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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/spoa">Debian Med / spoa</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/spoa/commit/5805c3ed01503217d1a1aa95b7f9101dff7fcccf">5805c3ed</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-19T05:52:38Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix symbols file
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/spoa/commit/4e22c0f3df2921dd64f4026002e9d46a80dc2d35">4e22c0f3</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-19T05:53:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/spoa/commit/f9d112d5a21a9d2e2ea5c91c1ffbf07ab4062f26">f9d112d5</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-19T07:02:03Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add build-time test
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/spoa/commit/b8e6b910e268efe519c7d8eaa5323cbece828582">b8e6b910</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-19T07:04:22Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Add autopkgtest
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/spoa/commit/db0c004d249cee1863a40d572ea52a705a14ee12">db0c004d</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-19T07:09:35Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix test and upload to unstable
</pre>
</li>
</ul>
<h4>9 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
<span class="new-file">
+
debian/README.test
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</li>
<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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</li>
<li class="file-stats">
<a href="#ac00df700ff56524905a3edaffdc06db26cda1ef">
debian/libspoa1.1.3.symbols
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#a720eef7105f3ad5c41b1bfca84bbaae7f2b0464">
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+
debian/spoa.docs
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<li class="file-stats">
<a href="#41e0c7c0d01761e7103ce357c997f4cf71a8697f">
<span class="new-file">
+
debian/spoa.examples
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<li class="file-stats">
<a href="#83223a554d33ba7e1888274ff8ac43adb8147ba0">
<span class="new-file">
+
debian/tests/control
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<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
<span class="new-file">
+
debian/tests/run-unit-test
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</li>
</ul>
<h4>Changes:</h4>
<li id="f6a99a1e522a0f5ca122fd9818a9d8536ea59942">
<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#f6a99a1e522a0f5ca122fd9818a9d8536ea59942"><strong>debian/README.test</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="php"><span class="nx">Notes</span> <span class="nx">on</span> <span class="nx">how</span> <span class="k" style="font-weight: 600;">this</span> <span class="nx">package</span> <span class="nx">can</span> <span class="nx">be</span> <span class="nx">tested</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="err" style="color: #a61717; background-color: #e3d2d2;">────────────────────────────────────────</span></span>
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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="php"></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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<pre style="margin: 0;">+<span id="LC4" class="line" lang="php"><span class="nx">This</span> <span class="nx">package</span> <span class="nx">can</span> <span class="nx">be</span> <span class="nx">tested</span> <span class="nx">by</span> <span class="nx">running</span> <span class="nx">the</span> <span class="nx">provided</span> <span class="nx">test</span><span class="o" style="font-weight: 600;">:</span></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="php"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="php"> <span class="nx">sh</span> <span class="nx">run</span><span class="o" style="font-weight: 600;">-</span><span class="nx">unit</span><span class="o" style="font-weight: 600;">-</span><span class="nx">test</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="php"></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="php"><span class="nx">in</span> <span class="nx">order</span> <span class="nx">to</span> <span class="nx">confirm</span> <span class="nx">its</span> <span class="nx">integrity</span><span class="o" style="font-weight: 600;">.</span></span></pre>
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</li>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">spoa (1.1.3-2) 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 symbols file</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> Closes: #905387</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.2.1</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Add build-time test</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * Add autopkgtest</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Fri, 19 Oct 2018 09:04:34 +0200</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">spoa (1.1.3-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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3
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> * Initial release (Closes: #901145)</span>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="9" 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>
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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">@@ -9,8 +9,8 @@ Build-Depends: debhelper (>= 11~),</td>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> rename,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> libbioparser-dev,</span>
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libgtest-dev,</span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext"> zlib1g-dev<span class="idiff left right"> (>= 1.2.11~)</span></span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.4</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> zlib1g-dev</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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14
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/spoa</span>
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15
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/spoa.git</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">Homepage: https://github.com/rvaser/spoa</span>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#ac00df700ff56524905a3edaffdc06db26cda1ef"><strong>debian/libspoa1.1.3.symbols</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">@@ -66,8 +66,7 @@ libspoa.so.1.1.3 libspoa1.1.3 #MINVER#</td>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="plaintext"> _ZNK4spoa5Graph23is_topologically_sortedEv@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="plaintext"> _ZNK4spoa5Graph38initialize_multiple_sequence_alignmentERSt6vectorIjSaIjEE@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="plaintext"> _ZNK4spoa5Graph8subgraphEjjRSt6vectorIiSaIiEE@Base 1.1.3</span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="plaintext"> _ZNSt10_HashtableIjjSaIjENSt8__detail9_IdentityESt8equal_toIjESt4hashIjENS1_18_Mod_range_hashingENS1_20_Default_ranged_hashENS1_20_Prime_rehash_policyENS1_17_Hashtable_traitsILb0ELb1ELb1EEEE21_M_insert_unique_nodeEmmPNS1_10_Hash_nodeIjLb0EEE@Base 1.1.3</span>
