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<h3>
Étienne Mollier pushed to branch master
at <a href="https://salsa.debian.org/med-team/biobambam2">Debian Med / biobambam2</a>
</h3>
<h4>
Commits:
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<strong><a href="https://salsa.debian.org/med-team/biobambam2/-/commit/718cc055092ec106ceb829a9b4eecfe44d827d06">718cc055</a></strong>
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<span>by Étienne Mollier</span>
<i>at 2021-08-27T16:12:07+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">d/t/run-unit-test: skip bamsormadup test on i386
The memory requirements exceed the capabilities of virtual memory
on that architecture, leading to test failure. Other tests should
be passing fine.
</pre>
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<strong><a href="https://salsa.debian.org/med-team/biobambam2/-/commit/8671b1757298f38d5488eb8033a567756e02c2d0">8671b175</a></strong>
<div>
<span>by Étienne Mollier</span>
<i>at 2021-08-27T22:37:57+02:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">update changelog
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<h4>2 changed files:</h4>
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<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
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<a href="#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
debian/tests/run-unit-test
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<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/biobambam2/-/compare/81dd7b7e23e1dcc763939c7b75df933c6bd84638...8671b1757298f38d5488eb8033a567756e02c2d0#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">biobambam2 (2.0.183+ds-2) 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"> * d/t/run-unit-test: skip bamsormadup test on i386; allows substancial</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> autopkgtest on that architecture as well.</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> -- Étienne Mollier <emollier@debian.org> Fri, 27 Aug 2021 16:40:22 +0200</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">biobambam2 (2.0.183+ds-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> * New upstream version</span>
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<li id="8c77cc51b09ef1f7b294222180bcdb53ebb70e2f">
<a href="https://salsa.debian.org/med-team/biobambam2/-/compare/81dd7b7e23e1dcc763939c7b75df933c6bd84638...8671b1757298f38d5488eb8033a567756e02c2d0#8c77cc51b09ef1f7b294222180bcdb53ebb70e2f"><strong>debian/tests/run-unit-test</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">@@ -17,8 +17,15 @@ cp -a /usr/share/doc/${pkg}/examples/* "${AUTOPKGTEST_TMP}"</td>
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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;">${</span><span class="nv" style="color: #008080;">AUTOPKGTEST_TMP</span><span class="k" style="font-weight: 600;">}</span><span class="s2" style="color: #d14;">"</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="nt" style="color: #000080;">-e</span> <span class="s2" style="color: #d14;">"</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[93m</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[1mTest 1</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[0m"</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="shell">bamsormadup < SRR11728627.bam <span class="o" style="font-weight: 600;">></span> SRR11728627.sorted.bam</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="nt" style="color: #000080;">-e</span> <span class="s2" style="color: #d14;">"</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[92m</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[1mPassed</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[0m"</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="shell"><span class="k" style="font-weight: 600;">case</span> <span class="s2" style="color: #d14;">"</span><span class="si" style="color: #d14;">$(</span>dpkg <span class="nt" style="color: #000080;">--print-architecture</span><span class="si" style="color: #d14;">)</span><span class="s2" style="color: #d14;">"</span> <span class="k" style="font-weight: 600;">in</span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="shell">i386<span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">echo</span> <span class="nt" style="color: #000080;">-e</span> <span class="s2" style="color: #d14;">"</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[91m</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[1mSkipped on i386 due to memory requirements</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[0m"</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="shell"> <span class="p">;;</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="shell"><span class="k" style="font-weight: 600;">*</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="shell"> bamsormadup < SRR11728627.bam <span class="o" style="font-weight: 600;">></span> SRR11728627.sorted.bam</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="shell"> <span class="nb" style="color: #0086b3;">echo</span> <span class="nt" style="color: #000080;">-e</span> <span class="s2" style="color: #d14;">"</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[92m</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[1mPassed</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[0m"</span></span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="shell"> <span class="p">;;</span></span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="shell"><span class="k" style="font-weight: 600;">esac</span></span>
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29
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span></span>
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30
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="shell"></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="shell"><span class="nb" style="color: #0086b3;">echo</span> <span class="nt" style="color: #000080;">-e</span> <span class="s2" style="color: #d14;">"</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[93m</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[1mTest 2</span><span class="se" style="color: #d14;">\e</span><span class="s2" style="color: #d14;">[0m"</span></span>
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