae9a6c73c046af">
bam_split.c
</a>
</li>
<li class="file-stats">
<a href="#2a0b24e8c0b1cb8ff4ccae3f35d4a3a8a8eb9cfd">
bam_tview.c
</a>
</li>
<li class="file-stats">
<a href="#19ca6d42013c2103588ff1e42bee19d5df9de59e">
bam_tview_curses.c
</a>
</li>
<li class="file-stats">
<a href="#b8e8eff661fca489d5a3579e27089b866e1288de">
bam_tview_html.c
</a>
</li>
<li class="file-stats">
<a href="#bfc81e0a1121ab31c44ab8a041c8b63aa4167e0f">
bamtk.c
</a>
</li>
<li class="file-stats">
<a href="#4d8f0ca62bc8e28a9dad1c22aed2061b2af7c219">
bedidx.c
</a>
</li>
<li class="file-stats">
<a href="#ae4043bcca5a1bddf81eaec9e023257d15a2015d">
coverage.c
</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="#76258ff6f1526200cf3fda90e9f37fd9ee4b4364">
debian/patches/reproducible.patch
</a>
</li>
<li class="file-stats">
<a href="#131ea2eda9731473dd1cf610feea1c836c24ccb2">
doc/samtools-addreplacerg.1
</a>
</li>
<li class="file-stats">
<a href="#890899d7ef7d59def631cb6b62d724f647d1ea35">
doc/samtools-ampliconclip.1
</a>
</li>
<li class="file-stats">
<a href="#e841393fcf15d28d19530298ba64d7d1868506d2">
doc/samtools-ampliconstats.1
</a>
</li>
<li class="file-stats">
<a href="#4b8c2f7ba6fa197665c9cf755ac0e7c47ef7db6b">
doc/samtools-bedcov.1
</a>
</li>
<li class="file-stats">
<a href="#4c3d326fc8bbbf65887e3e6426ea12174df3531c">
doc/samtools-calmd.1
</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/samtools/-/compare/c449bd74c00d8b010d2584ba3d393eb2335408c7...06658a8dc4ccdcefd8a401e578261b50e47120bb">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>