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="plaintext"> _ZNSt10_HashtableIjjSaIjENSt8__detail9_IdentityESt8equal_toIjESt4hashIjENS1_18_Mod_range_hashingENS1_20_Default_ranged_hashENS1_20_Prime_rehash_policyENS1_17_Hashtable_traitsILb0ELb1ELb1EEEE9_M_rehashEmRKm@Base 1.1.3</span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="plaintext"> _ZNSt10_HashtableIjjSaIjENSt8__detail9_IdentityESt8equal_toIjESt4hashIjENS1_18_Mod_range_hashingENS1_20_Default_ranged_hashENS1_20_Prime_rehash_policyENS1_17_Hashtable_traitsILb0ELb1ELb1EEEE21_M_insert_unique_nodeEmmPNS1_10_Hash_nodeIjLb0EEEm@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="plaintext"> _ZNSt11_Deque_baseIjSaIjEE17_M_initialize_mapEm@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="plaintext"> _ZNSt11_Deque_baseIjSaIjEED1Ev@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="plaintext"> _ZNSt11_Deque_baseIjSaIjEED2Ev@Base 1.1.3</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">@@ -89,6 +88,7 @@ libspoa.so.1.1.3 libspoa1.1.3 #MINVER#</td>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="plaintext"> _ZNSt6vectorISt4pairIiiESaIS1_EE12emplace_backIJRKjiEEEvDpOT_@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="plaintext"> _ZNSt6vectorISt4pairIiiESaIS1_EE12emplace_backIJiRiEEEvDpOT_@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="plaintext"> _ZNSt6vectorISt4pairIiiESaIS1_EE12emplace_backIJjiEEEvDpOT_@Base 1.1.3</span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="plaintext"> _ZNSt6vectorISt4pairIiiESaIS1_EE17_M_realloc_insertIJjjEEEvN9__gnu_cxx17__normal_iteratorIPS1_S3_EEDpOT_@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="plaintext"> _ZNSt6vectorIbSaIbEE14_M_fill_insertESt13_Bit_iteratormb@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="plaintext"> _ZNSt6vectorIiSaIiEE14_M_fill_insertEN9__gnu_cxx17__normal_iteratorIPiS1_EEmRKi@Base 1.1.3</span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="plaintext"> _ZNSt6vectorIjSaIjEE12emplace_backIJRKiEEEvDpOT_@Base 1.1.3</span>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#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">@@ -24,3 +24,9 @@ override_dh_install:</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> --movedev debian/tmp/usr/include/* usr/include \</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> --movedev debian/tmp/usr/lib/*/pkgconfig usr/lib/$(DEB_HOST_MULTIARCH) \</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> debian/tmp/usr/lib/*/*.so</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> `find . -name spoa_test`</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> `find . -name spoa | grep bin` test/data/sample.fastq</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext">endif</span></pre>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#a720eef7105f3ad5c41b1bfca84bbaae7f2b0464"><strong>debian/spoa.docs</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">debian/tests/run-unit-test</span></pre>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#41e0c7c0d01761e7103ce357c997f4cf71a8697f"><strong>debian/spoa.examples</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">test/data/*</span></pre>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#83223a554d33ba7e1888274ff8ac43adb8147ba0"><strong>debian/tests/control</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Tests: run-unit-test</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">Depends: @</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">Restrictions: allow-stderr</span></pre>
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<a href="https://salsa.debian.org/med-team/spoa/compare/dcddfa283249108cc9eca21661f710e6733dd10e...db0c004d249cee1863a40d572ea52a705a14ee12#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f"><strong>debian/tests/run-unit-test</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;">#!/bin/bash</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="shell"><span class="nb" style="color: #0086b3;">set</span> <span class="nt" style="color: navy;">-e</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="shell"></span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="shell"><span class="nv" style="color: teal;">pkg</span><span class="o" style="font-weight: 600;">=</span>spoa</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="shell"></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="shell"><span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">[</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: teal;">$AUTOPKGTEST_TMP</span><span class="s2" style="color: #d14;">"</span> <span class="o" style="font-weight: 600;">=</span> <span class="s2" style="color: #d14;">""</span> <span class="o" style="font-weight: 600;">]</span> <span class="p">;</span> <span class="k" style="font-weight: 600;">then</span></span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="shell"><span class="k" style="font-weight: 600;"> </span><span class="nv" style="color: teal;">AUTOPKGTEST_TMP</span><span class="o" style="font-weight: 600;">=</span><span class="sb" style="color: #d14;">`</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: navy;">-d</span> /tmp/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">pkg</span><span class="k" style="font-weight: 600;">}</span><span class="nt" style="color: navy;">-test</span>.XXXXXX<span class="sb" style="color: #d14;">`</span></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">trap</span> <span class="s2" style="color: #d14;">"rm -rf </span><span class="nv" style="color: teal;">$AUTOPKGTEST_TMP</span><span class="s2" style="color: #d14;">"</span> 0 INT QUIT ABRT PIPE TERM</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="shell"><span class="k" style="font-weight: 600;">fi</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cp</span> <span class="nt" style="color: navy;">-a</span> /usr/share/doc/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: teal;">pkg</span><span class="k" style="font-weight: 600;">}</span>/examples/<span class="k" style="font-weight: 600;">*</span> <span class="nv" style="color: teal;">$AUTOPKGTEST_TMP</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="shell"></span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cd</span> <span class="nv" style="color: teal;">$AUTOPKGTEST_TMP</span></span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="shell"><span class="nb" style="color: #0086b3;">gunzip</span> <span class="nt" style="color: navy;">-r</span> <span class="k" style="font-weight: 600;">*</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="shell"></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="shell">spoa sample.fastq</span></pre>
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