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<h3>
Michael R. Crusoe pushed to branch master
at <a href="https://salsa.debian.org/med-team/odgi">Debian Med / odgi</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/odgi/-/commit/f1ca8a56574e3a6ea633bcea947585e41d37b2e9">f1ca8a56</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-03T13:46:16+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Respect the AMD64 baseline
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/odgi/-/commit/646d95b883dc7a7db9a84d7362be0983e65f2693">646d95b8</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-03T13:47:02+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Test during the build
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/odgi/-/commit/feae5d1eb0869299b386448cba710c3f59a7a81d">feae5d1e</a></strong>
<div>
<span>by Michael R. Crusoe</span>
<i>at 2020-05-03T13:47:08+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">install more
</pre>
</li>
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<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#89ec889a97ef3e995c7a298555bdd24c86382b0b">
debian/libodgi-dev.install
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<li class="file-stats">
<a href="#5905cbba1a70e2bcdaa75364ff802a24c7edad68">
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+
debian/libodgi.install
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<li class="file-stats">
<a href="#4981fe37c2def05e627148343049bbf63f279003">
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+
debian/patches/baseline
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</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<h4>Changes:</h4>
<li id="89ec889a97ef3e995c7a298555bdd24c86382b0b">
<a href="https://salsa.debian.org/med-team/odgi/-/compare/48b9876c4e344d00970acf7ec31ff8a45e8cf65e...feae5d1eb0869299b386448cba710c3f59a7a81d#89ec889a97ef3e995c7a298555bdd24c86382b0b"><strong>debian/libodgi-dev.install</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="php"><span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="k" style="font-weight: 600;">include</span><span class="o" style="font-weight: 600;">/*</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="php"><span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">lib</span><span class="o" style="font-weight: 600;">/</span><span class="nx">libodgi</span><span class="o" style="font-weight: 600;">.</span><span class="nx">a</span></span></pre>
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</li>
<li id="5905cbba1a70e2bcdaa75364ff802a24c7edad68">
<a href="https://salsa.debian.org/med-team/odgi/-/compare/48b9876c4e344d00970acf7ec31ff8a45e8cf65e...feae5d1eb0869299b386448cba710c3f59a7a81d#5905cbba1a70e2bcdaa75364ff802a24c7edad68"><strong>debian/libodgi.install</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="php"><span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">lib</span><span class="o" style="font-weight: 600;">/</span><span class="nx">libodgi</span><span class="o" style="font-weight: 600;">.</span><span class="nx">so</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="php"><span class="nx">usr</span><span class="o" style="font-weight: 600;">/</span><span class="nx">lib</span><span class="o" style="font-weight: 600;">/</span><span class="nx">odgi</span><span class="o" style="font-weight: 600;">.</span><span class="nx">cpython</span><span class="o" style="font-weight: 600;">-*.</span><span class="nx">so</span></span></pre>
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<li id="4981fe37c2def05e627148343049bbf63f279003">
<a href="https://salsa.debian.org/med-team/odgi/-/compare/48b9876c4e344d00970acf7ec31ff8a45e8cf65e...feae5d1eb0869299b386448cba710c3f59a7a81d#4981fe37c2def05e627148343049bbf63f279003"><strong>debian/patches/baseline</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Author: Michael R. Cruso <michael.crusoe@gmail.com></span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"><span class="p">Description: Respect the amd64 baseline</span></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;">--- odgi.orig/CMakeLists.txt</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;">+++ odgi/CMakeLists.txt</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="p">@@ -8,8 +8,8 @@</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> set(CMAKE_CXX_STANDARD 14)</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> # Use all standard-compliant optimizations</span>
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<td class="diff-line-num new new_line" data-linenumber="9" 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="LC9" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${OpenMP_C_FLAGS} -O3 -mcx16 -g")</span></span>
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<td class="diff-line-num new new_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${OpenMP_CXX_FLAGS} -O3 -mcx16 -g")</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${OpenMP_C_FLAGS} -O3 -g")</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${OpenMP_CXX_FLAGS} -O3 -g")</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> if (${CMAKE_SYSTEM_NAME} MATCHES "Darwin")</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> # assumes clang build</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- odgi.orig/deps/sdsl-lite/CMakeLists.txt</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ odgi/deps/sdsl-lite/CMakeLists.txt</span></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="p">@@ -82,19 +82,6 @@</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> endif()</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> endif()</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-include(CheckSSE4_2)</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-if( BUILTIN_POPCNT )</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- if( CMAKE_COMPILER_IS_GNUCXX )</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- append_cxx_compiler_flags("-msse4.2 -march=native" "GCC" CMAKE_CXX_OPT_FLAGS)</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- endif()</span></span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- if( CMAKE_COMPILER_IS_GNUCXX )</span></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;">- append_cxx_compiler_flags("-msse4.2 -march=native" "CLANG" CMAKE_CXX_OPT_FLAGS)</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;">- endif()</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- if( CMAKE_COMPILER_IS_INTEL )</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- append_cxx_compiler_flags("-msse4.2 -march=native" "INTEL" CMAKE_CXX_FLAGS)</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- endif()</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-endif()</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> # check for demangle support to get pretty C++ class names</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"> include(FindCxaDemangle)</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"> if( HAVE_CXA_DEMANGLE )</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- odgi.orig/src/main.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ odgi/src/main.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"><span class="p">@@ -31,10 +31,6 @@</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"> cerr << endl << "For more commands, type `odgi help`." << endl;</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-// We make sure to compile main for the lowest common denominator architecture.</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-// This works on GCC and Clang. But we have to decalre main and then define it.</span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-int main(int argc, char *argv[]) __attribute__((__target__("arch=x86-64")));</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"> int main(int argc, char *argv[]) {</span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="diff"> // set a higher value for tcmalloc warnings</span></pre>
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<a href="https://salsa.debian.org/med-team/odgi/-/compare/48b9876c4e344d00970acf7ec31ff8a45e8cf65e...feae5d1eb0869299b386448cba710c3f59a7a81d#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">use_packaged_libtsl-hopscotch-map-dev</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">spelling</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">baseline</span></pre>
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<a href="https://salsa.debian.org/med-team/odgi/-/compare/48b9876c4e344d00970acf7ec31ff8a45e8cf65e...feae5d1eb0869299b386448cba710c3f59a7a81d#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">@@ -20,12 +20,7 @@ export DEB_BUILD_MAINT_OPTIONS=hardening=+all</td>
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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"> dh $@</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="plaintext">### When overriding auto_test make sure DEB_BUILD_OPTIONS will be respected</span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="plaintext">#override_dh_auto_test:</span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="plaintext">#ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"># do_stuff_for_testing</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext">#endif</span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext">### If you **really** can not use uscan (even not with mode=git) use a debian/get-orig-script</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext">#get-orig-source:</span>
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31
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"># . debian/get-orig-source</span></pre>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext">override_dh_auto_test:</span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> bin/odgi test</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext">endif</span></pre>
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