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<h3>
Sebastien Jodogne pushed to branch master
at <a href="https://salsa.debian.org/med-team/orthanc-imagej">Debian Med / orthanc-imagej</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/b27d4088058c5a61633939af358ead5d9fb1f553">b27d4088</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T10:28:26+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">importing patch by Gilles Filippini from #960639
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/74ac098133c2e8182f9240cfb381b68199887367">74ac0981</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T10:34:58+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">preparing for extended patch
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/99b71334bc8aefb4b92322a3058e144df58fa223">99b71334</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T10:37:11+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fixing import of series
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/67ac781eaa5b9723484126a485131bb1010c1306">67ac781e</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T10:45:41+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">lintian fixes
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/ca5e551c8e792f91b1f2fc4c275d1e2782d82a38">ca5e551c</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T10:46:57+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">fix lintian warning debian-rules-uses-unnecessary-dh-argument
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/orthanc-imagej/-/commit/8ca67a6c6a178deb5ff38df5fe090bd177ecc13d">8ca67a6c</a></strong>
<div>
<span>by jodogne-guest</span>
<i>at 2020-05-28T11:01:50+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>7 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
debian/compat
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<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
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<li class="file-stats">
<a href="#c25a0631fb58e019caac65c55530c2fcf9061285">
<span class="new-file">
+
debian/patches/json-simple-3.patch
</span>
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<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
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<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
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<li class="file-stats">
<a href="#f5606a935d95a2f20059a7ac1136f47b2edadbf6">
debian/upstream/metadata
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">orthanc-imagej (1.2+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"> [ Gilles Filippini ]</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"> * Fix to build against json-simple 3. (Closes: #960639)</span>
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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"></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"> [ Sebastien Jodogne ]</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">
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * Update Standards-Version, fix lintian</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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<td class="diff-line-num new new_line" data-linenumber="9" 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="LC9" class="line" lang="plaintext"> -- Sebastien Jodogne <s.jodogne@gmail.com> Thu, 28 May 2020 10:39:43 +0200</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">orthanc-imagej (1.2+dfsg-1) unstable; urgency=medium</span>
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<td class="diff-line-num new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></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"> * New upstream version. (Closes: #912363)</span>
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<li id="78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4">
<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#78fd675df1cf8c2d4c62ae1a9a912d15c8c50ba4"><strong>debian/compat</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">9</span></span></pre>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext"><span class="idiff left right">10</span></span></pre>
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<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="6" 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">@@ -6,10 +6,10 @@ Section: science</td>
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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: cmake,</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"> debhelper (>= <span class="idiff left right">9</span>),</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> debhelper (>= <span class="idiff left right">10</span>),</span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext"> libij-java,</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> libjson-simple-java</span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">5.0</span></span>
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Vcs-Browser: https://salsa.debian.org/med-team/orthanc-imagej</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext">Vcs-Git: https://salsa.debian.org/med-team/orthanc-imagej.git</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Homepage: http://www.orthanc-server.com/static.php?page=imagej</span>
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<li id="c25a0631fb58e019caac65c55530c2fcf9061285">
<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#c25a0631fb58e019caac65c55530c2fcf9061285"><strong>debian/patches/json-simple-3.patch</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff"><span class="p">Description: Migrate away from deprecated json-simple 1.x classes</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="diff"> See json-simple 2.0.0 changelog:</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff"> > * Deprecated JSONParse and JSONValue in favor of Jsoner.</span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"> > * Deprecated JSONStreamAware and JSONAware in favor of Jsonable.</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"> > * Deprecated JSONObject in favor of JsonObject.</span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"> > * Deprecated JSONArray in favor of JsonArray.</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"> .</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> This patch uses the new json-simple Json* classes. It is compatible with</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff"> both 2.x and 3.x json-simple releases, with a few ajustments regarding</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> backward incompatible changes in json-simple 3.x:</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"> - The package name, changed to com.github.cliftonlabs.json_simple</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"> - The exception DeserializationExcetpion renamed as JsonException</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> These two changes are handled using place-holders @JSON_SIMPLE_PACKAGE@</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff"> and @JSON_EXCETPION@ which are substituted at build time by debian/rules.</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff"> .</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"> With these tricks the package is compatible with json-simple 2.x and 3.x.</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"> .</span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"> Sebastien Jodogne <s.jodogne@orthanc-labs.com> has added a few fixes to</span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff"> the original patch.</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"><span class="p">Author: Gilles Filippini <pini@debian.org></span></span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"><span class="p">---</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="p">This patch header follows DEP-3: http://dep.debian.net/deps/dep3/</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gh" style="color: #999;">Index: OrthancImageJ-1.2/com/orthancserver/DicomDecoder.java</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- OrthancImageJ-1.2.orig/com/orthancserver/DicomDecoder.java</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ OrthancImageJ-1.2/com/orthancserver/DicomDecoder.java</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="p">@@ -28,7 +28,8 @@</span> import ij.process.ShortProcessor;</span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff"> import ij.process.ColorProcessor;</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff"> import ij.io.FileInfo;</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> import ij.measure.Calibration;</span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.