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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/pbseqlib">Debian Med / pbseqlib</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/pbseqlib/commit/ad4f5ae2b02e451ca8ffbfb9107c699b4cac2598">ad4f5ae2</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-02T13:49:34+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Fix build against recent Hdf5 lib
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pbseqlib/commit/cc5d193f2fec57de83c4b647b60d0e6f81a8e336">cc5d193f</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-02T14:41:34+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">check DEB_BUILD_OPTIONS in auto_test override
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pbseqlib/commit/45b936a65d8298b97d6ec4370b2cc05102e035df">45b936a6</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-02T14:41:45+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove unused lintian override
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pbseqlib/commit/df671edd7cc581d720a30c11854626fe5f94bd3f">df671edd</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-02T14:41:54+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">hardening=+all
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/pbseqlib/commit/6d264df05b17c493576a5ac5008a8a0f4fc6dc63">6d264df0</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-07-02T14:48:53+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>5 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#058c79863c65419ec054deec574f4827c241f296">
<span class="new-file">
+
debian/patches/hdf5-1.10.0-support.patch
</span>
</a>
</li>
<li class="file-stats">
<a href="#bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
debian/patches/series
</a>
</li>
<li class="file-stats">
<a href="#8756c63497c8dc39f7773438edf53b220c773f67">
debian/rules
</a>
</li>
<li class="file-stats">
<a href="#85ccdeeb03055211183e48520592d9a93592b330">
<span class="deleted-file">

debian/source/lintian-overrides
</span>
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/pbseqlib/compare/ead5c6f0d465a2fff39f11145386a262da309e34...6d264df05b17c493576a5ac5008a8a0f4fc6dc63#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">pbseqlib (5.3.1+dfsg-1) <span class="idiff left right">UNRELEASED</span>; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">pbseqlib (5.3.1+dfsg-1) <span class="idiff left right">unstable</span>; urgency=medium</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">  [ Andreas Tille ]</span>
</pre>
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<td class="diff-line-num new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">  * Team upload.</span>
</pre>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">  * d/watch: Upstream has tagged a release so use proper watch file</span>
</pre>
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<td class="diff-line-num 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">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext">  * Exclude binary tools from upstream tarball</span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="10" 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">@@ -9,8 +10,14 @@ pbseqlib (5.3.1+dfsg-1) UNRELEASED; urgency=medium</td>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC10" class="line" lang="plaintext">     - Standards-Version: 4.1.4</span>
</pre>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">     - Sequence of fields</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext">     - Formatting</span>
</pre>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext">  * check DEB_BUILD_OPTIONS in auto_test override</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="14" 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="LC14" class="line" lang="plaintext">  * Remove unused lintian override</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext">  * hardening=+all</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org>  Tue, 26 Jun 2018 08:39:02 +0200</span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext">  [ Gilles Filippini ]</span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="plaintext">  * Fix build against recent Hdf5 lib</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="14" 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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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="14" 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="LC20" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org>  Mon, 02 Jul 2018 14:42:21 +0200</span>
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14
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21
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
</pre>
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15
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<td class="diff-line-num new_line" data-linenumber="22" 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">
22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">pbseqlib (0~20161219-2) unstable; urgency=medium</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="16" 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">
16
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<td class="diff-line-num new_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
23
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"></span>
</pre>
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<br>
</li>
<li id="058c79863c65419ec054deec574f4827c241f296">
<a href="https://salsa.debian.org/med-team/pbseqlib/compare/ead5c6f0d465a2fff39f11145386a262da309e34...6d264df05b17c493576a5ac5008a8a0f4fc6dc63#058c79863c65419ec054deec574f4827c241f296"><strong>debian/patches/hdf5-1.10.0-support.patch</strong></a>
<hr>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="diff">Author: Gilles Filippini <pini@debian.org></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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="LC2" class="line" lang="diff">Last-Update: Sun, 1 Jul 2018 21:33:39 +0200</span>
</pre>
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3
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="diff">Description: Fix build against recent Hdf5 lib</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" 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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4
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="diff"></span>
</pre>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/BufferedHDF2DArray.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/BufferedHDF2DArray.cpp</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -29,7 +29,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="diff">  */</span>
</pre>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-DSLength GetDatasetNDim(H5::Group &parentGroup, std::string datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+DSLength GetDatasetNDim(H5::CommonFG &parentGroup, std::string datasetName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="diff"> {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="diff">     HDFData tmpDataset;</span>
