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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/snpeff">Debian Med / snpeff</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/snpeff/commit/7937c35c3b30fc469e88798e757750c94af5fffa">7937c35c</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-14T22:40:36+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">No need for get-orig-source target
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/snpeff/commit/8781ff0fcce5139f3733255811dab778d7705e2b">8781ff0f</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-14T22:55:16+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">javahelper
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/snpeff/commit/c8e2c2eb5bdec17dfbfff0465b554624f1eca4de">c8e2c2eb</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-14T23:14:35+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Missing Build-Depends + missing packages
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/snpeff/commit/5acd02d3bf9abf117a091ae23160937eabfaa257">5acd02d3</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-05-14T23:28:20+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">More existing and not yet existing dependencies (added as TODO in changelog)
</pre>
</li>
</ul>
<h4>4 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#442292b8a7efeabbe4cc176709b833b1792140ec">
pom.xml
</a>
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</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/snpeff/compare/da15a77f2d8cb36e61ae462f8d425dcd78df830c...5acd02d3bf9abf117a091ae23160937eabfaa257#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</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">snpeff (4.3t+dfsg-1) unstable; urgency=low</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"> * Initial release (Closes: #<bug>)</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> TODO:</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> apfloat 1.6.3:</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> https://github.com/mtommila/apfloat</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> http://www.apfloat.org/apfloat_java/maven.html</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> charts4j 1.3:</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> https://mvnrepository.com/artifact/com.googlecode.charts4j/charts4j/1.3</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> com.typesafe.akka:akka-actor 2.0.1</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext"> distlib 0.9.1:</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> https://sourceforge.net/projects/statdistlib/?source=navbar</span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Mon, 14 May 2018 22:07:57 +0200</span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/snpeff/compare/da15a77f2d8cb36e61ae462f8d425dcd78df830c...5acd02d3bf9abf117a091ae23160937eabfaa257#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">@@ -4,8 +4,21 @@ Uploaders: Andreas Tille <tille@debian.org></td>
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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 (>= 11~),</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> javahelper,</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"> default-jdk,</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> maven-debian-helper,</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> libmaven-assembly-plugin-java,</span>
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7
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libtrove-java,</span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext"> liblog4j2-java</span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext"> liblog4j2-java,</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> libhtsjdk-java,</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> libbiojava4-java,</span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"> junit4,</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> libcommons-codec-java,</span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"> libcommons-io-java,</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> libcommons-cli-java,</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> libcommons-math3-java,</span>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> libcommons-cli-java-doc,</span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> libfreemarker-java</span>
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9
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Standards-Version: 4.1.4</span>
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10
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23
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/snpeff</span>
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11
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/snpeff.git</span>
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<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/snpeff/compare/da15a77f2d8cb36e61ae462f8d425dcd78df830c...5acd02d3bf9abf117a091ae23160937eabfaa257#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">@@ -2,9 +2,7 @@</td>
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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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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"># DH_VERBOSE := 1</span>
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4
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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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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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5
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext">%:</span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="plaintext"> dh $@</span>
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5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext">export JAVA_HOME=/usr/lib/jvm/default-java</span>
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7
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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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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="plaintext">get-orig-source:</span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="plaintext"> # Need to write a script fetching an export from</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"> # https://snpeff.svn.sourceforge.net/svnroot/snpeff/SnpEffect/trunk/</span></pre>
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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"> dh $@ --with javahelper</span></pre>
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<a href="https://salsa.debian.org/med-team/snpeff/compare/da15a77f2d8cb36e61ae462f8d425dcd78df830c...5acd02d3bf9abf117a091ae23160937eabfaa257#442292b8a7efeabbe4cc176709b833b1792140ec"><strong>pom.xml</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="xml"><span class="nt" style="color: navy;"><project</span> <span class="na" style="color: teal;">xmlns=</span><span class="s" style="color: #d14;">"http://maven.apache.org/POM/4.0.0"</span> <span class="na" style="color: teal;">xmlns:xsi=</span><span class="s" style="color: #d14;">"http://www.w3.org/2001/XMLSchema-instance"</span></span>