*;</span></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;">+import @JSON_SIMPLE_PACKAGE@.JsonObject;</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.JsonArray;</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff"> import java.util.List;</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> import java.util.ArrayList;</span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"> import java.util.Collections;</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff"><span class="p">@@ -92,10 +93,10 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="diff"> };</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="diff"> private static void ExtractCalibration(ImagePlus image,</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject rescaleIntercept = (JSONObject) tags.get("0028,1052");</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject rescaleSlope = (JSONObject) tags.get("0028,1053");</span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject rescaleIntercept = (JsonObject) tags.get("0028,1052");</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject rescaleSlope = (JsonObject) tags.get("0028,1053");</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"> if (rescaleIntercept != null &&</span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"> rescaleSlope != null)</span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="diff"><span class="p">@@ -108,9 +109,9 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="diff"> private static void ExtractPixelSpacing(ImagePlus image,</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject pixelSpacing = (JSONObject) tags.get("0028,0030");</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject pixelSpacing = (JsonObject) tags.get("0028,0030");</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="diff"> if (pixelSpacing != null)</span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="diff"> String[] tokens = ((String) pixelSpacing.get("Value")).split("\\\\");</span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="diff"><span class="p">@@ -130,7 +131,7 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="diff"> private static void ExtractDicomInfo(ImagePlus image,</span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject tags)</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="diff"> String info = new String();</span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="diff"><span class="p">@@ -143,7 +144,7 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="diff"> Collections.sort(tagsIndex);</span>
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="diff"> for (String tag : tagsIndex) </span>
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject value = (JSONObject) tags.get(tag);</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject value = (JsonObject) tags.get(tag);</span></span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="diff"> if (((String) value.get("Type")).equals("String"))</span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="diff"><span class="p">@@ -232,7 +233,7 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="diff"> private String[] SortSlicesBy3D(OrthancConnection c, </span>
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances) throws IOException</span></span>
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances) throws IOException</span></span>
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="diff"> ArrayList<Slice> slices = new ArrayList<Slice>();</span>
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="diff"> float normal[] = null;</span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="diff"><span class="p">@@ -243,7 +244,7 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="diff"> for (int i = 0; i < instances.size(); i++)</span>
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="diff"> String uuid = (String) instances.get(i);</span>
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject instance = (JSONObject) c.ReadJson("/instances/" + uuid + "/tags?simplify");</span></span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject instance = (JsonObject) c.ReadJson("/instances/" + uuid + "/tags?simplify");</span></span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="diff"> if (!instance.containsKey("ImageOrientationPatient") ||</span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="diff"> !instance.containsKey("ImagePositionPatient"))</span>
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="diff"><span class="p">@@ -298,16 +299,21 @@</span> public class DicomDecoder</span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="diff"> private String[] SortSlicesByNumber(OrthancConnection c, </span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances) throws IOException</span></span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances) throws IOException</span></span>
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="diff"> ArrayList<Slice> slices = new ArrayList<Slice>();</span>
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="diff"> for (int i = 0; i < instances.size(); i++)</span>
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="diff"> String uuid = (String) instances.get(i);</span>
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject instance = (JSONObject) c.ReadJson("/instances/" + uuid);</span></span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- Long index = (Long) instance.get("IndexInSeries");</span></span>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- slices.add(new Slice((float) index, uuid));</span></span>
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject instance = (JsonObject) c.ReadJson("/instances/" + uuid);</span></span>
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<pre style="margin: 0;">+<span id="LC115" 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="LC116" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ // Addition by Sebastien Jodogne</span></span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ if (instance.containsKey("IndexInSeries"))</span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ {</span></span>
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119
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ String index = instance.get("IndexInSeries").toString(); // This is a java.math.BigDecimal</span></span>
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120
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ slices.add(new Slice(Float.parseFloat(index), uuid));</span></span>
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121
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ }</span></span>
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122
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="diff"> }</span>
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123
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="diff"> </span>
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124
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="diff"> return SortSlices(slices);</span>
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125
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="diff"><span class="p">@@ -316,7 +322,7 @@</span> public class DicomDecoder</span>
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126
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="diff"> </span>
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127
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="diff"> </span>
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128
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="diff"> private String[] GetSlices(OrthancConnection c, </span>
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129
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances) throws IOException</span></span>
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130
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances) throws IOException</span></span>
