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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/unicycler">Debian Med / unicycler</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/unicycler/commit/2623e20a0e672162d8b323c9a95ead2d325fdd7d">2623e20a</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-01-18T10:35:16Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Inherit and use LDFLAGS and CPPFLAGS
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/unicycler/commit/041644251fa5a5303c0cd93e5444b103cdb3a3aa">04164425</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-01-18T10:35:59Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Mark unicycler-data as Multi-Arch: foreign, as recommended by the Multiarch hinter.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/unicycler/commit/6d5abf3dab4928cb6a555eb2b83c2f5eb1b74ecd">6d5abf3d</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2019-01-18T11:05:29Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.3.0, no changes needed
</pre>
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<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#e67eff5235e29f7a320f399282e20e55654a0abf">
<span class="new-file">
+
debian/patches/append_flags
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</a>
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/unicycler/compare/fd8e7ad4395656f994000318eeea921abfa21b28...6d5abf3dab4928cb6a555eb2b83c2f5eb1b74ecd#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">unicycler (0.4.7+dfsg-3) 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"> * Team upload.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Inherit and use LDFLAGS and CPPFLAGS</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Mark unicycler-data as Multi-Arch: foreign, as recommended by the</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> Multiarch hinter.</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * Standards-Version: 4.3.0, no changes needed</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"> -- Michael R. Crusoe <michael.crusoe@gmail.com> Fri, 18 Jan 2019 02:34:45 -0800</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">unicycler (0.4.7+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> [ Andreas Tille ]</span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/unicycler/compare/fd8e7ad4395656f994000318eeea921abfa21b28...6d5abf3dab4928cb6a555eb2b83c2f5eb1b74ecd#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_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">...</td>
<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -17,7 +17,7 @@ Build-Depends: debhelper (>= 11~),</td>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> spades,</span>
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<td class="diff-line-num new_line" data-linenumber="18" 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="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> libseqan2-dev,</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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<td class="diff-line-num new_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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> zlib1g-dev</span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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<td class="diff-line-num new old_line" data-linenumber="21" 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="LC20" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">3.0</span></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">Vcs-Browser: https://salsa.debian.org/med-team/unicycler</span>
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<td class="diff-line-num old_line" data-linenumber="22" 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="LC22" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/unicycler.git</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Homepage: https://github.com/rrwick/Unicycler</span>
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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">@@ -45,6 +45,7 @@ Description: hybrid assembly pipeline for bacterial genomes</td>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext">Package: unicycler-data</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext">Architecture: all</span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="plaintext">Multi-Arch: foreign</span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext">Depends: ${misc:Depends}</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext">Description: hybrid assembly pipeline for bacterial genomes (data package)</span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"> Unicycler is an assembly pipeline for bacterial genomes. It can assemble</span>
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<li id="e67eff5235e29f7a320f399282e20e55654a0abf">
<a href="https://salsa.debian.org/med-team/unicycler/compare/fd8e7ad4395656f994000318eeea921abfa21b28...6d5abf3dab4928cb6a555eb2b83c2f5eb1b74ecd#e67eff5235e29f7a320f399282e20e55654a0abf"><strong>debian/patches/append_flags</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">From: Michael R. Crusoe <michael.crusoe@gmail.com></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff">Subject: Inherit and use LDFLAGS and CPPFLAGS</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- unicycler.orig/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ unicycler/Makefile</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -66,7 +66,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> # These flags are required for the build to work.</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> FLAGS = -std=c++14 -Iunicycler/include -fPIC</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-LDFLAGS = -shared -lz</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+LDFLAGS += -shared -lz</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> # Platform-specific stuff (for Seqan)</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -115,4 +115,4 @@</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> $(RM) $(TARGET)</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> </span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> %.o: %.cpp $(HEADERS)</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- $(CXX) $(FLAGS) $(CXXFLAGS) -c -o $@ $<</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ $(CXX) $(CPPFLAGS) $(FLAGS) $(CXXFLAGS) -c -o $@ $<</span></span></pre>
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<a href="https://salsa.debian.org/med-team/unicycler/compare/fd8e7ad4395656f994000318eeea921abfa21b28...6d5abf3dab4928cb6a555eb2b83c2f5eb1b74ecd#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">spades.patch</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"># bowtie.patch </span>
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">install_wo_extra_steps.patch</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">append_flags</span></pre>
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