<!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, "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: 0.875rem;
}
body {
-webkit-text-shadow: rgba(255,255,255,0.01) 0 0 1px;
}
body {
font-family: var(--default-regular-font, -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: var(--default-regular-font, -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/ivar">Debian Med / ivar</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/ivar/-/commit/03db8d4579bd1382038523c46f7e7313b69acdc2">03db8d45</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T14:26:48+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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: New upstream version
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/1201d39750884b284829be628823830d2bb13f55">1201d397</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:09+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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 1.4.2+dfsg</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/9405413392dcdcca87238141e530d0c21cac1f1c">94054133</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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: Standards-Version: 4.6.2
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/cfc14ca1dea0f0daa386a689e676a82ac7f4755c">cfc14ca1</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>Fix-warning.patch: refresh.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/89327666c8a733f7ecb3803f6aa815091e447a3a">89327666</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>forward-build-options.patch: refresh.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/e20dec8a912c7ce4071f4fcedf8f2efa77f6e7c8">e20dec8a</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>gcc-11.patch: remove: upstream diverged.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/f911661c40228f5f2441b472e6a153f2e8cc6695">f911661c</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>privacy-breach.patch: refresh.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/5efaee6e3f4d276417712057d057f571d92d4df3">5efaee6e</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:10+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>gcc-12.patch: delete: applied upstream.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/618b62c21092fbf49e9ac1074469cc487dcc3b72">618b62c2</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:11+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>gcc-11_2.patch: remove: now unneeded.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/516c261c7cc2c7abfa1c77c9d70b714489e1a3db">516c261c</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:11+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>gcc-13.patch: add: fix ftbfs with gcc-13.

Closes: #1037700
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/78ceb875f38344e61ae89793592b777ed527f802">78ceb875</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:11+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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: remove executable bit from test data file.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/546e99e18c1038041cefafaf765d439d5d662c64">546e99e1</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:18+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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/t/ref/*: refresh reference outputs for autopkgtests.
</pre>
</li>
<li>
<strong style="font-weight: bold;"><a href="https://salsa.debian.org/med-team/ivar/-/commit/865bc335e1ae6b422215790360b1a7e98fd11545">865bc335</a></strong>
<div>
<span> by Étienne Mollier </span> <i> at 2023-07-20T15:22:56+02:00 </i>
</div>
<pre class="commit-message" style='white-space: pre-wrap; display: block; font-size: 0.875rem; color: #333238; position: relative; font-family: var(--default-mono-font, "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;'>ready to 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="#01a718df87a96135eb956401504e555421dc5a3d">
<span class="new-file">
+
.clang-format
</span>
</a>
</li>
<li class="file-stats">
<a href="#3fa7b3d8e9b1a6a923cff77497ab817d9f94b6c0">
Doxyfile
</a>
</li>
<li class="file-stats">
<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
configure.ac
</a>
</li>
<li class="file-stats">
<a href="#18760b9c7c3bdde4b0ec6e5c80fa5ff2a4f02448">
<span class="new-file">
+
data/primer_pair_test/test_primer_pair.bed
</span>
</a>
</li>
<li class="file-stats">
<a href="#7be4deeaa8aeb47688b0b8548dff39730811aade">
<span class="new-file">
+
data/primer_pair_test/test_primer_pair_trim.tsv
</span>
</a>
</li>
<li class="file-stats">
<a href="#e112f3e2db8239a04132dab51b05417c727756b3">
<span class="new-file">
+
data/primer_pair_test/test_primer_pair_trim.untrimmed.bam
</span>
</a>
</li>
<li class="file-stats">
<a href="#34d66a249ccf342362d3444441aa9506ae7f6a4d">
data/test.gff
</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="#4dfd66867c7407756043ef8c4e1c5ffff585d5a2">
debian/patches/Fix-warning.patch
</a>
</li>
<li class="file-stats">
<a href="#5c6a8c0b89136d4e8d64c7ad29b75e9187bb5469">
debian/patches/forward-build-options.patch
</a>
</li>
<li class="file-stats">
<a href="#c380dd360f216fd789904f2794009be1ce992d4b">
<span class="deleted-file">

debian/patches/gcc-11.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#e169787e6c37d9cbbc2a41ef4bf4789798ef6c56">
<span class="deleted-file">

debian/patches/gcc-11_2.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#baa2673d68231af2b9e6f7337d851edb943da22c">
<span class="deleted-file">

debian/patches/gcc-12.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#6da75f7fef0ac9337ebe063db5cf63a8b5c30ff3">
<span class="new-file">
+
debian/patches/gcc-13.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#7fab45fa1cc88bacd79ff99d4820ca45a30667fa">
debian/patches/privacy-breach.patch
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#7bc69b6e3ac4479f33997cb4cb0d12d9e6282173">
debian/tests/ref/out-removereads.sam
</a>
</li>
<li class="file-stats">
<a href="#0f2cd49c57122b0dfc6f125dfe43024beafd70c3">
debian/tests/ref/out-trim.sam
</a>
</li>
<li class="file-stats">
<a href="#058d50901ea09a7dea6c514c76687de20eb9ce8a">
debian/tests/ref/out-variants.tsv
</a>
</li>
<li class="file-stats">
<a href="#f90d77509d9d998ba68e6c318915da545505db09">
docs/MANUAL.md
</a>
</li>
<li class="file-stats">
<a href="#dfff2b64fef6df31d4c949812c6872fa5585812c">
<span class="new-file">
+
docs/html/bc_sd.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#9652ae700dd45ca8f1537ad57978f21202397e49">
docs/html/cookbookpage.html
</a>
</li>
<li class="file-stats">
<a href="#55586fa83803bd8ce91cb3639eb1b9504143567b">
<span class="new-file">
+
docs/html/dir_49e56c817e5e54854c35e136979f97ca.html
</span>
</a>
</li>
<li class="file-stats">
<a href="#888029aee0eeb40e545b3c08f3d71815d87b2cbe">
<span class="new-file">
+
docs/html/docd.png
</span>
</a>
</li>
<li class="file-stats">
<a href="#be915517046eb74333c9542efed2e71c9fa934f0">
<span class="new-file">
+
docs/html/doxygen.svg
</span>
</a>
</li>
<li class="file-stats">
<a href="#2b142aa7a496b72570b97bc574ce52da327e5f38">
docs/html/dynsections.js
</a>
</li>
<li class="file-stats">
<a href="#a1b23abed2f2622cdcfbf7ebdd9df3514e8d39d2">
docs/html/index.html
</a>
</li>
<li class="file-stats">
<a href="#61edb75b9970259440d4ed4241fdc4059d925964">
docs/html/installpage.html
</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: #737278;">

<br>
<a href="https://salsa.debian.org/med-team/ivar/-/compare/5ec52abb2c234d75caa9bb3f82f73e651130676d...865bc335e1ae6b422215790360b1a7e98fd11545">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>