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131
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="diff"> {</span>
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132
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="diff"> String[] result;</span>
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133
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="diff"> </span>
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134
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="diff"><span class="p">@@ -345,30 +351,30 @@</span> public class DicomDecoder</span>
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135
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="diff"> String uuid) throws IOException, InterruptedException, ExecutionException</span>
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136
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="diff"> {</span>
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137
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="diff"> ImageStack stack = null;</span>
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138
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject tags = null;</span></span>
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139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject tags = null;</span></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="diff"> String tagsUri, name;</span>
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141
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="diff"> </span>
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142
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="diff"> if (isInstance)</span>
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="diff"> {</span>
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144
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="diff"> name = "Instance " + uuid;</span>
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145
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<pre style="margin: 0;">+<span id="LC145" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- tags = (JSONObject) c.ReadJson("/instances/" + uuid + "/tags");</span></span>
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146
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ tags = (JsonObject) c.ReadJson("/instances/" + uuid + "/tags");</span></span>
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147
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="diff"> stack = AddSlice(stack, c, uuid);</span>
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148
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="diff"> }</span>
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149
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="diff"> else</span>
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150
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="diff"> {</span>
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151
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="diff"> name = "Series " + uuid;</span>
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152
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="diff"> </span>
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153
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject series = (JSONObject) c.ReadJson("/series/" + uuid);</span></span>
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154
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances = (JSONArray) series.get("Instances");</span></span>
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155
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject series = (JsonObject) c.ReadJson("/series/" + uuid);</span></span>
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156
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances = (JsonArray) series.get("Instances");</span></span>
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157
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="diff"> </span>
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158
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="diff"> try</span>
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159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="diff"> {</span>
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160
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- tags = (JSONObject) c.ReadJson("/series/" + uuid + "/shared-tags");</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ tags = (JsonObject) c.ReadJson("/series/" + uuid + "/shared-tags");</span></span>
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162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="diff"> }</span>
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163
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="diff"> catch (Exception e)</span>
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164
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="diff"> {</span>
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165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="diff"> // Fallback for old versions of Orthanc, without "shared-tags"</span>
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166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- tags = (JSONObject) c.ReadJson("/instances/" + (String) instances.get(0) + "/tags");</span></span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ tags = (JsonObject) c.ReadJson("/instances/" + (String) instances.get(0) + "/tags");</span></span>
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="diff"> final String[] slices = GetSlices(c, instances);</span>
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="diff"><span class="gh" style="color: #999;">Index: OrthancImageJ-1.2/com/orthancserver/OrthancConfigurationDialog.java</span></span>
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- OrthancImageJ-1.2.orig/com/orthancserver/OrthancConfigurationDialog.java</span></span>
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<td class="diff-line-num new new_line" data-linenumber="174" 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">
174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ OrthancImageJ-1.2/com/orthancserver/OrthancConfigurationDialog.java</span></span>
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="diff"><span class="p">@@ -44,7 +44,7 @@</span> import javax.swing.JTree;</span>
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="diff"> import javax.swing.SwingWorker;</span>
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="diff"> import javax.swing.border.EmptyBorder;</span>
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONObject;</span></span>
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.JsonObject;</span></span>
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="diff"> public class OrthancConfigurationDialog extends JDialog </span>
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="diff"><span class="p">@@ -110,7 +110,7 @@</span> public class OrthancConfigurationDialog</span>
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="diff"> OrthancConnection orthanc = CreateConnection();</span>
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="diff"> try</span>
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject system = (JSONObject) orthanc.ReadJson("system");</span></span>
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189
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject system = (JsonObject) orthanc.ReadJson("system");</span></span>
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<pre style="margin: 0;">+<span id="LC190" class="line" lang="diff"> JOptionPane.showMessageDialog(null, "Successfully connected to this Orthanc server " +</span>
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<td class="diff-line-num new new_line" data-linenumber="191" 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">
191
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<pre style="margin: 0;">+<span id="LC191" class="line" lang="diff"> "(version: " + (String) system.get("Version") + ")!", </span>
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<td class="diff-line-num new new_line" data-linenumber="192" 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="LC192" class="line" lang="diff"> "Success", JOptionPane.INFORMATION_MESSAGE);</span>