</pre>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="diff">     tmpDataset.InitializeDataset(parentGroup, datasetName);</span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/BufferedHDF2DArray.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/BufferedHDF2DArray.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -53,7 +53,7 @@ private:</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="diff">     DSLength rowLength, colLength;</span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC21" class="line" lang="diff"> public:</span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    BufferedHDF2DArray(H5::Group *_container, std::string _datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    BufferedHDF2DArray(H5::CommonFG *_container, std::string _datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="diff">     BufferedHDF2DArray();</span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -93,7 +93,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="diff">     void Read(DSLength startX, DSLength endX, DSLength startY, DSLength endY, H5::DataType typeID,</span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="diff">               T *dest);</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void Create(H5::Group *_container, std::string _datasetName, DSLength _rowLength);</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;">+    void Create(H5::CommonFG *_container, std::string _datasetName, DSLength _rowLength);</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="diff">     void TypedCreate(H5::DataSpace &fileSpace, H5::DSetCreatPropList &cparms);</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -113,7 +113,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="diff">     void Flush(DSLength destRow = static_cast<DSLength>(-1));</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"><span class="gd" style="color: #000; background-color: #fdd;">-DSLength GetDatasetNDim(H5::Group &parentGroup, std::string datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+DSLength GetDatasetNDim(H5::CommonFG &parentGroup, std::string datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="diff"> #define DECLARE_TYPED_WRITE_ROW(T, Pred)                                                       \</span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="diff">     template <>                                                                                \</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;">--- a/hdf/BufferedHDF2DArrayImpl.hpp</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;">+++ b/hdf/BufferedHDF2DArrayImpl.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -7,7 +7,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="diff"> #include <pbdata/utils.hpp></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC50" class="line" lang="diff"> template <typename T></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-BufferedHDF2DArray<T>::BufferedHDF2DArray(H5::Group *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+BufferedHDF2DArray<T>::BufferedHDF2DArray(H5::CommonFG *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="diff">     : HDFData(_container, _datasetName)</span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -191,7 +191,7 @@ void BufferedHDF2DArray<T>::Read(DSLengt</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>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="diff"> template <typename T></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-void BufferedHDF2DArray<T>::Create(H5::Group *_container, std::string _datasetName,</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+void BufferedHDF2DArray<T>::Create(H5::CommonFG *_container, std::string _datasetName,</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="diff">                                    DSLength _rowLength)</span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="diff">     container = _container;</span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/BufferedHDFArray.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/BufferedHDFArray.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -52,7 +52,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="diff">      */</span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="diff">     BufferedHDFArray(int pBufferSize = 32768);</span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    BufferedHDFArray(H5::Group *_container, std::string _datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    BufferedHDFArray(H5::CommonFG *_container, std::string _datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="diff">     ~BufferedHDFArray();</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="gu" style="color: #800080; font-weight: 600;">@@ -72,7 +72,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="diff">     void Create(HDFGroup &parentGroup, std::string _datasetName);</span>
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<pre style="margin: 0;">+<span id="LC79" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void Create(H5::Group *_container, std::string _datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void Create(H5::CommonFG *_container, std::string _datasetName);</span></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">      * Initialize for reading.</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;">--- a/hdf/BufferedHDFArrayImpl.hpp</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;">+++ b/hdf/BufferedHDFArrayImpl.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -20,7 +20,7 @@ BufferedHDFArray<T>::BufferedHDFArray(in</span></span>
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="diff"> template <typename T></span>
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-BufferedHDFArray<T>::BufferedHDFArray(H5::Group *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+BufferedHDFArray<T>::BufferedHDFArray(H5::CommonFG *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="diff">     : HDFData(_container, _datasetName)</span>
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="diff">     // no-op</span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -190,7 +190,7 @@ void BufferedHDFArray<T>::Create(HDFGrou</span></span>
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="diff"> }</span>
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98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="diff"> </span>
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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="diff"> template <typename T></span>
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-void BufferedHDFArray<T>::Create(H5::Group *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+void BufferedHDFArray<T>::Create(H5::CommonFG *_container, std::string _datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="diff">     //</span>
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="diff">     // Initialize where the dataset will go.</span>
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFAtom.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFAtom.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -1,7 +1,7 @@</span></span>
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="diff"> #include <hdf/HDFAtom.hpp></span>
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="diff"> template <></span>
</pre>
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-void HDFAtom<std::string>::Create(H5::H5Object &object, const std::string &atomName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+void HDFAtom<std::string>::Create(H5::H5Location &object, const std::string &atomName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="diff"> {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="diff">     H5::StrType strType(0, H5T_VARIABLE);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="diff">     hsize_t defaultDims[] = {1};</span>
</pre>
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -11,7 +11,7 @@ void HDFAtom<std::string>::Create(H5::H5</span></span>
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="diff"> #define DEFINE_TYPED_CREATE_ATOM(T, predtype)                                               \</span>
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="diff">     template <>                                                                             \</span>
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void HDFAtom<T>::TypedCreate(H5::H5Object &object, const std::string &atomName,         \</span></span>
