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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/phyml">Debian Med / phyml</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/638649c990aec7dfefa786147fd3a1c7a2f88007">638649c9</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:18:26+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/2dbaad0f1e21dfda9016e20d0af8dabd2247a43e">2dbaad0f</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:18:27+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 3.3.20211021</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/e89165bae67788098451477dedf622e76102ad88">e89165ba</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:18:50+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/3.3.20211021'
Update to upstream version '3.3.20211021'
with Debian dir ba787ab8cde1682e9babf6b143a3651a61592c0d</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/75e822b043b5f4c78ff865509362e9da5158cd70">75e822b0</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:25:57+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh no-stdc++.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/9c8758f2d8bd42507f4099f891fb0126e7d0c381">9c8758f2</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:29:45+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh no-configure-ac-date.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/45d49cb2e46a733469c2e918992237f7d1c4e89a">45d49cb2</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:32:26+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh fix_declaration_of_temp.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/0bcefb273c5e45c07adeebea2ff73e173ada8c47">0bcefb27</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:32:46+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh fix_wrong_initialisation_of_array.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/c1e4bcc225a084a5367ba361db11adece4d43003">c1e4bcc2</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:34:04+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh no-march-native.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/2356a6792f990a032b8b98d3d554ea135011069d">2356a679</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T22:37:42+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh cross.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/f62870e0dc3a970c95f765092400e934b870dfac">f62870e0</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T23:31:50+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add apply-cflags.patch: ensure hardening is applied
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/7a2701b04f9774ace1f1920e78c1fc582df58a75">7a2701b0</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T23:32:52+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/control: add myself to Uploaders
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/4f9ad8308cd67876899c42a0ad8db3e1d9f072b8">4f9ad830</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T23:49:54+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add filter-sse3-intrinsics.patch
This patch fixes a failure to build from source, caused by intrinsics
requiring SSE3 in situations were only SSE is detected.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/b79addc1f1ec4896e0da2e54357526fc8cf38ba7">b79addc1</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-17T23:54:13+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/rules: autoconfigure with --enable-phyml-mpi
This flag replaced the former --enable-mpi in the configure.ac.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/da6bd0227105ad77681ac7d1f7d85bad6fd7095c">da6bd022</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-18T00:05:35+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/changelog: restore dropped epoch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/c48af44f3064914e70ae5e97b16a6848690e3213">c48af44f</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-18T00:06:04+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add apply-ldflags.patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/9b31c5875d63746d05ef61ac14d82eb64a9a7cc8">9b31c587</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-18T00:09:52+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/rules: fix perms of examples nucleic and proteic
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/1b07a525f94384da41a5cee11812329e662bd1f5">1b07a525</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-18T00:43:12+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/{links,phyml.1}: also provide phyml-mpi manpage
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/phyml/-/commit/7f73df8014db706ae8e3a1e01c5c246c18583072">7f73df80</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-11-18T00:46:06+01:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">ready to upload to unstable
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">
configure.ac
</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="#8349ebd0c596ef9478eb284b6a482b10861b7531">
<span class="new-file">
+
debian/links
</span>
</a>
</li>
<li class="file-stats">
<a href="#ab0df1e4f4eac054b3fb98c728a2d1baa734a597">
<span class="new-file">
+
debian/patches/apply-cflags.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#4149afba33d9c67a830ca0e4115181a0271f4fc3">
<span class="new-file">
+
debian/patches/apply-ldflags.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#0d8181cd8c9dbe68093a8faf79725cbbd10e3e73">
debian/patches/cross.patch
</a>
</li>
<li class="file-stats">
<a href="#f440d121a1e50460d9dd2fa5b3022d8246cca3ee">
<span class="new-file">
+
debian/patches/filter-sse3-intrinsics.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#6f3a0e7c3e302714921e20148750add5ef227469">
debian/patches/fix_declaration_of_temp.patch
</a>
</li>
<li class="file-stats">
<a href="#0ad239590caf1f32229185c32cf814afd342d082">
debian/patches/fix_wrong_initialisation_of_array.patch
</a>
</li>
<li class="file-stats">
<a href="#e3a9dc24be73b1344c7407143138db68421c2439">
debian/patches/no-configure-ac-date.patch
</a>
</li>
<li class="file-stats">
<a href="#0377f9dac78f4d5990bc676c9acc7f531d3c209c">
debian/patches/no-march-native.patch
</a>
</li>
<li class="file-stats">
<a href="#28e4b29d16a6f6efc4999b845ced775eed3cb698">
debian/patches/no-stdc++.patch
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#cebf25e5a3240ad6ad4b0d3bdaec97db6cb77902">
debian/phyml.1
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#c043ea502a833cf5cddc83929dacade3d9189d39">
doc/phyml-manual.pdf
</a>
</li>
<li class="file-stats">
<a href="#7cd9138a88d69d2b408dde7d192d6e9970e49b20">
doc/phyml-manual.tex
</a>
</li>
<li class="file-stats">
<a href="#d8da03107937c739846fa12b23604cf9cc68d683">
doc/ref.bib
</a>
</li>
<li class="file-stats">
<a href="#67e794015a01b8816bd16290e5f8538236da8245">
src/Makefile.am
</a>
</li>
<li class="file-stats">
<a href="#29589b9dde4fef76aac8e8d8b076784d3244d944">
src/alrt.c
</a>
</li>
<li class="file-stats">
<a href="#72e97b72ec97537874d872c205d08a87d9dbcc8d">
src/avx.c
</a>
</li>
<li class="file-stats">
<a href="#2549aaa93c0baaa1a190cc2137aa85cd81b04f1d">
src/avx.h
</a>
</li>
<li class="file-stats">
<a href="#4fb38a1336439670432d1f1b82f98d12848e2a16">
src/cl.c
</a>
</li>
<li class="file-stats">
<a href="#cb22014a290932608bec34e7eae1dd29aac5a846">
src/date.c
</a>
</li>
<li class="file-stats">
<a href="#da4264899259740f7254bb9f5b5e8426d5ed79cb">
src/free.c
</a>
</li>
<li class="file-stats">
<a href="#bdb9151cbb30f67e0d165e523d19db30e3146ada">
src/free.h
</a>
</li>
<li class="file-stats">
<a href="#3aa24e0aa5dbdbd5a6a03457add0a95527b87feb">
src/geo.c
</a>
</li>
<li class="file-stats">
<a href="#66d9613e548af8a380fe8cc3e5e202e3d39715ae">
src/help.c
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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