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<td class="diff-line-num new new_line" data-linenumber="193" 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="LC193" class="line" lang="diff"><span class="gh" style="color: #999;">Index: OrthancImageJ-1.2/com/orthancserver/OrthancConnection.java</span></span>
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- OrthancImageJ-1.2.orig/com/orthancserver/OrthancConnection.java</span></span>
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<td class="diff-line-num new new_line" data-linenumber="196" 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="LC196" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ OrthancImageJ-1.2/com/orthancserver/OrthancConnection.java</span></span>
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<td class="diff-line-num new new_line" data-linenumber="197" 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="LC197" class="line" lang="diff"><span class="p">@@ -31,8 +31,9 @@</span> import java.net.URL;</span>
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<td class="diff-line-num new new_line" data-linenumber="198" 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="LC198" class="line" lang="diff"> import java.net.URLConnection;</span>
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="diff"> import java.util.Base64;</span>
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="diff"> import javax.imageio.ImageIO;</span>
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<td class="diff-line-num new new_line" data-linenumber="201" 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="LC201" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONObject;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="202" 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="LC202" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONValue;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="203" 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="LC203" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.JsonObject;</span></span>
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.Jsoner;</span></span>
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.@JSON_EXCEPTION@;</span></span>
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="diff"> public class OrthancConnection</span>
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="diff"><span class="p">@@ -194,7 +195,13 @@</span> public class OrthancConnection</span>
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="diff"> public Object ReadJson(String uri) throws IOException</span>
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<pre style="margin: 0;">+<span id="LC211" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="diff"> String content = ReadString(uri);</span>
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- Object json = JSONValue.parse(content);</span></span>
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ Object json;</span></span>
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ try {</span></span>
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<pre style="margin: 0;">+<span id="LC216" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ json = Jsoner.deserialize(content);</span></span>
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<pre style="margin: 0;">+<span id="LC217" 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="LC218" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ catch (@JSON_EXCEPTION@ e) {</span></span>
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219
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<pre style="margin: 0;">+<span id="LC219" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ json = null;</span></span>
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<pre style="margin: 0;">+<span id="LC220" 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="LC221" class="line" lang="diff"> </span>
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222
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="diff"> if (json == null)</span>
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223
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<pre style="margin: 0;">+<span id="LC223" class="line" lang="diff"> {</span>
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224
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="diff"><span class="p">@@ -222,9 +229,9 @@</span> public class OrthancConnection</span>
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225
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="diff"> name_ = name;</span>
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226
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="diff"> }</span>
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227
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<pre style="margin: 0;">+<span id="LC227" class="line" lang="diff"> </span>
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228
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<pre style="margin: 0;">+<span id="LC228" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- public JSONObject Serialize()</span></span>
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229
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ public JsonObject Serialize()</span></span>
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230
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<pre style="margin: 0;">+<span id="LC230" class="line" lang="diff"> {</span>
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231
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject json = new JSONObject();</span></span>
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232
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<pre style="margin: 0;">+<span id="LC232" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject json = new JsonObject();</span></span>
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<pre style="margin: 0;">+<span id="LC233" class="line" lang="diff"> json.put("Name", name_);</span>
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<pre style="margin: 0;">+<span id="LC234" class="line" lang="diff"> json.put("Url", baseUrl_);</span>
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<pre style="margin: 0;">+<span id="LC235" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC236" class="line" lang="diff"><span class="p">@@ -236,7 +243,7 @@</span> public class OrthancConnection</span>
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<pre style="margin: 0;">+<span id="LC237" class="line" lang="diff"> return json;</span>
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<pre style="margin: 0;">+<span id="LC238" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC239" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC240" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- public static OrthancConnection Unserialize(JSONObject json)</span></span>
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241
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ public static OrthancConnection Unserialize(JsonObject json)</span></span>
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242
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="diff"> OrthancConnection c = new OrthancConnection();</span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="diff"> c.SetInsecure(true); // Fix issue 9 (cannot connect to self-signed certificates)</span>
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="diff"><span class="gh" style="color: #999;">Index: OrthancImageJ-1.2/com/orthancserver/SelectImageDialog.java</span></span>
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<pre style="margin: 0;">+<span id="LC246" class="line" lang="diff"><span class="gh" style="color: #999;">===================================================================</span></span>
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<td class="diff-line-num new new_line" data-linenumber="247" 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="LC247" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- OrthancImageJ-1.2.orig/com/orthancserver/SelectImageDialog.java</span></span>
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<td class="diff-line-num new new_line" data-linenumber="248" 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="LC248" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ OrthancImageJ-1.2/com/orthancserver/SelectImageDialog.java</span></span>
