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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/lumpy-sv">Debian Med / lumpy-sv</a>
</h3>
<h4>
Commits:
</h4>
<ul>
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<strong><a href="https://salsa.debian.org/med-team/lumpy-sv/-/commit/fd4cb566c98e27fadb93961e125deac86ac1b4e1">fd4cb566</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-01-13T10:34:09+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix configure patch according to a hint of Ken Yamaguchi
</pre>
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<strong><a href="https://salsa.debian.org/med-team/lumpy-sv/-/commit/280273f213a68f19bfef25e3c4f860d10a434076">280273f2</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-01-13T10:34:23+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Standards-Version: 4.5.1
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<strong><a href="https://salsa.debian.org/med-team/lumpy-sv/-/commit/e25ffad963d1fa7c29d7f01cb92dec3dcfac9562">e25ffad9</a></strong>
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<span>by Andreas Tille</span>
<i>at 2021-01-13T10:43:22+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Ready to upload to unstable
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<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#6864ced7557ec33a7ee70c7b0c75b076f84f4fac">
debian/patches/lumpyexpress.config.patch
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/lumpy-sv/-/compare/28c43251e003139c7eda70735389d40fcb594c91...e25ffad963d1fa7c29d7f01cb92dec3dcfac9562#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">lumpy-sv (0.3.1+dfsg-5) unstable; 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"> * Fix configure patch according to a hint of Ken Yamaguchi</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Closes: #980005</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.5.1 (routine-update)</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Wed, 13 Jan 2021 10:34:36 +0100</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">lumpy-sv (0.3.1+dfsg-4) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> * Link only in lumpy-sv binary (Closes: #973622)</span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/lumpy-sv/-/compare/28c43251e003139c7eda70735389d40fcb594c91...e25ffad963d1fa7c29d7f01cb92dec3dcfac9562#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="15" 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">@@ -15,7 +15,7 @@ Build-Depends: debhelper-compat (= 13),</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> libcurl4-gnutls-dev,</span>
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<td class="diff-line-num old_line" data-linenumber="16" 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="LC16" class="line" lang="plaintext"> samtools,</span>
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<td class="diff-line-num new_line" data-linenumber="17" 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="LC17" class="line" lang="plaintext"> python3-pysam</span>
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<td class="diff-line-num old old_line" data-linenumber="18" 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="LC18" class="line" lang="plaintext">Standards-Version: 4.5.<span class="idiff left right">0</span></span>
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<td class="diff-line-num new old_line" data-linenumber="19" 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="LC18" class="line" lang="plaintext">Standards-Version: 4.5.<span class="idiff left right">1</span></span>
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<td class="diff-line-num old_line" data-linenumber="19" 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="LC19" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/lumpy-sv</span>
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<td class="diff-line-num old_line" data-linenumber="20" 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="LC20" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/lumpy-sv.git</span>
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<td class="diff-line-num old_line" data-linenumber="21" 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="LC21" class="line" lang="plaintext">Homepage: https://github.com/arq5x/lumpy-sv</span>
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<li id="6864ced7557ec33a7ee70c7b0c75b076f84f4fac">
<a href="https://salsa.debian.org/med-team/lumpy-sv/-/compare/28c43251e003139c7eda70735389d40fcb594c91...e25ffad963d1fa7c29d7f01cb92dec3dcfac9562#6864ced7557ec33a7ee70c7b0c75b076f84f4fac"><strong>debian/patches/lumpyexpress.config.patch</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="27" 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">@@ -27,8 +27,8 @@ Description: Adapt paths to Debian locations</td>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $PYTHON_TEST -c "import imp; imp.find_module('pysam')"</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $PYTHON_TEST -c "import imp; imp.find_module('numpy')"</span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $PYTHON_TEST -c "<span class="idiff left right">import importlib; importlib.util.find_spec('pysam')</span>"</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $PYTHON_TEST -c "<span class="idiff left right">import importlib; importlib.util.find_spec('numpy')</span>"</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $PYTHON_TEST -c "<span class="idiff left right">from importlib import util; print('pysam not found') if util.find_spec('pysam') is None else None</span>"</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $PYTHON_TEST -c "<span class="idiff left right">from importlib import util; print('numpy not found') if util.find_spec('numpy') is None else None</span>"</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="diff"> }</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="diff"> ## usage</span>
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