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<h3>
Olivier Sallou pushed to branch master
at <a href="https://salsa.debian.org/med-team/igv">Debian Med / igv</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/0786442d7fa95e8b3a8730090750583352655a5a">0786442d</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:26:22Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/5bcb98f7d3d9a21d8ac7cd74ba9055c04f548955">5bcb98f7</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:28:32Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/6f18121f878522cb064d67a80896cfe611e672fd">6f18121f</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:30:21Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/4ac8cfc211327a4bcf5e5844142395a15f7c2a83">4ac8cfc2</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:32:51Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/f477f4d94bcb4e1d6912f79e92a05841c52714ce">f477f4d9</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:39:29Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/1853162a087d039d564f811ab5c96f00ce3b0bf2">1853162a</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T14:41:04Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/igv/commit/fb9c632e973dc579ee9004599ab56ca160b036bc">fb9c632e</a></strong>
<div>
<span>by Olivier Sallou</span>
<i>at 2018-10-15T15:13:11Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">add packaging status info
</pre>
</li>
</ul>
<h4>2 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#37e490b5584c8e52c9983093facdd5c4adde4c25">
debian/patches/fix_gradle.patch
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/igv/compare/5efcfda62531713f5125221f98cbee66210337f6...fb9c632e973dc579ee9004599ab56ca160b036bc#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -13,9 +13,17 @@ igv (2.4.14+dfsg-1) UNRELEASED; urgency=medium</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"> [ Olivier Sallou]</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> * d/patches/fix_gradle.patch: adapt build to Debian</span>
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="plaintext"> // TODO there is still an issue with batik:</span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"> if defined, there are some conflicts</span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="plaintext"> for other libs, they are found but marked as not visible....</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext"> * TODO there is still an issue with batik:</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> - if defined, there are some conflicts</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> (see https://stackoverflow.com/questions/42358084/package-conflicts-with-automatic-modules-in-java-9)</span>
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<td class="diff-line-num new new_line" data-linenumber="21" 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="LC21" class="line" lang="plaintext"> where some batik share some package names.</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="plaintext"> - for javafx libs, they are found but marked as not visible.... though</span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"> should be seen as unnamed modules.</span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="plaintext"> javafx libs should be declared as modules with exported packages but</span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> needs lib refactoring or we should find a way to put them as "standard"</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext"> libs and not modules (but how?)</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Mon, 01 Oct 2018 21:14:39 +0200</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"></span>
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<li id="37e490b5584c8e52c9983093facdd5c4adde4c25">
<a href="https://salsa.debian.org/med-team/igv/compare/5efcfda62531713f5125221f98cbee66210337f6...fb9c632e973dc579ee9004599ab56ca160b036bc#37e490b5584c8e52c9983093facdd5c4adde4c25"><strong>debian/patches/fix_gradle.patch</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="80" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="80" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -80,7 +80,7 @@ Forwarded: no</td>
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80
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80
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<pre style="margin: 0;"> <span id="LC80" class="line" lang="diff"> requires htsjdk;</span>
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<td class="diff-line-num old_line" data-linenumber="81" 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">
81
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81
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="diff"> requires java.datatransfer;</span>
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<td class="diff-line-num old_line" data-linenumber="82" 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">
82
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<td class="diff-line-num new_line" data-linenumber="82" 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">
82
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="diff"> requires java.desktop;</span>
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<td class="diff-line-num old old_line" data-linenumber="83" 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">
83
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -107,15 +107,1<span class="idiff left right">5</span> @@</span></span>
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<td class="diff-line-num new old_line" data-linenumber="84" 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="83" 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">
83
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -107,15 +107,1<span class="idiff left right">0</span> @@</span></span>
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<td class="diff-line-num old_line" data-linenumber="84" 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">
84
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84
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<pre style="margin: 0;"> <span id="LC84" class="line" lang="diff"> requires java.sql;</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="85" 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">
85
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<td class="diff-line-num new_line" data-linenumber="85" 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">
85
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<pre style="margin: 0;"> <span id="LC85" class="line" lang="diff"> requires java.xml;</span>
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<td class="diff-line-num old_line" data-linenumber="86" 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">
86
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="diff"> requires java.xml.bind;</span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="89" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="89" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -89,11 +89,6 @@ Forwarded: no</td>
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<td class="diff-line-num old_line" data-linenumber="89" 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">
89
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<td class="diff-line-num new_line" data-linenumber="89" 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">
89
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- requires javafx.fxml;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="90" 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">
90
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<td class="diff-line-num new_line" data-linenumber="90" 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">
90
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- requires javafx.graphics;</span></span>
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<td class="diff-line-num old_line" data-linenumber="91" 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">
91
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<td class="diff-line-num new_line" data-linenumber="91" 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">
91
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- requires javafx.swing;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="92" 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">
92
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<td class="diff-line-num new_line old" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires javafx.baseEmpty;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="93" 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">
93
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<td class="diff-line-num new_line old" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires javafx.controlsEmpty;</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="94" 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">
94
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<td class="diff-line-num new_line old" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires javafx.fxmlEmpty;</span></span>
</pre>
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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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<td class="diff-line-num new_line old" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires javafx.graphicsEmpty;</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="96" 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">
96
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<td class="diff-line-num new_line old" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires javafx.swingEmpty;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="97" 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">
97
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<td class="diff-line-num new_line" data-linenumber="92" 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">
92
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<pre style="margin: 0;"> <span id="LC92" class="line" lang="diff"> requires jdk.xml.dom;</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="98" 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">
98
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<td class="diff-line-num new_line" data-linenumber="93" 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">
93
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- requires jfreechart;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="99" 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">
99
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<td class="diff-line-num new_line" data-linenumber="94" 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">
94
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ requires jfreechart.debian;</span></span>
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