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<td class="diff-line-num new new_line" data-linenumber="249" 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="LC249" class="line" lang="diff"><span class="p">@@ -21,9 +21,9 @@</span></span>
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<pre style="margin: 0;">+<span id="LC250" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC251" class="line" lang="diff"> package com.orthancserver;</span>
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<pre style="margin: 0;">+<span id="LC252" class="line" lang="diff"> </span>
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<td class="diff-line-num new new_line" data-linenumber="253" 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="LC253" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONValue;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="254" 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="LC254" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONArray;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="255" 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="LC255" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-import org.json.simple.JSONObject;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="256" 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="LC256" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.Jsoner;</span></span>
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<pre style="margin: 0;">+<span id="LC257" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.JsonArray;</span></span>
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<pre style="margin: 0;">+<span id="LC258" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+import @JSON_SIMPLE_PACKAGE@.JsonObject;</span></span>
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="diff"> import java.io.IOException;</span>
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<pre style="margin: 0;">+<span id="LC260" class="line" lang="diff"> import java.util.ArrayList;</span>
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<pre style="margin: 0;">+<span id="LC261" class="line" lang="diff"> import java.util.Base64;</span>
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<td class="diff-line-num new new_line" data-linenumber="262" 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="LC262" class="line" lang="diff"><span class="p">@@ -109,8 +109,8 @@</span> public class SelectImageDialog extends J</span>
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<pre style="margin: 0;">+<span id="LC263" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="diff"> try</span>
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC266" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject series = (JSONObject) orthanc_.ReadJson("series/" + uuid_);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="267" 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="LC267" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances = (JSONArray) series.get("Instances");</span></span>
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<pre style="margin: 0;">+<span id="LC268" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject series = (JsonObject) orthanc_.ReadJson("series/" + uuid_);</span></span>
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269
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<pre style="margin: 0;">+<span id="LC269" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances = (JsonArray) series.get("Instances");</span></span>
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270
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="diff"> if (instances.size() > 0)</span>
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271
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<pre style="margin: 0;">+<span id="LC271" class="line" lang="diff"> {</span>
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272
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="diff"> preview.Load(orthanc_, "/instances/" + instances.get(0) + "/preview");</span>
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273
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="diff"><span class="p">@@ -150,12 +150,12 @@</span> public class SelectImageDialog extends J</span>
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274
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="diff"> {</span>
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275
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<pre style="margin: 0;">+<span id="LC275" class="line" lang="diff"> List<MyTreeNode> children = new ArrayList<MyTreeNode>();</span>
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<pre style="margin: 0;">+<span id="LC276" class="line" lang="diff"> </span>
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277
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<pre style="margin: 0;">+<span id="LC277" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray patients = (JSONArray) orthanc_.ReadJson("patients");</span></span>
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278
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<pre style="margin: 0;">+<span id="LC278" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray patients = (JsonArray) orthanc_.ReadJson("patients");</span></span>
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<pre style="margin: 0;">+<span id="LC279" class="line" lang="diff"> for (int i = 0; i < patients.size(); i++)</span>
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<pre style="margin: 0;">+<span id="LC280" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC281" class="line" lang="diff"> String uuid = (String) patients.get(i);</span>
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject patient = (JSONObject) orthanc_.ReadJson("patients/" + uuid);</span></span>
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283
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<pre style="margin: 0;">+<span id="LC283" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject main = (JSONObject) patient.get("MainDicomTags");</span></span>
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284
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<pre style="margin: 0;">+<span id="LC284" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject patient = (JsonObject) orthanc_.ReadJson("patients/" + uuid);</span></span>
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285
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<pre style="margin: 0;">+<span id="LC285" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject main = (JsonObject) patient.get("MainDicomTags");</span></span>
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286
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<pre style="margin: 0;">+<span id="LC286" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC287" class="line" lang="diff"> String s = new String();</span>
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<pre style="margin: 0;">+<span id="LC288" class="line" lang="diff"> s = AddComponent(s, (String) main.get("PatientID"));</span>
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="diff"><span class="p">@@ -171,13 +171,13 @@</span> public class SelectImageDialog extends J</span>
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<pre style="margin: 0;">+<span id="LC290" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC291" class="line" lang="diff"> List<MyTreeNode> children = new ArrayList<MyTreeNode>();</span>
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<pre style="margin: 0;">+<span id="LC292" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC293" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject patient = (JSONObject) orthanc_.ReadJson("patients/" + uuid_);</span></span>
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294
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<pre style="margin: 0;">+<span id="LC294" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray studies = (JSONArray) patient.get("Studies");</span></span>
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295
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<pre style="margin: 0;">+<span id="LC295" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject patient = (JsonObject) orthanc_.ReadJson("patients/" + uuid_);</span></span>
