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<h3>
Nilesh Patra pushed to branch master
at <a href="https://salsa.debian.org/med-team/resfinder">Debian Med / resfinder</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/327f6198e3e9e684df4d913db5274b72f888135a">327f6198</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T17:16:42+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 4.1.5</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/76003da880592596eb6e79ff83026918d2b365de">76003da8</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T17:16:43+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/4.1.5'
Update to upstream version '4.1.5'
with Debian dir 313fda68c383d0d41188be06381c4344b76ae8ea</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/485b567cac3aaa488768139b48fc82beafd2df5c">485b567c</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T17:20:10+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove d/p/fix_syntax.patch: fixed upstream
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/9c66efcde920d1073db40ac328096dad5c2ad5f5">9c66efcd</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T17:20:26+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Refresh patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/ab035ad3a3efed661c84487f378d1854d9825f28">ab035ad3</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T17:21:02+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/ch: Set version to 4.1.5
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/124042f4cd2890097e6a3cbc4c38e56e2f24002f">124042f4</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T12:26:42+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add Depends on kma, python3-git and python3-dateutil
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/0ce180eda26edbb78309412391065e70a1cd4f74">0ce180ed</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T18:09:33+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/tests/run-unit-test: Make autopkgtest functional
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/70ddd3c35d7e9d2679cd206319d246e7512ffdbf">70ddd3c3</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T18:10:15+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/tests/control: Add Depends on ca-certificates, add restrictions on needs-internet
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/e4973205a09e6a64b04ecac596d2b27f4db0aa76">e4973205</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T18:13:55+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/p/fix_syntax.patch: Fix syntax in cge/pointfinder.py
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/1b9f45ad310eb04d47d7d491fedd69c9cfc4f217">1b9f45ad</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T18:16:29+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Declare compliance with policy 4.5.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/c77c2cd603e4799ece5a2bfc7ad1ffb6618bb373">c77c2cd6</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T12:47:48+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update and fix manpage
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/488f218e49bfe8da2855e384f4c344bebf6f78d9">488f218e</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T12:54:15+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/p/fix-shebang.patch: Fix shebang in shell scripts
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/adab7472dddb053b59bb8f0d197856890ce456a7">adab7472</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T12:56:53+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/rules: Fix shell script permissions, do not install .nf files
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/c8efefa79b98bb7ae1f08b987a4f86d33d31ca8d">c8efefa7</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T13:04:01+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update d/u/metadata, Make yamllint happy
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/resfinder/-/commit/0950f3ff8b80b4e391fdafab20b7cd6471ded215">0950f3ff</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2021-07-04T18:36:24+05:30</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Interim changelog entry
</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="#410eefd1da1db1947ff5ac22b3c7b35e778de4cf">
cge/out/result.py
</a>
</li>
<li class="file-stats">
<a href="#031d3e58a04dd19c0cfa7e5d2d943868132ce5a9">
cge/out/util/generator.py
</a>
</li>
<li class="file-stats">
<a href="#0e188ffc2ef246a12ada982795799d885ed1298a">
cge/out/valueparsers.py
</a>
</li>
<li class="file-stats">
<a href="#cec4f5a4c4ac7e182f070e594a3bb60a23ea0415">
cge/phenotype2genotype/isolate.py
</a>
</li>
<li class="file-stats">
<a href="#a41cdadcc44ca997e2a2476454bebb2ce3f67661">
cge/pointfinder.py
</a>
</li>
<li class="file-stats">
<a href="#c8a529df69d0c0a75e8f601822a3e85d70db1955">
cge/resfinder.py
</a>
</li>
<li class="file-stats">
<a href="#80c42efb6930c6e64a1aea157532ae711bce367b">
cge/standardize_results.py
</a>
</li>
<li class="file-stats">
<a href="#9ebb46a3487d01464fa955698d3a47401d04f139">
<span class="new-file">
+
database_tests.md
</span>
</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="#ebcf9854ee19af4b7bf8405b283789c18769680f">
debian/createmanpages
</a>
</li>
<li class="file-stats">
<a href="#5dfbd563785353e04689209c19b74ee48a854373">
<span class="new-file">
+
debian/patches/fix-shebang.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#ec652e8376061ebabed8d52721e18a890f9131a7">
debian/patches/fix_path_in_testscript.patch
</a>
</li>
<li class="file-stats">
<a href="#9ffbea523f68ec2af6eb4481d50c985a8295dcf1">
debian/patches/fix_syntax.patch
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#22e6dbd010cef1c9f375fcd638cec308b1857d79">
<span class="deleted-file">
−
debian/resfinder.py.1
</span>
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#1c2b066bcbe9d803b3ebbbe7033223660ea53d23">
<span class="new-file">
+
debian/run_resfinder.py.1
</span>
</a>
</li>
<li class="file-stats">
<a href="#83223a554d33ba7e1888274ff8ac43adb8147ba0">
debian/tests/control
</a>
</li>
<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
</a>
</li>
<li class="file-stats">
<a href="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
</a>
</li>
<li class="file-stats">
<a href="#558c49b604560afd1841f2a7b49e2f60bd1f99b3">
dockerfile
</a>
</li>
<li class="file-stats">
<a href="#ffab6a49d0bcb1458a6b692f882e21b1d57f7643">
run_resfinder.py
</a>
</li>
<li class="file-stats">
<a href="#66f430701ac648aed5b6ac2e673519da4da4c233">
<span class="new-file">
+
scripts/env_variables.txt
</span>
</a>
</li>
<li class="file-stats">
<a href="#42558cb54cd5ea9c634dc8c8e6b6843a057aee5c">
scripts/resfinder.nf
</a>
</li>
<li class="file-stats">
<a href="#46e5e6c3d1bb78724258e9dbcd61f24c6a3129cc">
scripts/resfinder_asm.nf
</a>
</li>
<li class="file-stats">
<a href="#0d22707942c300097762861c59908d00469a6437">
<span class="new-file">
+
scripts/wdl/README.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#d64d4829331205e0600133fec1312c31dc9e6018">
<span class="new-file">
+
scripts/wdl/computerome.conf
</span>
</a>
</li>
<li class="file-stats">
<a href="#a75b0bdef7617ffd2cf62ffcc2afc79a46bb4816">
<span class="new-file">
+
scripts/wdl/input.json
</span>
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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