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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools">Debian Med / art-nextgen-simulation-tools</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/855f0db99efa8b7190c54f9cf2dbba505d83bb02">855f0db9</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T03:59:08Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 11
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/ac09bf94703fbab284036e29448588fa3c2a2e1b">ac09bf94</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T03:59:11Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Point Vcs fields to salsa.debian.org
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/2f54f17516734f5ca4c0c11a4ee5d76c33ea28df">2f54f175</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T03:59:11Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.1.5
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/4eecbe814ae56d2a12400b1e211d7b071c038ea4">4eecbe81</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T04:17:58Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix watch file
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/2961a775b4e26ebe0bba0a3a15fcb5d1c3a7f537">2961a775</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T04:19:25Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">do not parse d/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/commit/9809f1aa5953f735362e3b8355b4e01f7ef37bd9">9809f1aa</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-29T04:29:54Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#68ef9f98c01c7eecd4c605cc26048a06f3304b79">
debian/watch
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/compare/bd68aec9f8cad60a18e8bd9c3594e3e23b9ce3d9...9809f1aa5953f735362e3b8355b4e01f7ef37bd9#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">art-nextgen-simulation-tools (20160605+dfsg-3) 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"> * debhelper 11</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="plaintext"> * Point Vcs fields to salsa.debian.org</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Standards-Version: 4.1.5</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Fix watch file</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"> * do not parse d/changelog</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"> -- Andreas Tille <tille@debian.org> Sun, 29 Jul 2018 06:19:35 +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">art-nextgen-simulation-tools (20160605+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> * Make sure tests will not use the .pl suffixed script</span>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/compare/bd68aec9f8cad60a18e8bd9c3594e3e23b9ce3d9...9809f1aa5953f735362e3b8355b4e01f7ef37bd9#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">0</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">1</span></span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/compare/bd68aec9f8cad60a18e8bd9c3594e3e23b9ce3d9...9809f1aa5953f735362e3b8355b4e01f7ef37bd9#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -3,12 +3,11 @@ Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.</td>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Uploaders: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 10),</span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> dh-autoreconf,</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 11~),</span>
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8
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"> libgsl-dev</span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">3.9.8</span></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">anonscm.debian.org/cgit/debian-med/art-nextgen-simulation-tools.git</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">anonscm.debian.org/git/debian-med</span>/art-nextgen-simulation-tools.git</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">Standards-Version: <span class="idiff left right">4.1.5</span></span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">salsa.debian.org/med-team/art-nextgen-simulation-tools</span></span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">salsa.debian.org/med-team</span>/art-nextgen-simulation-tools.git</span>
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12
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">Homepage: http://www.niehs.nih.gov/research/resources/software/biostatistics/art/</span>
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13
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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14
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Package: art-nextgen-simulation-tools</span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/compare/bd68aec9f8cad60a18e8bd9c3594e3e23b9ce3d9...9809f1aa5953f735362e3b8355b4e01f7ef37bd9#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">#!/usr/bin/make -f</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"><span class="idiff left right">DEBPKGNAME := $(shell dpkg-parsechangelog | awk '/^Source:/ {print $$2}')</span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"><span class="idiff left right">include /usr/share/dpkg/default.mk</span></span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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5
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">export DEB_BUILD_MAINT_OPTIONS = hardening=+all</span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>
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7
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">%:</span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"> dh $@<span class="idiff left right"> --with autoreconf</span></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> dh $@</span>
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9
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"></span>
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10
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10
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">override_dh_auto_test:</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">ifneq (,$(findstring nocheck,$(DEB_BUILD_OPTIONS)))</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">@@ -23,12 +23,12 @@ override_dh_install-arch:</td>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> dh_install -a</span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> # aln2bed.pl seems to be of general use - the other perl scripts are called by art_profiler_illumina</span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"> # see patch for the latter regarding PATH to *.pl files</span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="plaintext"> mkdir -p debian/$(DEB<span class="idiff left right">PKGNAME)/usr/lib/$(DEBPKGNAM</span>E)</span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="plaintext"> for pl in debian/$(DEB<span class="idiff left right">PKGNAM</span>E)/usr/bin/*.pl ; do \</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> mkdir -p debian/$(DEB<span class="idiff left right">_SOURCE)/usr/lib/$(DEB_SOURC</span>E)</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> for pl in debian/$(DEB<span class="idiff left right">_SOURC</span>E)/usr/bin/*.pl ; do \</span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> if [ `basename $${pl}` = aln2bed.pl ] ; then \</span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="plaintext"> mv $${pl} debian/$(DEB<span class="idiff left right">PKGNAM</span>E)/usr/bin/`basename $${pl} .pl` ; \</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> mv $${pl} debian/$(DEB<span class="idiff left right">_SOURC</span>E)/usr/bin/`basename $${pl} .pl` ; \</span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="plaintext"> else \</span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext"> mv $${pl} debian/$(DEB<span class="idiff left right">PKGNAME)/usr/lib/$(DEBPKGNAM</span>E) ; \</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> mv $${pl} debian/$(DEB<span class="idiff left right">_SOURCE)/usr/lib/$(DEB_SOURC</span>E) ; \</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"> fi ; \</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> done</span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext"></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">@@ -38,7 +38,7 @@ override_dh_installexamples-arch:</td>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> sed -e 's?=\.\./?=/usr/bin/?' \</span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> -e 's?^\.\./?/usr/bin/?' \</span>
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"> -e 's/aln2bed\.pl/aln2bed/' \</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext"> $$ex > debian/$(DEB<span class="idiff left right">PKGNAME)/usr/share/doc/$(DEBPKGNAM</span>E)/examples/`basename $$ex` ; \</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext"> $$ex > debian/$(DEB<span class="idiff left right">_SOURCE)/usr/share/doc/$(DEB_SOURC</span>E)/examples/`basename $$ex` ; \</span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="plaintext"> done</span>
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43
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext">override_dh_installchangelogs:</span>
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<li id="68ef9f98c01c7eecd4c605cc26048a06f3304b79">
<a href="https://salsa.debian.org/med-team/art-nextgen-simulation-tools/compare/bd68aec9f8cad60a18e8bd9c3594e3e23b9ce3d9...9809f1aa5953f735362e3b8355b4e01f7ef37bd9#68ef9f98c01c7eecd4c605cc26048a06f3304b79"><strong>debian/watch</strong></a>
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">version=4</span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">opts="uversionmangle=s/^(\d\d)(\d\d)(\d\d)$/$1.$2.$3/,repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \</span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext"> http://www.niehs.nih.gov/research/resources/software/biostatistics/art/ .*/artsrc[a-z]*(\d+)linuxtgz\.tgz</span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"></span></pre>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">opts="uversionmangle=s/\.//g,repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g,repack,compression=xz" \</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> https://www.niehs.nih.gov/research/resources/software/biostatistics/art/ .*/artsrc[a-z]*(\d[\d.]+)linux.*\.tgz</span></pre>
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