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296
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<pre style="margin: 0;">+<span id="LC296" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray studies = (JsonArray) patient.get("Studies");</span></span>
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297
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<pre style="margin: 0;">+<span id="LC297" class="line" lang="diff"> for (int i = 0; i < studies.size(); i++)</span>
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298
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<pre style="margin: 0;">+<span id="LC298" class="line" lang="diff"> {</span>
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299
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<pre style="margin: 0;">+<span id="LC299" class="line" lang="diff"> String uuid = (String) studies.get(i);</span>
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<pre style="margin: 0;">+<span id="LC300" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject study = (JSONObject) orthanc_.ReadJson("studies/" + uuid);</span></span>
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301
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject main = (JSONObject) study.get("MainDicomTags");</span></span>
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302
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject study = (JsonObject) orthanc_.ReadJson("studies/" + uuid);</span></span>
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303
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<pre style="margin: 0;">+<span id="LC303" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject main = (JsonObject) study.get("MainDicomTags");</span></span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="diff"> String s = new String();</span>
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<pre style="margin: 0;">+<span id="LC306" class="line" lang="diff"> s = AddComponent(s, (String) main.get("StudyDescription"));</span>
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<pre style="margin: 0;">+<span id="LC307" class="line" lang="diff"><span class="p">@@ -193,13 +193,13 @@</span> public class SelectImageDialog extends J</span>
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<pre style="margin: 0;">+<span id="LC308" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC309" class="line" lang="diff"> List<MyTreeNode> children = new ArrayList<MyTreeNode>();</span>
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<pre style="margin: 0;">+<span id="LC310" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC311" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject study = (JSONObject) orthanc_.ReadJson("studies/" + uuid_);</span></span>
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<pre style="margin: 0;">+<span id="LC312" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray seriesSet = (JSONArray) study.get("Series");</span></span>
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<pre style="margin: 0;">+<span id="LC313" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject study = (JsonObject) orthanc_.ReadJson("studies/" + uuid_);</span></span>
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<pre style="margin: 0;">+<span id="LC314" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray seriesSet = (JsonArray) study.get("Series");</span></span>
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<pre style="margin: 0;">+<span id="LC315" class="line" lang="diff"> for (int i = 0; i < seriesSet.size(); i++)</span>
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<pre style="margin: 0;">+<span id="LC316" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC317" class="line" lang="diff"> String uuid = (String) seriesSet.get(i);</span>
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<pre style="margin: 0;">+<span id="LC318" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject series = (JSONObject) orthanc_.ReadJson("series/" + uuid);</span></span>
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319
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<pre style="margin: 0;">+<span id="LC319" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject main = (JSONObject) series.get("MainDicomTags");</span></span>
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320
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<pre style="margin: 0;">+<span id="LC320" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject series = (JsonObject) orthanc_.ReadJson("series/" + uuid);</span></span>
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321
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<pre style="margin: 0;">+<span id="LC321" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject main = (JsonObject) series.get("MainDicomTags");</span></span>
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322
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<pre style="margin: 0;">+<span id="LC322" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC323" class="line" lang="diff"> String s = new String();</span>
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324
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<pre style="margin: 0;">+<span id="LC324" class="line" lang="diff"> s = AddComponent(s, (String) main.get("Modality"));</span>
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325
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<pre style="margin: 0;">+<span id="LC325" class="line" lang="diff"><span class="p">@@ -215,24 +215,25 @@</span> public class SelectImageDialog extends J</span>
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<pre style="margin: 0;">+<span id="LC326" class="line" lang="diff"> {</span>
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327
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<pre style="margin: 0;">+<span id="LC327" class="line" lang="diff"> List<MyTreeNode> children = new ArrayList<MyTreeNode>();</span>
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328
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<pre style="margin: 0;">+<span id="LC328" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC329" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject series = (JSONObject) orthanc_.ReadJson("series/" + uuid_);</span></span>
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<pre style="margin: 0;">+<span id="LC330" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray instances = (JSONArray) series.get("Instances");</span></span>
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject series = (JsonObject) orthanc_.ReadJson("series/" + uuid_);</span></span>
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray instances = (JsonArray) series.get("Instances");</span></span>
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="diff"> for (int i = 0; i < instances.size(); i++)</span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="diff"> String uuid = (String) instances.get(i);</span>
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<pre style="margin: 0;">+<span id="LC336" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONObject instance = (JSONObject) orthanc_.ReadJson("instances/" + uuid);</span></span>
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<pre style="margin: 0;">+<span id="LC337" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- Long index = (Long) instance.get("IndexInSeries");</span></span>
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<pre style="margin: 0;">+<span id="LC338" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- String s;</span></span>
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339
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<pre style="margin: 0;">+<span id="LC339" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- if (index == null)</span></span>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonObject instance = (JsonObject) orthanc_.ReadJson("instances/" + uuid);</span></span>
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341
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<pre style="margin: 0;">+<span id="LC341" 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="LC342" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ // Addition by Sebastien Jodogne</span></span>