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="xml"> <span class="na" style="color: teal;">xsi:schemaLocation=</span><span class="s" style="color: #d14;">"http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"</span><span class="nt" style="color: navy;">></span></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="xml"> <span class="nt" style="color: navy;"><modelVersion></span>4.0.0<span class="nt" style="color: navy;"></modelVersion></span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.snpeff<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>SnpEff<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="xml"> <span class="nt" style="color: navy;"><packaging></span>jar<span class="nt" style="color: navy;"></packaging></span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Snp Effect<span class="nt" style="color: navy;"></name></span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="xml"> <span class="nt" style="color: navy;"><description></span>Variant annotation and effect prediction package.<span class="nt" style="color: navy;"></description></span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://snpeff.sourceforge.net/<span class="nt" style="color: navy;"></url></span></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="xml"><span class="cp" style="color: #999; font-weight: 600;"><?xml version='1.0' encoding='UTF-8'?></span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="xml"><span class="nt" style="color: navy;"><project</span> <span class="na" style="color: teal;">xmlns=</span><span class="s" style="color: #d14;">"http://maven.apache.org/POM/4.0.0"</span> <span class="na" style="color: teal;">xmlns:xsi=</span><span class="s" style="color: #d14;">"http://www.w3.org/2001/XMLSchema-instance"</span> <span class="na" style="color: teal;">xsi:schemaLocation=</span><span class="s" style="color: #d14;">"http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd"</span><span class="nt" style="color: navy;">></span></span>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="xml"> <span class="nt" style="color: navy;"><modelVersion></span>4.0.0<span class="nt" style="color: navy;"></modelVersion></span></span>
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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.snpeff<span class="nt" style="color: navy;"></groupId></span></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">
5
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>SnpEff<span class="nt" style="color: navy;"></artifactId></span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>4.3<span class="nt" style="color: navy;"></version></span></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">
7
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="xml"> <span class="nt" style="color: navy;"><packaging></span>jar<span class="nt" style="color: navy;"></packaging><properties></span></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="xml"> </span>
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9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="xml"> <span class="nt" style="color: navy;"><debian.hasPackageVersion/></span></span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="xml"> </span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="xml"> <span class="nt" style="color: navy;"><debian.mavenRules></span>org.snpeff SnpEff jar s/.*/debian/ * *<span class="nt" style="color: navy;"></debian.mavenRules></span></span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="xml"> </span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="xml"> <span class="nt" style="color: navy;"><debian.originalVersion></span>4.3<span class="nt" style="color: navy;"></debian.originalVersion></span></span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="xml"> </span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="xml"> <span class="nt" style="color: navy;"><debian.package></span>libsnpeff-java<span class="nt" style="color: navy;"></debian.package></span></span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="xml"> <span class="nt" style="color: navy;"></properties></span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="xml"> </span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Snp Effect<span class="nt" style="color: navy;"></name></span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="xml"> <span class="nt" style="color: navy;"><description></span>Variant annotation and effect prediction package.<span class="nt" style="color: navy;"></description></span></span>
</pre>
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20
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://snpeff.sourceforge.net/<span class="nt" style="color: navy;"></url></span></span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="xml"> <span class="nt" style="color: navy;"><licenses></span></span>
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22
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="xml"> <span class="nt" style="color: navy;"><license></span></span>
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23
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>GNU LESSER GENERAL PUBLIC LICENSE, Version 3.0<span class="nt" style="color: navy;"></name></span></span>
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24
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://www.gnu.org/licenses/lgpl-3.0.txt<span class="nt" style="color: navy;"></url></span></span>
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25
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="xml"> <span class="nt" style="color: navy;"><distribution></span>repo<span class="nt" style="color: navy;"></distribution></span></span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="xml"> <span class="nt" style="color: navy;"></license></span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="xml"> <span class="nt" style="color: navy;"></licenses></span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="xml"> <span class="c" style="color: #998; font-style: italic;"><!--</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="xml"><span class="c" style="color: #998; font-style: italic;"> <scm></span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="xml"><span class="c" style="color: #998; font-style: italic;"> <url>https://snpeff.svn.sourceforge.net/svnroot/snpeff/SnpEffect/</url></span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="xml"><span class="c" style="color: #998; font-style: italic;"> <connection>https://snpeff.svn.sourceforge.net/svnroot/snpeff/SnpEffect/</connection></span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="xml"><span class="c" style="color: #998; font-style: italic;"> </scm></span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="xml"><span class="c" style="color: #998; font-style: italic;"> --></span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="xml"> <span class="nt" style="color: navy;"><developers></span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="xml"> <span class="nt" style="color: navy;"><developer></span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>pcingola<span class="nt" style="color: navy;"></id></span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Pablo Cingolani<span class="nt" style="color: navy;"></name></span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="xml"> <span class="nt" style="color: navy;"><email></span>pcingola@users.sourceforge.net<span class="nt" style="color: navy;"></email></span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="xml"> <span class="nt" style="color: navy;"></developer></span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="xml"> <span class="nt" style="color: navy;"></developers></span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="xml"></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependencies></span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apfloat<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>apfloat<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.6.3<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.googlecode.charts4j<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>charts4j<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.3<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-cli<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-cli<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.2<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.typesafe.akka<span class="nt" style="color: navy;"></groupId></span></span>
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49
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>akka-actor<span class="nt" style="color: navy;"></artifactId></span></span>
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50
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.0.1<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>junit<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>junit<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>4.4<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>net.sf.trove4j<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>trove4j<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>3.0.2<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.freemarker<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>freemarker<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.3.19<span class="nt" style="color: navy;"></version></span></span>
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66
