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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/scrm">Debian Med / scrm</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad">4d3434a4</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-12-03T09:25:14+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Examples are not needed to run autopkgtest
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<h4>5 changed files:</h4>
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<a href="#2e46eb1a1c9e97a63ee8338a48cb3c6f7eeb8c9d">
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debian/scrm-examples.install
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<li class="file-stats">
<a href="#f0d63cdb80958b15f48386f7972ca34625bb3a80">
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debian/scrm.install
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debian/scrm.manpages
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<li class="file-stats">
<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
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<h4>Changes:</h4>
<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="24" 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">@@ -24,19 +24,3 @@ Description: simulator of evolution of genetic sequences</td>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> efficient. Compared to other coalescent simulators, it can simulate</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> chromosome-scale sequences without a measureable reduction of genetic linkage</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> between different sites.</span></pre>
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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">Package: scrm-examples</span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext">Architecture: all</span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext">Description: simulator of evolution of genetic sequences (example data)</span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="plaintext"> scrm simulates the evolution of genetic sequences.</span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext"> It takes a neutral evolutionary model as input, and generates random sequences</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> that evolved under the model. As coalescent simulator, it traces the ancestry</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext"> of the sampled sequences backwards in time and is therefore extremely</span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="plaintext"> efficient. Compared to other coalescent simulators, it can simulate</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext"> chromosome-scale sequences without a measureable reduction of genetic linkage</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="plaintext"> between different sites.</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="plaintext"> This package contains example data which are used in the package test suite.</span></pre>
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<a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad#2e46eb1a1c9e97a63ee8338a48cb3c6f7eeb8c9d"><strong>debian/scrm-examples.install</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="php"><span class="n" style="color: #333;">tests</span><span class="o" style="font-weight: 600;">/*</span> <span class="n" style="color: #333;">usr</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">share</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">doc</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">scrm</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">examples</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="php"><span class="n" style="color: #333;">debian</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">tests</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">run</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">unit</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">test</span> <span class="n" style="color: #333;">usr</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">share</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">doc</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">scrm</span><span class="o" style="font-weight: 600;">/</span></span></pre>
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<a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad#f0d63cdb80958b15f48386f7972ca34625bb3a80"><strong>debian/scrm.install</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="php"><span class="n" style="color: #333;">usr</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">bin</span> <span class="n" style="color: #333;">usr</span></span></pre>
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<a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad#11712ea715dc3a858ce3b97a01624dfd61fcf2c6"><strong>debian/scrm.manpages</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">usr/share/man/man1/*.1</span></pre>
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<a href="https://salsa.debian.org/med-team/scrm/-/commit/4d3434a47bc7a3ea0ae0c10a89a609efa76307ad#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f"><strong>debian/tests/run-unit-test</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">@@ -6,20 +6,7 @@ pkg="scrm"</td>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="shell"><span class="nb" style="color: #0086b3;">export </span><span class="nv" style="color: #008080;">LC_ALL</span><span class="o" style="font-weight: 600;">=</span>C.UTF-8</span>
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<pre style="margin: 0;"> <span id="LC7" 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="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="k" style="font-weight: 600;">}</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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8
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="shell"><span class="k" style="font-weight: 600;"> </span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="o" style="font-weight: 600;">=</span><span class="si" style="color: #d14;">$(</span><span class="nb" style="color: #0086b3;">mktemp</span> <span class="nt" style="color: #000080;">-d</span> /tmp/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">pkg</span><span class="k" style="font-weight: 600;">}</span><span class="nt" style="color: #000080;">-test</span>.XXXXXX<span class="si" style="color: #d14;">)</span></span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="shell"> <span class="c" style="color: #998; font-style: italic;"># Double quote below to expand the temporary directory variable now versus</span></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="shell"> <span class="c" style="color: #998; font-style: italic;"># later is on purpose.</span></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="shell"> <span class="c" style="color: #998; font-style: italic;"># shellcheck disable=SC2064</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="shell"><span class="c" style="color: #998; font-style: italic;"># trap "rm -rf ${AUTOPKGTEST_TMP}" 0 INT QUIT ABRT PIPE TERM</span></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="shell"><span class="k" style="font-weight: 600;">fi</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="shell"></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cp</span> <span class="nt" style="color: #000080;">-a</span> /usr/share/doc/<span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">pkg</span><span class="k" style="font-weight: 600;">}</span>/examples/<span class="k" style="font-weight: 600;">*</span> <span class="s2" style="color: #d14;">"</span><span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="k" style="font-weight: 600;">}</span><span class="s2" style="color: #d14;">"</span></span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="shell"></span>
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17
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="shell"><span class="nb" style="color: #0086b3;">cd</span> <span class="s2" style="color: #d14;">"</span><span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="k" style="font-weight: 600;">}</span><span class="s2" style="color: #d14;">"</span></span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="shell"><span class="nb" style="color: #0086b3;">gunzip</span> <span class="nt" style="color: #000080;">-r</span> <span class="k" style="font-weight: 600;">*</span></span>
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19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="shell"></span>
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20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="shell"><span class="nv" style="color: #008080;">supports_sanitizers</span><span class="o" style="font-weight: 600;">=</span><span class="nv" style="color: #008080;">$?</span></span>
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21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="shell"><span class="k" style="font-weight: 600;">if</span> <span class="o" style="font-weight: 600;">[</span> <span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$supports_sanitizers</span><span class="s2" style="color: #d14;">"</span> <span class="o" style="font-weight: 600;">=</span> <span class="s2" style="color: #d14;">"0"</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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22
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="shell"><span class="k" style="font-weight: 600;"> </span><span class="nb" style="color: #0086b3;">echo</span> <span class="s2" style="color: #d14;">"Using address sanitizers"</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">trap</span> <span class="s2" style="color: #d14;">"rm -rf </span><span class="k" style="font-weight: 600;">${</span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="k" style="font-weight: 600;">}</span><span class="s2" style="color: #d14;">"</span> 0 INT QUIT ABRT PIPE TERM</span>
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23
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="shell"><span class="k" style="font-weight: 600;">fi</span></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="shell">test_scrm <span class="o" style="font-weight: 600;">()</span> <span class="o" style="font-weight: 600;">{</span></span>
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