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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/nanopolish">Debian Med / nanopolish</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/386f3288149b22eb39cd52ddee9f2e6354537593">386f3288</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:12Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.11.2</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/f078bf3c267a896bb8579f2e8df89f955d9ad32e">f078bf3c</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:12Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/36361684f79ba17c3e0aa64c6fbf12353749d62f">36361684</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:22Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/0.11.2'
Update to upstream version '0.11.2'
with Debian dir 2d683819e5a0044b4329eff3ec9dd10b9bb272ea</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/946cc35a18e6db77ef5b9f92e910ff6b1e726599">946cc35a</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:23Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper-compat 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/ea0ac70313628f4ab7e4ea670ec331938e5b95a7">ea0ac703</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:16:25Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.4.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/8f2a9ff3b4799527737c977980c089a296427e7a">8f2a9ff3</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:21:39Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">now we don't need the 2to3 patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/1fe5f1357ef45d82811f7a978e02b19f21250942">1fe5f135</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:36:31Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixed #! for the python scripts
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/d67a666878603e5eaa4e35f3c248f3be903f20bc">d67a6668</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:47:44Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">finish transition to Python 3 package
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/5ddf068e7c9a0fefb56e41f923a1e7d4f220abf5">5ddf068e</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:47:59Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">add missing Perl dependency
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/7cbebda91333b90c45a776ffff02803a0efb6418">7cbebda9</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:48:01Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Set upstream metadata fields: Repository.</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/nanopolish/commit/b32c1f45f2b9646ce5ccf964be6c468f162c8b66">b32c1f45</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-11-08T17:49:07Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">py3 fixup
</pre>
</li>
</ul>
<h4>30 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#dea01dd89a3b602828e630677fde5d77c06441c8">
.travis.yml
</a>
</li>
<li class="file-stats">
<a href="#8221bff394b198ade0113ba9b2b9b5e50b5dc82a">
<span class="new-file">
+
DEVELOPERS.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
</a>
</li>
<li class="file-stats">
<a href="#8ec9a00bfd09b3190ac6b22251dbb1aa95a0579d">
README.md
</a>
</li>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<span class="deleted-file">
−
debian/compat
</span>
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#555c85016bd79aa8bbb523506af81b69d9c69534">
<span class="deleted-file">
−
debian/patches/2to3.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#334316bbe4929b8f94ac656703c87c0836e0f6e8">
<span class="new-file">
+
debian/patches/add_interp
</span>
</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="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
</a>
</li>
<li class="file-stats">
<a href="#aded7756cdea7c289134466a0d54da4f26d43abb">
docs/source/conf.py
</a>
</li>
<li class="file-stats">
<a href="#f31cdeff186e33cf2b03066772c111ae5218aaec">
docs/source/debug.rst
</a>
</li>
<li class="file-stats">
<a href="#2d2c9c258608b174cf4fe4c3a5ad976a13fc99ca">
docs/source/manual.rst
</a>
</li>
<li class="file-stats">
<a href="#25a119345b2ab98afec596f84420ea5ab628a3c1">
docs/source/quickstart_call_methylation.rst
</a>
</li>
<li class="file-stats">
<a href="#b533e7cbb3f06e3619863bd2a00e4f83882b3c8e">
docs/source/quickstart_polya.rst
</a>
</li>
<li class="file-stats">
<a href="#41660adec78594f229c01b0235788ce15e4799e4">
scripts/calculate_methylation_frequency.py
</a>
</li>
<li class="file-stats">
<a href="#a179b8d0065d58637970381d3ea01facee70712c">
scripts/convert_all_models.py
</a>
</li>
<li class="file-stats">
<a href="#084630baf4266f8ce63a4a492bf554e363d10a3a">
scripts/convert_model_to_header.py
</a>
</li>
<li class="file-stats">
<a href="#b82970d590c4f6776248edd4f094f8d23e60f797">
scripts/extract_reads_aligned_to_region.py
</a>
</li>
<li class="file-stats">
<a href="#a354eabac401b7f4ebb3a6bff8bfceafc31d80d9">
scripts/nanopolish_makerange.py
</a>
</li>
<li class="file-stats">
<a href="#dae6e97a9a46a6a65d45ce6275cc6e9424e0077f">
scripts/nanopolish_merge.py
</a>
</li>
<li class="file-stats">
<a href="#accc6e1bf582ffda3d446f39c6d88187711ded9a">
<span class="new-file">
+
scripts/polya_training/dump_signal.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#d52816e92d02b72f584b4eccaa295ad74871cf3b">
<span class="new-file">
+
scripts/polya_training/environment.yml
</span>
</a>
</li>
<li class="file-stats">
<a href="#d20492b3a0e27e63052ed471166cee57a40c5cb9">
<span class="new-file">
+
scripts/polya_training/hmmplot.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#a533feab8d3540e053620be917dd5fbf533458b2">
<span class="new-file">
+
scripts/polya_training/retrain_emission.py
</span>
</a>
</li>
<li class="file-stats">
<a href="#08a3f970161da42e1852297858a39ca5c3e4d485">
<span class="new-file">
+
scripts/polya_training/workflow.md
</span>
</a>
</li>
<li class="file-stats">
<a href="#30f30a527501f95bc409aa2919835ea54b6e1bba">
scripts/reestimate_polya_emissions.py
</a>
</li>
<li class="file-stats">
<a href="#64bd4890dcb435b7eb59baa3df18cff64a3668b1">
src/alignment/nanopolish_alignment_db.cpp
</a>
</li>
</ul>
<h5>The diff was not included because it is too large.</h5>
</div>
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<p style="font-size: small; color: #777;">
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