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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67
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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68
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>distlib<span class="nt" style="color: navy;"></groupId></span></span>
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69
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>distlib<span class="nt" style="color: navy;"></artifactId></span></span>
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70
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>0.9.1<span class="nt" style="color: navy;"></version></span></span>
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71
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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72
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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73
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>samtools<span class="nt" style="color: navy;"></groupId></span></span>
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74
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>samtools<span class="nt" style="color: navy;"></artifactId></span></span>
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75
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.107<span class="nt" style="color: navy;"></version></span></span>
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76
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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77
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.commons<span class="nt" style="color: navy;"></groupId></span></span>
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79
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-math3<span class="nt" style="color: navy;"></artifactId></span></span>
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80
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>3.2<span class="nt" style="color: navy;"></version></span></span>
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81
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<pre style="margin: 0;">-<span id="LC81" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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82
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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83
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-io<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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84
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-io<span class="nt" style="color: navy;"></artifactId></span></span>
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85
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<pre style="margin: 0;">-<span id="LC85" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.4<span class="nt" style="color: navy;"></version></span></span>
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86
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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87
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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88
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-codec<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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89
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-codec<span class="nt" style="color: navy;"></artifactId></span></span>
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90
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.10<span class="nt" style="color: navy;"></version></span></span>
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91
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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92
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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93
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>log4j<span class="nt" style="color: navy;"></groupId></span></span>
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94
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>log4j<span class="nt" style="color: navy;"></artifactId></span></span>
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<td class="diff-line-num old old_line" data-linenumber="95" 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">
95
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.2.15<span class="nt" style="color: navy;"></version></span></span>
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96
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusions></span></span>
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<td class="diff-line-num old old_line" data-linenumber="97" 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">
97
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<pre style="margin: 0;">-<span id="LC97" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusion></span></span>
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<td class="diff-line-num old old_line" data-linenumber="98" 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">
98
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.sun.jdmk<span class="nt" style="color: navy;"></groupId></span></span>
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99
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>jmxtools<span class="nt" style="color: navy;"></artifactId></span></span>
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100
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusion></span></span>
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101
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<pre style="margin: 0;">-<span id="LC101" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusion></span></span>
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<td class="diff-line-num old old_line" data-linenumber="102" 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">
102
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.sun.jmx<span class="nt" style="color: navy;"></groupId></span></span>
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<td class="diff-line-num old old_line" data-linenumber="103" 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">
103
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>jmxri<span class="nt" style="color: navy;"></artifactId></span></span>
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104
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusion></span></span>
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105
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<pre style="margin: 0;">-<span id="LC105" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusions></span></span>
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106
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<pre style="margin: 0;">-<span id="LC106" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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107
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<pre style="margin: 0;">-<span id="LC107" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="108" 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">
108
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.biojava<span class="nt" style="color: navy;"></groupId></span></span>
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<td class="diff-line-num old old_line" data-linenumber="109" 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">
109
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<pre style="margin: 0;">-<span id="LC109" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>biojava3-core<span class="nt" style="color: navy;"></artifactId></span></span>
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<td class="diff-line-num old old_line" data-linenumber="110" 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">
110
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>3.0.7<span class="nt" style="color: navy;"></version></span></span>
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111
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="112" 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">
112
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="113" 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">
113
