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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/beast2-mcmc">Debian Med / beast2-mcmc</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/beast2-mcmc/commit/3e3ecf585efd13e420e599f68e0bfb2a96dda676">3e3ecf58</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-26T07:10:09Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Avoid Mac only code
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/beast2-mcmc/commit/cea8c31def11d1d162d410a2990ff4dcf9df9335">cea8c31d</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-26T07:10:25Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">debhelper 12
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/beast2-mcmc/commit/e8141b47da01461e1e185911359d23cc895908cf">e8141b47</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-26T07:10:27Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.3.0
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/beast2-mcmc/commit/e176bb7923036a05faf97a010834b83f474fbb6a">e176bb79</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2019-01-26T07:14:20Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
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<li class="file-stats">
<a href="#47ab0b4b827e3fe75b18b0fb2004a0b5b99671fe">
<span class="new-file">
+
debian/patches/remove_mac_only_code.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/beast2-mcmc/compare/9a136acf643f3e41141455b6cc667ecd3c89c1b2...e176bb7923036a05faf97a010834b83f474fbb6a#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">beast2-mcmc (2.5.1+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Avoid Mac only code which is not needed and fails due missing</span>
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<td class="diff-line-num new new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> support in latest libjam-java</span>
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<td class="diff-line-num new new_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> Closes: #919728</span>
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<td class="diff-line-num new new_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * debhelper 12</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * Standards-Version: 4.3.0</span>
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<td class="diff-line-num new new_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Sat, 26 Jan 2019 08:10:27 +0100</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">beast2-mcmc (2.5.1+dfsg-1) unstable; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> [ Steffen Moeller ]</span>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/beast2-mcmc/compare/9a136acf643f3e41141455b6cc667ecd3c89c1b2...e176bb7923036a05faf97a010834b83f474fbb6a#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">1</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1<span class="idiff left right">2</span></span></pre>
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<li id="58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
<a href="https://salsa.debian.org/med-team/beast2-mcmc/compare/9a136acf643f3e41141455b6cc667ecd3c89c1b2...e176bb7923036a05faf97a010834b83f474fbb6a#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">@@ -4,7 +4,7 @@ Uploaders: Andreas Tille <tille@debian.org>,</td>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Olivier Sallou <osallou@debian.org></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">Section: science</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper (>= 1<span class="idiff left right">1</span>~),</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">Build-Depends: debhelper (>= 1<span class="idiff left right">2</span>~),</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"> javahelper,</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> ant,</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> ant-optional,</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -17,7 +17,7 @@ Build-Depends: debhelper (>= 11~),</td>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext"> junit4,</span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"> texlive-latex-base,</span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext"> texlive-latex-extra</span>
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">3.0</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/beast2-mcmc</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/beast2-mcmc.git</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">Homepage: http://www.beast2.org</span>
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<li id="47ab0b4b827e3fe75b18b0fb2004a0b5b99671fe">
<a href="https://salsa.debian.org/med-team/beast2-mcmc/compare/9a136acf643f3e41141455b6cc667ecd3c89c1b2...e176bb7923036a05faf97a010834b83f474fbb6a#47ab0b4b827e3fe75b18b0fb2004a0b5b99671fe"><strong>debian/patches/remove_mac_only_code.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Description: Avoid Mac only code which is not needed and fails due missing</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"> support in latest libjam-java</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Bug-Debian: https://bugs.debian.org/919728</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff">Author: Andreas Tille <tille@debian.org></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff">Last-Update: Sat, 26 Jan 2019 08:08:17 +0100</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/src/beast/app/beauti/Beauti.java</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/src/beast/app/beauti/Beauti.java</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -1231,6 +1231,7 @@ public class Beauti extends JTabbedPane</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> if (Utils.isMac() && Utils6.isMajorAtLeast(Utils6.JAVA_1_8)) {</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> // set up application about-menu for Mac</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> // Mac-only stuff</span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+/*</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> try {</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> URL url = ClassLoader.getSystemResource(ModelBuilder.ICONPATH + "beauti.png");</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> Icon icon = null;</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -1268,10 +1269,7 @@ public class Beauti extends JTabbedPane</span></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> };</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> // https://github.com/CompEvol/beast2/issues/805</span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- if (Utils6.isMajorAtLeast(Utils6.JAVA_9)) // >= Java 9</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"> beast.app.util.Utils.macOSXRegistration(application);</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- else // <= Java 8</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- jam.mac.Utils.macOSXRegistration(application);</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"> } catch (Exception e) {</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> // ignore</span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -1284,6 +1282,7 @@ public class Beauti extends JTabbedPane</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> // ignore</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ */</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"> beauti.setUpPanels();</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> </span></pre>
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<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/beast2-mcmc/compare/9a136acf643f3e41141455b6cc667ecd3c89c1b2...e176bb7923036a05faf97a010834b83f474fbb6a#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</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">@@ -3,3 +3,4 @@ remove_appbundler.patch</td>
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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"># reverted_to_antlr_4.5_deacdc96.patch</span>
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<td class="diff-line-num old_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
4
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<td class="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"># revert_NewickLexer.java_to_antlr_4.5.patch</span>
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<td class="diff-line-num old_line" data-linenumber="5" 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">
5
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<td class="diff-line-num new_line" data-linenumber="5" 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">
5
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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="LC5" class="line" lang="plaintext">antlr-compatibility.patch</span>
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<td class="diff-line-num new old_line" data-linenumber="6" 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="6" 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">
6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">remove_mac_only_code.patch</span></pre>
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