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<pre style="margin: 0;">+<span id="LC343" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ if (instance.containsKey("IndexInSeries"))</span></span>
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC345" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- s = uuid;</span></span>
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<pre style="margin: 0;">+<span id="LC346" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ children.add(new MyTreeNode(orthanc_, ResourceType.INSTANCE, uuid,</span></span>
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347
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<pre style="margin: 0;">+<span id="LC347" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ instance.getString("IndexInSeries")));</span></span>
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<pre style="margin: 0;">+<span id="LC348" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC349" class="line" lang="diff"> else</span>
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<pre style="margin: 0;">+<span id="LC350" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC351" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- s = String.valueOf(index);</span></span>
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<pre style="margin: 0;">+<span id="LC352" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- }</span></span>
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<pre style="margin: 0;">+<span id="LC353" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-</span></span>
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<pre style="margin: 0;">+<span id="LC354" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- children.add(new MyTreeNode(orthanc_, ResourceType.INSTANCE, uuid, s));</span></span>
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ // No ordering of instances is available for this series:</span></span>
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ // Use the UUID as the index of the instance.</span></span>
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<pre style="margin: 0;">+<span id="LC357" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ children.add(new MyTreeNode(orthanc_, ResourceType.INSTANCE, uuid, uuid));</span></span>
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<pre style="margin: 0;">+<span id="LC358" 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="LC359" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC360" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC361" class="line" lang="diff"> return children;</span>
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<pre style="margin: 0;">+<span id="LC362" class="line" lang="diff"><span class="p">@@ -556,12 +557,12 @@</span> public class SelectImageDialog extends J</span>
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="diff"> // https://stackoverflow.com/a/13109632/881731</span>
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<pre style="margin: 0;">+<span id="LC364" class="line" lang="diff"> String decoded = OrthancConnection.DecodeBase64(s);</span>
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<pre style="margin: 0;">+<span id="LC365" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC366" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray config = (JSONArray) JSONValue.parse(decoded);</span></span>
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<pre style="margin: 0;">+<span id="LC367" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray config = Jsoner.deserialize(decoded, (JsonArray) null);</span></span>
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368
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<pre style="margin: 0;">+<span id="LC368" class="line" lang="diff"> if (config != null)</span>
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369
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<pre style="margin: 0;">+<span id="LC369" class="line" lang="diff"> {</span>
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370
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<pre style="margin: 0;">+<span id="LC370" class="line" lang="diff"> for (int i = 0; i < config.size(); i++)</span>
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371
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<pre style="margin: 0;">+<span id="LC371" class="line" lang="diff"> {</span>
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372
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<pre style="margin: 0;">+<span id="LC372" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- AddOrthancServer(OrthancConnection.Unserialize((JSONObject) config.get(i)));</span></span>
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373
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<pre style="margin: 0;">+<span id="LC373" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ AddOrthancServer(OrthancConnection.Unserialize((JsonObject) config.get(i)));</span></span>
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374
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<pre style="margin: 0;">+<span id="LC374" class="line" lang="diff"> }</span>
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375
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<pre style="margin: 0;">+<span id="LC375" class="line" lang="diff"> }</span>
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376
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<pre style="margin: 0;">+<span id="LC376" class="line" lang="diff"> }</span>
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377
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<pre style="margin: 0;">+<span id="LC377" class="line" lang="diff"><span class="p">@@ -569,7 +570,7 @@</span> public class SelectImageDialog extends J</span>
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378
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<pre style="margin: 0;">+<span id="LC378" class="line" lang="diff"> </span>
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379
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<pre style="margin: 0;">+<span id="LC379" class="line" lang="diff"> public String Serialize()</span>
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380
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<pre style="margin: 0;">+<span id="LC380" class="line" lang="diff"> {</span>
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381
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<pre style="margin: 0;">+<span id="LC381" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- JSONArray servers = new JSONArray();</span></span>
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382
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<pre style="margin: 0;">+<span id="LC382" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ JsonArray servers = new JsonArray();</span></span>
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383
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<pre style="margin: 0;">+<span id="LC383" class="line" lang="diff"> </span>
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384
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<pre style="margin: 0;">+<span id="LC384" class="line" lang="diff"> for (int i = 0; i < root_.getChildCount(); i++)</span>
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385
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<pre style="margin: 0;">+<span id="LC385" class="line" lang="diff"> {</span>
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386
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="diff"><span class="p">@@ -577,7 +578,7 @@</span> public class SelectImageDialog extends J</span>
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387
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<pre style="margin: 0;">+<span id="LC387" class="line" lang="diff"> servers.add(node.GetConnection().Serialize());</span>
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388
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<pre style="margin: 0;">+<span id="LC388" class="line" lang="diff"> }</span>
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389
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<pre style="margin: 0;">+<span id="LC389" class="line" lang="diff"> </span>
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390