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.biojava<span class="nt" style="color: navy;"></groupId></span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>biojava3-structure<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>3.0.7<span class="nt" style="color: navy;"></version></span></span>
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<pre style="margin: 0;">-<span id="LC116" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependencies></span></span>
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="xml"></span>
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="xml"> <span class="nt" style="color: navy;"><repositories></span></span>
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>central<span class="nt" style="color: navy;"></id></span></span>
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Central Repository<span class="nt" style="color: navy;"></name></span></span>
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://repo.maven.apache.org/maven2<span class="nt" style="color: navy;"></url></span></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="xml"> <span class="nt" style="color: navy;"><layout></span>default<span class="nt" style="color: navy;"></layout></span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="xml"> <span class="nt" style="color: navy;"><snapshots></span></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="xml"> <span class="nt" style="color: navy;"><enabled></span>false<span class="nt" style="color: navy;"></enabled></span></span>
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="xml"> <span class="nt" style="color: navy;"></snapshots></span></span>
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<pre style="margin: 0;">-<span id="LC128" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>hadoop-bam<span class="nt" style="color: navy;"></id></span></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Hadoop-BAM<span class="nt" style="color: navy;"></name></span></span>
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://hadoop-bam.sourceforge.net/maven/<span class="nt" style="color: navy;"></url></span></span>
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133
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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135
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>ncimvn-public<span class="nt" style="color: navy;"></id></span></span>
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136
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Public NIH repository<span class="nt" style="color: navy;"></name></span></span>
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137
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<pre style="margin: 0;">-<span id="LC137" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>https://ncimvn.nci.nih.gov/nexus/content/groups/public/<span class="nt" style="color: navy;"></url></span></span>
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138
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<pre style="margin: 0;">-<span id="LC138" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>typesafe<span class="nt" style="color: navy;"></id></span></span>
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141
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Typesafe Repository<span class="nt" style="color: navy;"></name></span></span>
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142
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<pre style="margin: 0;">-<span id="LC142" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://repo.typesafe.com/typesafe/releases/<span class="nt" style="color: navy;"></url></span></span>
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143
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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144
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="xml"> <span class="nt" style="color: navy;"></repositories></span></span>
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145
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="xml"></span>
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146
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="xml"> <span class="nt" style="color: navy;"><build></span></span>
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147
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<pre style="margin: 0;">-<span id="LC147" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugins></span></span>
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148
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<pre style="margin: 0;">-<span id="LC148" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
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<td class="diff-line-num old old_line" data-linenumber="149" 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">
149
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
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150
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-compiler-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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151
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<pre style="margin: 0;">-<span id="LC151" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.3.2<span class="nt" style="color: navy;"></version></span></span>
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152
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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153
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="xml"> <span class="nt" style="color: navy;"><source></span>1.8<span class="nt" style="color: navy;"></source></span></span>
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154
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="xml"> <span class="nt" style="color: navy;"><target></span>1.8<span class="nt" style="color: navy;"></target></span></span>
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155
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="xml"> <span class="nt" style="color: navy;"><encoding></span>ISO-8859-1<span class="nt" style="color: navy;"></encoding></span></span>
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156
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="xml"> <span class="nt" style="color: navy;"><showDeprecation></span>true<span class="nt" style="color: navy;"></showDeprecation></span></span>
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157
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="xml"> <span class="nt" style="color: navy;"><showWarnings></span>true<span class="nt" style="color: navy;"></showWarnings></span></span>
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158
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<pre style="margin: 0;">-<span id="LC158" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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159
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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160
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
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<td class="diff-line-num old old_line" data-linenumber="161" 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">
161
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<pre style="margin: 0;">-<span id="LC161" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
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<td class="diff-line-num old old_line" data-linenumber="162" 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">
162
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<pre style="margin: 0;">-<span id="LC162" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-resources-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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<pre style="margin: 0;">-<span id="LC163" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.4.3<span class="nt" style="color: navy;"></version></span></span>
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164
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<pre style="margin: 0;">-<span id="LC164" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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165
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<pre style="margin: 0;">-<span id="LC165" class="line" lang="xml"> <span class="nt" style="color: navy;"><encoding></span>ISO-8859-1<span class="nt" style="color: navy;"></encoding></span></span>
