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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/jellyfish">Debian Med / jellyfish</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/d83323c7083df6231d0de2005da2f782bebcd17d">d83323c7</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:00:07Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debian/control: removed unused valgrind dependency
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/2201c9f77b9ca7ed41527c792ee4f8b0e30f29c9">2201c9f7</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:00:43Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version 4.3.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/fdce13cb35ac79d66e351cdeffa87affd1141d7d">fdce13cb</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:00:45Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">improve reproducibilty
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/c8ce22038d971c564e54e5cc1b5ac9b4c71f445f">c8ce2203</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:05:01Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">try to fix lack of pthread linking
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/509b9bdbd98b339af388a5a17f3f449f96f81bb9">509b9bdb</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:28:17Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove dependency_libs field in libjellyfish-2.0.la.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/jellyfish/commit/4d70d1cf5cdec9671a36a2360e1e7dc4743e1088">4d70d1cf</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2018-12-24T14:46:47Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">upload 2.2.10-2 to unstable
</pre>
</li>
</ul>
<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
</a>
</li>
<li class="file-stats">
<a href="#76258ff6f1526200cf3fda90e9f37fd9ee4b4364">
debian/patches/reproducible.patch
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/jellyfish/compare/6e0840884bea5d162b9dfd75812d66c99820976b...4d70d1cf5cdec9671a36a2360e1e7dc4743e1088#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">jellyfish (2.2.10-2) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="3" 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="LC3" class="line" lang="plaintext"> * debian/control: removed unused valgrind dependency</span>
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<td class="diff-line-num new new_line" data-linenumber="4" 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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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Standards-Version: 4.3.0</span>
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<td class="diff-line-num new new_line" data-linenumber="5" 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="LC5" class="line" lang="plaintext"> * Improve reproducibilty, drop /usr/share/doc/jellyfish-</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> examples/examples/swig*</span>
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<td class="diff-line-num new new_line" data-linenumber="7" 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="LC7" class="line" lang="plaintext"> * Remove dependency_libs field in libjellyfish-2.0.la.</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> Mon, 24 Dec 2018 06:46:27 -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">jellyfish (2.2.10-1) unstable; urgency=medium</span>
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<td class="diff-line-num 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">
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="3" 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"> * New upstream version</span>
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<br>
</li>
<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/jellyfish/compare/6e0840884bea5d162b9dfd75812d66c99820976b...4d70d1cf5cdec9671a36a2360e1e7dc4743e1088#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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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">@@ -12,14 +12,13 @@ Build-Depends: debhelper (>= 11~),</td>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> bc,</span>
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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"> time,</span>
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<td class="diff-line-num new_line" data-linenumber="14" 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="LC14" class="line" lang="plaintext"> procps,</span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> valgrind,</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> swig,</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> python3-all-dev,</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> python-all-dev,</span>
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18
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> dh-python,</span>
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19
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> perl,</span>
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21
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> chrpath</span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.4</span></span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">3.0</span></span>
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23
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/jellyfish</span>
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24
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/jellyfish.git</span>
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25
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Homepage: http://www.cbcb.umd.edu/software/jellyfish/</span>
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<li id="76258ff6f1526200cf3fda90e9f37fd9ee4b4364">
<a href="https://salsa.debian.org/med-team/jellyfish/compare/6e0840884bea5d162b9dfd75812d66c99820976b...4d70d1cf5cdec9671a36a2360e1e7dc4743e1088#76258ff6f1526200cf3fda90e9f37fd9ee4b4364"><strong>debian/patches/reproducible.patch</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">@@ -4,9 +4,9 @@ Bug-Debian: https://bugs.debian.org/863015</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="diff">Description: Enable reproducible build by avoiding the current</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="diff"> date with time zone in json output</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"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">a</span>/include/jellyfish/generic_file_header.hpp</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">b</span>/include/jellyfish/generic_file_header.hpp</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -180,6 +180,8 @@<span class="idiff left right"> public:</span></span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- <span class="idiff left right">jellyfish.orig</span>/include/jellyfish/generic_file_header.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ <span class="idiff left right">jellyfish</span>/include/jellyfish/generic_file_header.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -180,6 +180,8 @@</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="diff"> protected:</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="diff"> std::string get_hostname() const {</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">@@ -15,7 +15,7 @@ Description: Enable reproducible build by avoiding the current</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="diff"> struct utsname buf;</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="diff"> if(uname(&buf) == -1)</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="diff"> return "";</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -187,6 +189,8 @@<span class="idiff left right"> protected:</span></span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -187,6 +189,8 @@</span></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="diff"> }</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="diff"> </span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="diff"> std::string get_pwd() const {</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">@@ -24,7 +24,7 @@ Description: Enable reproducible build by avoiding the current</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="diff"> #ifdef PATH_MAX</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="diff"> size_t len = PATH_MAX;</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="diff"> #else</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -202,6 +206,16 @@<span class="idiff left right"> protected:</span></span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -202,6 +206,16 @@</span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="diff"> std::string get_localtime() const {</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="diff"> time_t t = time(0);</span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="diff"> std::string res(ctime(&t));</span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/jellyfish/compare/6e0840884bea5d162b9dfd75812d66c99820976b...4d70d1cf5cdec9671a36a2360e1e7dc4743e1088#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">@@ -13,12 +13,20 @@ export PKG_CONFIG_SYSROOT_DIR=${CURDIR}/debian/tmp/</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">export PERL_MM_OPT=INSTALLDIRS=vendor</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">export PYBUILD_BUILD_ARGS=build_ext --rpath "${CURDIR}/debian/tmp/usr/lib/${DEB_HOST_MULTIARCH}"</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">export DEB_LDFLAGS_MAINT_APPEND = -lpthread</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">%:</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> dh $@ # --with python3</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">override_dh_auto_install:</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"> dh_auto_install -- install-data</span>
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21
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"></span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext">override_dh_installexamples:</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> dh_installexamples</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> sed '/SRCDIR=/d' debian/jellyfish-examples/usr/share/doc/jellyfish-examples/examples/compat.sh*</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> sed '/BUILDDIR=/d' debian/jellyfish-examples/usr/share/doc/jellyfish-examples/examples/compat.sh*</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> rm -f debian/jellyfish-examples/usr/share/doc/jellyfish-examples/examples/swig*</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext">override_dh_install:</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> # dh_install -X*.a -X*.la -Xpkgconfig</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"># dh_install -ppython3-dna-jellyfish</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="40" 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="48" 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">@@ -40,6 +48,7 @@ override_dh_install:</td>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext"> --movedev "debian/tmp/usr/include/$(DEB_SOURCE)*/$(DEB_SOURCE)/*.hpp" usr/include/$(DEB_SOURCE) \</span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"> --movedev "debian/tmp/usr/include/$(DEB_SOURCE)*/$(DEB_SOURCE)/*.h" usr/include/$(DEB_SOURCE) \</span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"> debian/tmp/usr/lib/*/lib$(DEB_SOURCE)-*.so</span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="plaintext"> sed -i "/dependency_libs/ s/'.*'/''/" ./debian/libjellyfish-2.0-dev/usr/lib/${DEB_HOST_MULTIARCH}/*.la</span>
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43
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="44" 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="LC53" class="line" lang="plaintext">override_dh_auto_configure:</span>
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="plaintext"> dh_auto_configure -- --enable-swig --enable-perl-binding # --enable-python-binding</span>
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