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<pre style="margin: 0;">+<span id="LC390" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">- String config = servers.toJSONString();</span></span>
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391
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<pre style="margin: 0;">+<span id="LC391" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+ String config = servers.toJson();</span></span>
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392
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<pre style="margin: 0;">+<span id="LC392" class="line" lang="diff"> </span>
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393
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<pre style="margin: 0;">+<span id="LC393" class="line" lang="diff"> // https://stackoverflow.com/a/13109632/881731</span>
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394
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<pre style="margin: 0;">+<span id="LC394" class="line" lang="diff"> return new String(Base64.getEncoder().encode(config.getBytes()));</span></pre>
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<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
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1
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1
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">json-simple</span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">json-simple-3.patch</span></pre>
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<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#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">@@ -2,14 +2,40 @@</td>
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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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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">JSON_SIMPLE_JAR = /usr/share/java/json-simple.jar</span>
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4
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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">JSON_SIMPLE_VERSION = $(shell dpkg -l libjson-simple-java | grep '^ii' | awk '{print $$3}')</span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext">JSON_SIMPLE_3 = $(shell dpkg --compare-versions '$(JSON_SIMPLE_VERSION)' '>' '3.1.1-1~' && echo yes || echo no)</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext">ifeq (yes,$(JSON_SIMPLE_3))</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext">JSON_SIMPLE_PACKAGE = com.github.cliftonlabs.json_simple</span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext">JSON_EXCEPTION = JsonException</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">else</span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">JSON_SIMPLE_PACKAGE = org.json.simple</span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">JSON_EXCEPTION = DeserializationException</span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">endif</span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"></span>
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5
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15
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<pre style="margin: 0;"> <span id="LC15" 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 $@ --parallel --builddirectory=Build</span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="plaintext"> dh $@ --builddirectory=Build</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">override_dh_auto_clean:</span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"> dh_auto_clean</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="plaintext"> find . -type f -name \*.java.json-simple \</span>
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21
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="plaintext"> -exec sh -c 'file={} && mv $$file $${file%.json-simple}' \; -print</span>
</pre>
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7
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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8
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23
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext">override_dh_auto_configure:</span>
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9
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24
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> dh_auto_configure -- -DCMAKE_JAVA_INCLUDE_PATH=${JSON_SIMPLE_JAR}</span>
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10
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25
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext"></span>
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26
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="plaintext">override_dh_auto_build:</span>
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27
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="plaintext"> find . -type f -name \*.java -exec grep -q 'import @JSON_SIMPLE_PACKAGE@' {} \; \</span>
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28
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="plaintext"> -exec sed -i.json-simple \</span>
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29
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="plaintext"> -e 's,@JSON_SIMPLE_PACKAGE@,$(JSON_SIMPLE_PACKAGE),' \</span>
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30
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext"> -e 's/@JSON_EXCEPTION@/$(JSON_EXCEPTION)/' \</span>
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31
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="plaintext"> {} \; -print</span>
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32
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="plaintext"> dh_auto_build</span>
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33
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="plaintext"></span>
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11
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34
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="plaintext">override_dh_auto_install:</span>
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12
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35
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"> dh_auto_install</span>
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36
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext"></span>
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37
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext"> # Create symbolic link next to the "Orthanc_Import.jar" plugin, so that ImageJ</span>
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38
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext"> # can locate the "json-simple.jar" package to be used</span>
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13
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39
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"> dh_link ${JSON_SIMPLE_JAR} usr/share/imagej/plugins/Orthanc_Import_json-simple.jar</span>
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14
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40
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext"></span>
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15
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41
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext">override_dh_installchangelogs:</span>
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<a href="https://salsa.debian.org/med-team/orthanc-imagej/-/compare/f8f493e5ac66dc957cd809e71544cae75f4676ee...8ca67a6c6a178deb5ff38df5fe090bd177ecc13d#f5606a935d95a2f20059a7ac1136f47b2edadbf6"><strong>debian/upstream/metadata</strong></a>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Repository: https://hg.orthanc-server.com/orthanc-imagej/</span>
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1
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Reference:</span>
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2
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext"> Author: Sebastien Jodogne</span>
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3
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"> Title: The Orthanc Ecosystem for Medical Imaging</span>
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</div>
</body>
</html>