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166
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<pre style="margin: 0;">-<span id="LC166" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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167
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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168
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<pre style="margin: 0;">-<span id="LC168" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
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169
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<pre style="margin: 0;">-<span id="LC169" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
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170
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<pre style="margin: 0;">-<span id="LC170" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-assembly-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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171
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<pre style="margin: 0;">-<span id="LC171" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.2-beta-5<span class="nt" style="color: navy;"></version></span></span>
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172
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<pre style="margin: 0;">-<span id="LC172" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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173
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<pre style="margin: 0;">-<span id="LC173" class="line" lang="xml"> <span class="nt" style="color: navy;"><descriptorRefs></span></span>
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174
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<pre style="margin: 0;">-<span id="LC174" class="line" lang="xml"> <span class="nt" style="color: navy;"><descriptorRef></span>jar-with-dependencies<span class="nt" style="color: navy;"></descriptorRef></span></span>
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175
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<pre style="margin: 0;">-<span id="LC175" class="line" lang="xml"> <span class="nt" style="color: navy;"></descriptorRefs></span></span>
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176
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<pre style="margin: 0;">-<span id="LC176" class="line" lang="xml"> <span class="nt" style="color: navy;"><archive></span></span>
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177
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<pre style="margin: 0;">-<span id="LC177" class="line" lang="xml"> <span class="nt" style="color: navy;"><manifest></span></span>
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178
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<pre style="margin: 0;">-<span id="LC178" class="line" lang="xml"> <span class="nt" style="color: navy;"><mainClass></span>org.snpeff.SnpEff<span class="nt" style="color: navy;"></mainClass></span></span>
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179
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<pre style="margin: 0;">-<span id="LC179" class="line" lang="xml"> <span class="nt" style="color: navy;"></manifest></span></span>
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180
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<pre style="margin: 0;">-<span id="LC180" class="line" lang="xml"> <span class="nt" style="color: navy;"></archive></span></span>
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181
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<pre style="margin: 0;">-<span id="LC181" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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182
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<pre style="margin: 0;">-<span id="LC182" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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183
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
</pre>
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184
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<pre style="margin: 0;">-<span id="LC184" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
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185
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<pre style="margin: 0;">-<span id="LC185" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-javadoc-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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186
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<pre style="margin: 0;">-<span id="LC186" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.8.1<span class="nt" style="color: navy;"></version></span></span>
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187
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<pre style="margin: 0;">-<span id="LC187" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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<pre style="margin: 0;">-<span id="LC188" class="line" lang="xml"> <span class="nt" style="color: navy;"><encoding></span>ISO-8859-1<span class="nt" style="color: navy;"></encoding></span></span>
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189
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<pre style="margin: 0;">-<span id="LC189" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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190
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<pre style="margin: 0;">-<span id="LC190" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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191
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<pre style="margin: 0;">-<span id="LC191" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugins></span></span>
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192
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<pre style="margin: 0;">-<span id="LC192" class="line" lang="xml"> <span class="nt" style="color: navy;"></build></span></span>
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193
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<pre style="margin: 0;">-<span id="LC193" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>4.3<span class="nt" style="color: navy;"></version></span></span>
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194
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<pre style="margin: 0;">-<span id="LC194" class="line" lang="xml"><span class="nt" style="color: navy;"></project></span></span></pre>
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34
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="xml"> <span class="nt" style="color: navy;"><developers></span></span>
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35
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="xml"> <span class="nt" style="color: navy;"><developer></span></span>
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36
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>pcingola<span class="nt" style="color: navy;"></id></span></span>
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37
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Pablo Cingolani<span class="nt" style="color: navy;"></name></span></span>
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38
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="xml"> <span class="nt" style="color: navy;"><email></span>pcingola@users.sourceforge.net<span class="nt" style="color: navy;"></email></span></span>
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39
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="xml"> <span class="nt" style="color: navy;"></developer></span></span>
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40
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="xml"> <span class="nt" style="color: navy;"></developers></span></span>
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41
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependencies></span></span>
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42
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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43
