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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/blat">Debian Med / blat</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/blat/commit/df9eb27e8cef3641cbd3a966b40e3dcb95c72091">df9eb27e</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:31:11Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/blat/commit/4882e6128e2a382d57e0fd84f344588813045d4d">4882e612</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:34:47Z</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/blat/commit/bf18a8920340b3752459bb0678107f1ea6b69456">bf18a892</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:34:47Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.3.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/blat/commit/f6c59f37fc6fb99772db6fb8b6056ff37479fa48">f6c59f37</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:34:48Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Secure URI in copyright format
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/blat/commit/1a96963b509671738e3e6afbd03fc8404e27696f">1a96963b</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:35:04Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Respect DEB_BUILD_OPTIONS in override_dh_auto_test target
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/blat/commit/cb307b7c509050b53e4667ea677eace01d4e9c37">cb307b7c</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:36:24Z</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/blat/commit/8d32bf58404029ad30e9c62391daede5984ba883">8d32bf58</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-04-08T09:39:44Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove autogenerated changes
</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="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/blat/compare/06fd6949dff5768a4e3a7a8c1b32e656df36d1f5...8d32bf58404029ad30e9c62391daede5984ba883#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">blat (35-1) <span class="idiff left right">unstable</span>; urgency=low</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">blat (35-1) <span class="idiff left right">UNRELEASED</span>; urgency=low</span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> * Initial release (Closes: #740601)</span>
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<td class="diff-line-num new_line" data-linenumber="4" 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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Wed, 26 Feb 2014 13:52:17 +01</span>00</span></pre>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> <span class="idiff left right">Mon, 08 Apr 2019 11:36:24 +02</span>00</span></pre>
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<br>
</li>
<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/blat/compare/06fd6949dff5768a4e3a7a8c1b32e656df36d1f5...8d32bf58404029ad30e9c62391daede5984ba883#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"><span class="idiff left right">9</span></span></pre>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">12</span></span></pre>
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</li>
<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/blat/compare/06fd6949dff5768a4e3a7a8c1b32e656df36d1f5...8d32bf58404029ad30e9c62391daede5984ba883#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Source: blat</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">Section: non-free/science</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">Priority: optional</span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org></span>
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<td class="diff-line-num 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">
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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="LC6" class="line" lang="plaintext">Build-Depends: debhelper (>= 9),</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext"> libpng12-dev | libpng-dev</span>
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<td class="diff-line-num old old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">Standards-Version: 3.9.5</span>
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<td class="diff-line-num old old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext">Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/blat.git</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext">Vcs-Git: git://anonscm.debian.org/debian-med/blat.git</span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext">Section: non-free/science</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">XS-Autobuild: no</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">Priority: optional</span>
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7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper (>= 12~),</span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> libpng-dev</span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">Standards-Version: 4.3.0</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/blat</span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/blat.git</span>
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11
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12
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">Homepage: http://genome.ucsc.edu/cgi-bin/hgBlat</span>
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12
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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13
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Package: blat</span>
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14
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Architecture: any</span>
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15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext">Depends: ${shlibs:Depends}, ${misc:Depends}</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext">Depends: ${shlibs:Depends},</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> ${misc:Depends}</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext">Description: BLAST-Like Alignment Tool</span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> BLAT on DNA is designed to quickly find sequences of 95% and greater</span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext"> similarity of length 25 bases or more. It may miss more divergent or shorter</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="29" 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="31" 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">@@ -29,4 +31,3 @@ Description: BLAST-Like Alignment Tool</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"> of probable homology, which are then loaded into memory for a detailed</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"> alignment. Protein BLAT works in a similar manner, except with 4-mers rather</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext"> than 11-mers. The protein index takes a little more than 2 gigabytes.</span></pre>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="plaintext"></span></pre>
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<a href="https://salsa.debian.org/med-team/blat/compare/06fd6949dff5768a4e3a7a8c1b32e656df36d1f5...8d32bf58404029ad30e9c62391daede5984ba883#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Format: http<span class="idiff left right">s</span>://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Upstream-Name: BLAT</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Upstream-Contact: Jim Kent <jim_kent@pacbell.net></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Source: http://users.soe.ucsc.edu/~kent/src/</span>
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<a href="https://salsa.debian.org/med-team/blat/compare/06fd6949dff5768a4e3a7a8c1b32e656df36d1f5...8d32bf58404029ad30e9c62391daede5984ba883#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">@@ -2,7 +2,7 @@</td>
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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">DH_VERBOSE := 1</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"><span class="idiff left right">DEBPKGNAME := $(shell dpkg-parsechangelog | awk '/^Source:/ {print $$2}')</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"><span class="idiff left right">include /usr/share/dpkg/default.mk</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext"># alternatively to manually set those variables you can</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"># include /usr/share/cdbs/1/rules/buildvars.mk</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -10,7 +10,7 @@ DEBPKGNAME := $(shell dpkg-parsechangelog | awk '/^Source:/ {print $$2}')</td>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"># a similar manner are welcome.</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">MACHTYPE := $(shell dpkg-architecture -qDEB_HOST_GNU_CPU)</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext">DESTDIR := $(CURDIR)/debian/$(DEB<span class="idiff left right">PKGNAM</span>E)/usr/</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">DESTDIR := $(CURDIR)/debian/$(DEB<span class="idiff left right">_SOURC</span>E)/usr/</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"># When using -O2 optimisation the BLAT test (cd blat/test; make) will fail</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext">CFLAGS:=$(shell dpkg-buildflags --get CFLAGS | sed 's/-O2/-O1/')</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -46,5 +46,7 @@ override_dh_auto_install:</td>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="plaintext"> PATH=$(DESTDIR)/bin:$${PATH} make test</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext">override_dh_auto_test:</span>
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49
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
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49
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50
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext"> echo "Test suite is running after dh_auto_install"</span>
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50
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51
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"> echo "Probably it would be better to create a proper install target"</span>
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52
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="plaintext">endif</span></pre>
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