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<h3>
Nilesh Patra pushed to branch master
at <a href="https://salsa.debian.org/med-team/pyranges">Debian Med / pyranges</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/cef289a79cc0683498212296cadbcf32eabc5fac">cef289a7</a></strong>
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<span>by Nilesh Patra</span>
<i>at 2020-06-21T11:23:54+00:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add missing sources for removed bam files
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/24886126bcae1925885399ece8d5d836fa923a47">24886126</a></strong>
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<span>by Nilesh Patra</span>
<i>at 2020-06-21T11:24:24+00:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Generate files during build
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<li>
<strong><a href="https://salsa.debian.org/med-team/pyranges/-/commit/0d655bf2ff0bed70dea13e13e4fd5c258ca3793a">0d655bf2</a></strong>
<div>
<span>by Nilesh Patra</span>
<i>at 2020-06-21T11:25:35+00:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add myself to uploaders
</pre>
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<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
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<li class="file-stats">
<a href="#6bd7c719c61bd948a1fd693ee2687cbdd2357934">
<span class="new-file">
+
debian/missing-sources/control.sam
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</a>
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<li class="file-stats">
<a href="#d074e534d708efa9f70fa78d38b633215f1b4826">
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+
debian/missing-sources/test_sorted.sam
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">pyranges (0.0.<span class="idiff left right">58</span>-1) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">pyranges (0.0.<span class="idiff left right">79+ds</span>-1) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * Initial release (Closes: #963015)</span>
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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -2,7 +2,7 @@ Source: pyranges</td>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Section: python</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">Uploaders: Steffen Moeller <moeller@debian.org></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">Uploaders: Steffen Moeller <moeller@debian.org><span class="idiff left right">, Nilesh Patra <npatra974@gmail.com></span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper-compat (= 13),</span>
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<td class="diff-line-num old_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="7" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> dh-python,</span>
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<td class="diff-line-num old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> python3-setuptools,</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,7 +12,8 @@ Build-Depends: debhelper-compat (= 13),</td>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> python3-pytest <!nocheck>,</span>
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<td class="diff-line-num old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> python3-sorted-nearest,</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> python3-hypothesis,</span>
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<td class="diff-line-num old old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> bedtools</span>
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<td class="diff-line-num new old_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> bedtools,</span>
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<td class="diff-line-num new new_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> samtools</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Standards-Version: 4.5.0</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Homepage: https://github.com/biocore-ntnu/pyranges</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/pyranges</span>
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<li id="6bd7c719c61bd948a1fd693ee2687cbdd2357934">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a#6bd7c719c61bd948a1fd693ee2687cbdd2357934"><strong>debian/missing-sources/control.sam</strong></a>
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<li id="d074e534d708efa9f70fa78d38b633215f1b4826">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a#d074e534d708efa9f70fa78d38b633215f1b4826"><strong>debian/missing-sources/test_sorted.sam</strong></a>
The diff for this file was not included because it is too large.
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/pyranges/-/compare/3deb6282fb86ff18bb160044afadf52cda1c1680...0d655bf2ff0bed70dea13e13e4fd5c258ca3793a#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -13,15 +13,11 @@ export PYBUILD_BEFORE_TEST=cp -av {dir}/tests/*.bed {build_dir}/tests && \</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">%:</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> dh $@ --with python3 --buildsystem=pybuild</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"># If you need to rebuild the Sphinx documentation</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext"># Add spinxdoc to the dh --with line</span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext">#</span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext"># And uncomment the following lines</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext">#override_dh_auto_build: export http_proxy=127.0.0.1:9</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext">#override_dh_auto_build: export https_proxy=127.0.0.1:9</span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext">#override_dh_auto_build:</span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext"># dh_auto_build</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext"># PYTHONPATH=. python3 -m sphinx -N -bhtml docs/ build/html # HTML generator</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"># PYTHONPATH=. python3 -m sphinx -N -bman docs/ build/man # Manpage generator</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">override_dh_auto_build:</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> dh_auto_build</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> echo 'Generating corresponding files ...'</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> cat debian/missing-sources/test_sorted.sam| samtools view -Sb - > tests/test_data/test_sorted.bam</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> cat debian/missing-sources/control.sam| samtools view -Sb - > pyranges/example_data/control.bam</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> samtools index tests/test_data/test_sorted.bam tests/test_data/test_sorted.bam.bai</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> samtools index pyranges/example_data/control.bam pyranges/example_data/control.bam.bai</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"></span></pre>
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