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-cli<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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44
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-cli<span class="nt" style="color: navy;"></artifactId></span></span>
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45
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>debian<span class="nt" style="color: navy;"></version></span></span>
</pre>
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46
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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47
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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48
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>junit<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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49
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>junit<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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50
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>4.x<span class="nt" style="color: navy;"></version></span></span>
</pre>
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51
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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52
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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53
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>net.sf.trove4j<span class="nt" style="color: navy;"></groupId></span></span>
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54
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>trove4j<span class="nt" style="color: navy;"></artifactId></span></span>
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<td class="diff-line-num new new_line" data-linenumber="55" 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">
55
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.x<span class="nt" style="color: navy;"></version></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="56" 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">
56
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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57
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="58" 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">
58
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.freemarker<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="59" 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">
59
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>freemarker<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="60" 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">
60
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>debian<span class="nt" style="color: navy;"></version></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="61" 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">
61
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="62" 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">
62
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="63" 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">
63
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.commons<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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64
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-math3<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="65" 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">
65
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>debian<span class="nt" style="color: navy;"></version></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="66" 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">
66
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="67" 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">
67
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="68" 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">
68
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-io<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="69" 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">
69
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-io<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="70" 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">
70
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>debian<span class="nt" style="color: navy;"></version></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="71" 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">
71
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="72" 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">
72
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="73" 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">
73
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>commons-codec<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="74" 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">
74
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>commons-codec<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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75
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>debian<span class="nt" style="color: navy;"></version></span></span>
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76
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
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77
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="xml"> <span class="nt" style="color: navy;"><dependency></span></span>
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78
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>log4j<span class="nt" style="color: navy;"></groupId></span></span>
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<td class="diff-line-num new new_line" data-linenumber="79" 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">
79
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>log4j<span class="nt" style="color: navy;"></artifactId></span></span>
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80
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>1.2.x<span class="nt" style="color: navy;"></version></span></span>
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81
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusions></span></span>
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82
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusion></span></span>
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83
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.sun.jdmk<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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84
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>jmxtools<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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85
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusion></span></span>
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86
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="xml"> <span class="nt" style="color: navy;"><exclusion></span></span>
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87
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>com.sun.jmx<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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88
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>jmxri<span class="nt" style="color: navy;"></artifactId></span></span>
</pre>
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89
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusion></span></span>
</pre>
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90
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="xml"> <span class="nt" style="color: navy;"></exclusions></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependency></span></span>
</pre>
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92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="xml"> <span class="nt" style="color: navy;"></dependencies></span></span>
</pre>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="xml"> <span class="nt" style="color: navy;"><repositories></span></span>
</pre>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
</pre>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>central<span class="nt" style="color: navy;"></id></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="96" 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">
