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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/biojava-live">Debian Med / biojava-live</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/biojava-live/commit/204b4c1a6ee93c6892bb9e946d67cf8723862e6f">204b4c1a</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:09:10Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Temporary let watch file scan for 1.7 series to enable easy running of routine-update. Currently it is not planed to upgrade that package.
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biojava-live/commit/b43861bc2669eec4fee7f6a3eec049ba13ba165b">b43861bc</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:10:52Z</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/biojava-live/commit/38836e745288f2ca34fe0570a5e7e633004cc857">38836e74</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:10:53Z</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/biojava-live/commit/5b7b2bae96f0bf25b0e1a769bb17c859c2a4a654">5b7b2bae</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:10:53Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biojava-live/commit/55c68cf76211d9fb79ba2fcec67347946cf1b1e2">55c68cf7</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:10:53Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/rules
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/biojava-live/commit/ef131f7d5492671f7201a59f38432208102b8418">ef131f7d</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-11-01T06:17:21Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Restore old watch rules (and cleanup watch file from outdated comments
</pre>
</li>
</ul>
<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</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/biojava-live/compare/fb715e6256c074be5418924e97d5f492b594645c...ef131f7d5492671f7201a59f38432208102b8418#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">biojava-live (1:1.7.1-8) UNRELEASED; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></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="plaintext"> * Point Vcs fields to salsa.debian.org</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"> * Standards-Version: 4.2.1</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="plaintext"> * Remove trailing whitespace in debian/changelog</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Remove trailing whitespace in debian/rules</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"> -- Andreas Tille <tille@debian.org> Thu, 01 Nov 2018 07:10:52 +0100</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">biojava-live (1:1.7.1-7) unstable; urgency=medium</span>
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<td class="diff-line-num new_line" data-linenumber="11" 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="LC11" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="12" 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="LC12" class="line" lang="plaintext"> * Remove leftover of debhelper migration from d/rules</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="23" 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="32" 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">@@ -23,7 +32,7 @@ biojava-live (1:1.7.1-6) unstable; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext">biojava-live (1:1.7.1-5) unstable; urgency=medium</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="LC26" class="line" lang="plaintext"> * d/control: use libcommons-collections3 instead of<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext"> * d/control: use libcommons-collections3 instead of</span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"> libcommons-collection in runtime deps (Closes: #748473).</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> -- Olivier Sallou <osallou@debian.org> Tue, 20 May 2014 15:03:23 +0200</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">@@ -42,7 +51,7 @@ biojava-live (1:1.7.1-4) unstable; urgency=low</td>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="plaintext">biojava-live (1:1.7.1-3) unstable; urgency=low</span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="plaintext"> * Use libcommons-collections3-java instead of libcommons-collections-java<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext"> * Use libcommons-collections3-java instead of libcommons-collections-java</span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext"> -- Olivier Sallou <osallou@debian.org> Tue, 10 Sep 2013 09:39:36 +0200</span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="plaintext"></span>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/biojava-live/compare/fb715e6256c074be5418924e97d5f492b594645c...ef131f7d5492671f7201a59f38432208102b8418#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</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">@@ -15,9 +15,9 @@ Build-Depends-Indep: libcommons-dbcp-java,</td>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> default-jdk,</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"> junit4,</span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> ant-optional</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.3</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">anonscm.debian.org/cgit/debian-med/biojava-live.git</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">anonscm.debian.org/git/debian-med</span>/biojava-live.git</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">salsa.debian.org/med-team/biojava-live</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">salsa.debian.org/med-team</span>/biojava-live.git</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">Homepage: http://www.biojava.org</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Package: libbiojava1.7-java</span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/biojava-live/compare/fb715e6256c074be5418924e97d5f492b594645c...ef131f7d5492671f7201a59f38432208102b8418#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
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<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">@@ -17,7 +17,7 @@ SOVERSION=$(shell echo $(DEB_VERSION_UPSTREAM) | cut -f1,2 -d. )</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="make"> dh <span class="nv" style="color: teal;">$@</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="make"><span class="nl">override_dh_auto_build</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="make"> find <span class="nb" style="color: #0086b3;">.</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.java"</span> <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> ReadMe <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.fa"</span> <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.html"</span> | xargs <span class="nt" style="color: navy;">-r</span> <span class="nb" style="color: #0086b3;">chmod </span>644<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="make"> find <span class="nb" style="color: #0086b3;">.</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.java"</span> <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> ReadMe <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.fa"</span> <span class="nt" style="color: navy;">-o</span> <span class="nt" style="color: navy;">-name</span> <span class="s2" style="color: #d14;">"*.html"</span> | xargs <span class="nt" style="color: navy;">-r</span> <span class="nb" style="color: #0086b3;">chmod </span>644</span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="make"> <span class="c" style="color: #998; font-style: italic;"># circumvent Debian's difficulties with libjgrapht - deleting all usage of that library</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="make"> <span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: navy;">-rf</span> src/org/biojavax/bio/phylo/io/nexus/ <span class="se" style="color: #d14;">\</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="make"> src/org/biojavax/bio/phylo/DistanceBasedTreeMethod.java <span class="se" style="color: #d14;">\</span></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">@@ -33,7 +33,7 @@ override_dh_auto_build:</td>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="make"><span class="nl">override_dh_clean</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="make"> ant clean <span class="c" style="color: #998; font-style: italic;"># most probably this is not needed when using dh - leave it to be sure ...</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="make"> dh_clean<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="make"> dh_clean</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="make"><span class="nl">override_dh_install</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="make"> dh_install</span>
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<a href="https://salsa.debian.org/med-team/biojava-live/compare/fb715e6256c074be5418924e97d5f492b594645c...ef131f7d5492671f7201a59f38432208102b8418#68ef9f98c01c7eecd4c605cc26048a06f3304b79"><strong>debian/watch</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">version=3</span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">#http://biojava.org/wiki/BioJava:Download http://biojava.org/download/bj.*/biojava-([0-9.]+)-all\.tar\.gz</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="plaintext">#http://biojava.org/wiki/BioJava:Download http://biojava.org/wiki/BioJava:Download_(1\.[0-9.]+)</span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">#http://biojava.org/wiki/BioJava:Download_(1\.[0-9.]+)</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">version=4</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
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7
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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">
3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">opts=filenamemangle=s/.+\/biojava-legacy-(\d\S*)\.tar\.gz/biojava-legacy-$1\.tar\.gz/ \</span>
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<td class="diff-line-num old_line" data-linenumber="8" 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">
8
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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">
4
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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"> https://github.com/biojava/biojava-legacy/tags .*/biojava-legacy-(\d\S*)\.tar\.gz</span></pre>
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