96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Central Repository<span class="nt" style="color: navy;"></name></span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="195" 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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<td class="diff-line-num new new_line" data-linenumber="97" 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">
97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://repo.maven.apache.org/maven2<span class="nt" style="color: navy;"></url></span></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="98" 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">
98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="xml"> <span class="nt" style="color: navy;"><layout></span>default<span class="nt" style="color: navy;"></layout></span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="xml"> <span class="nt" style="color: navy;"><snapshots></span></span>
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100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="xml"> <span class="nt" style="color: navy;"><enabled></span>false<span class="nt" style="color: navy;"></enabled></span></span>
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101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="xml"> <span class="nt" style="color: navy;"></snapshots></span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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104
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>hadoop-bam<span class="nt" style="color: navy;"></id></span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Hadoop-BAM<span class="nt" style="color: navy;"></name></span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://hadoop-bam.sourceforge.net/maven/<span class="nt" style="color: navy;"></url></span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>ncimvn-public<span class="nt" style="color: navy;"></id></span></span>
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110
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Public NIH repository<span class="nt" style="color: navy;"></name></span></span>
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111
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>https://ncimvn.nci.nih.gov/nexus/content/groups/public/<span class="nt" style="color: navy;"></url></span></span>
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112
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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113
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="xml"> <span class="nt" style="color: navy;"><repository></span></span>
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114
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="xml"> <span class="nt" style="color: navy;"><id></span>typesafe<span class="nt" style="color: navy;"></id></span></span>
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115
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="xml"> <span class="nt" style="color: navy;"><name></span>Typesafe Repository<span class="nt" style="color: navy;"></name></span></span>
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116
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="xml"> <span class="nt" style="color: navy;"><url></span>http://repo.typesafe.com/typesafe/releases/<span class="nt" style="color: navy;"></url></span></span>
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117
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="xml"> <span class="nt" style="color: navy;"></repository></span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="xml"> <span class="nt" style="color: navy;"></repositories></span></span>
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119
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="xml"> <span class="nt" style="color: navy;"><build></span></span>
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120
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugins></span></span>
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121
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
</pre>
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122
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
</pre>
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123
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-compiler-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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124
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.3.2<span class="nt" style="color: navy;"></version></span></span>
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125
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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126
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="xml"> <span class="nt" style="color: navy;"><source></span>1.8<span class="nt" style="color: navy;"></source></span></span>
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127
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="xml"> <span class="nt" style="color: navy;"><target></span>1.8<span class="nt" style="color: navy;"></target></span></span>
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128
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="xml"> <span class="nt" style="color: navy;"><encoding></span>ISO-8859-1<span class="nt" style="color: navy;"></encoding></span></span>
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129
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="xml"> <span class="nt" style="color: navy;"><showDeprecation></span>true<span class="nt" style="color: navy;"></showDeprecation></span></span>
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130
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="xml"> <span class="nt" style="color: navy;"><showWarnings></span>true<span class="nt" style="color: navy;"></showWarnings></span></span>
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131
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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132
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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133
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="xml"> <span class="nt" style="color: navy;"><plugin></span></span>
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134
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="xml"> <span class="nt" style="color: navy;"><groupId></span>org.apache.maven.plugins<span class="nt" style="color: navy;"></groupId></span></span>
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135
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="xml"> <span class="nt" style="color: navy;"><artifactId></span>maven-resources-plugin<span class="nt" style="color: navy;"></artifactId></span></span>
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136
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="xml"> <span class="nt" style="color: navy;"><version></span>2.4.3<span class="nt" style="color: navy;"></version></span></span>
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137
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="xml"> <span class="nt" style="color: navy;"><configuration></span></span>
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138
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="xml"> <span class="nt" style="color: navy;"><encoding></span>ISO-8859-1<span class="nt" style="color: navy;"></encoding></span></span>
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139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="xml"> <span class="nt" style="color: navy;"></configuration></span></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugin></span></span>
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141
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="xml"> <span class="nt" style="color: navy;"></plugins></span></span>
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142
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="xml"> <span class="nt" style="color: navy;"></build></span></span>
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143
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="xml"><span class="nt" style="color: navy;"></project></span></span></pre>
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