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void HDFAtom<T>::TypedCreate(H5::H5Location &object, const std::string &atomName,         \</span></span>
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="diff">                                  H5::DataSpace &defaultDataSpace)                           \</span>
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="diff">     {                                                                                       \</span>
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="diff">         attribute = object.createAttribute(atomName.c_str(), (predtype), defaultDataSpace); \</span>
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFAtom.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFAtom.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -26,9 +26,9 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="diff">         }</span>
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="diff">     }</span>
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    H5::H5Object *GetObject() { return NULL; }</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    H5::H5Location *GetObject() { return NULL; }</span></span>
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    int Initialize(H5::H5Object &object, const std::string &attributeName)</span></span>
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    int Initialize(H5::H5Location &object, const std::string &attributeName)</span></span>
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="diff">     {</span>
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="diff">         attribute = object.openAttribute(attributeName.c_str());</span>
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="diff">         isInitialized = true;</span>
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -45,7 +45,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="diff">         return Initialize(data.dataset, attributeName);</span>
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<pre style="margin: 0;">+<span id="LC141" class="line" lang="diff">     }</span>
</pre>
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<pre style="margin: 0;">+<span id="LC142" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC143" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    int Initialize(H5::Group &object, const std::string &attributeName)</span></span>
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<pre style="margin: 0;">+<span id="LC144" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    int Initialize(H5::H5File &object, const std::string &attributeName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC145" class="line" lang="diff">     {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC146" class="line" lang="diff">         try {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC147" class="line" lang="diff">             attribute = object.openAttribute(attributeName.c_str());</span>
</pre>
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<pre style="margin: 0;">+<span id="LC148" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -71,14 +71,14 @@ public:</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="diff">     // This handles creation of all non-std::string types.  A specialization</span>
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="diff">     // for std::strings is provided below.</span>
</pre>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="diff">     //</span>
</pre>
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<pre style="margin: 0;">+<span id="LC152" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void Create(H5::H5Object &object, const std::string &atomName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void Create(H5::H5Location &object, const std::string &atomName)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC154" class="line" lang="diff">     {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC155" class="line" lang="diff">         hsize_t defaultDims[] = {1};</span>
</pre>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="diff">         H5::DataSpace defaultDataSpace(1, defaultDims);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="diff">         TypedCreate(object, atomName, defaultDataSpace);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="diff">     }</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="159" 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">
159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="diff"> </span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="160" 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">
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;">-    void Create(H5::H5Object &object, const std::string &name, const std::string &value)</span></span>
</pre>
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</tr>
<tr class="line_holder new" id="" style="line-height: 1.6;">
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<td class="diff-line-num new new_line" data-linenumber="161" 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="LC161" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void Create(H5::H5Location &object, const std::string &name, const std::string &value)</span></span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="162" 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">
162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="diff">     {</span>
</pre>
</td>
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<tr class="line_holder new" id="" style="line-height: 1.6;">
<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="163" 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="LC163" class="line" lang="diff">         H5::StrType strType(0, value.size());</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="164" 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="LC164" class="line" lang="diff">         attribute = object.createAttribute(name.c_str(), strType, H5::DataSpace(0, NULL));</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="165" 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="LC165" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -86,7 +86,7 @@ public:</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="166" 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">
166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="diff">         attribute.write(strType, value.c_str());</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="167" 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="LC167" class="line" lang="diff">     }</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="168" 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="LC168" class="line" lang="diff"> </span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="169" 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="LC169" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void Create(H5::H5Object &object, const std::string &name, std::vector<int> &vect)</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="170" 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="LC170" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void Create(H5::H5Location &object, const std::string &name, std::vector<int> &vect)</span></span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="171" 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="LC171" class="line" lang="diff">     {</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="172" 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="LC172" class="line" lang="diff">         hsize_t length = vect.size();</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="173" 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="LC173" class="line" lang="diff">         H5::ArrayType arrayDataType(H5::PredType::NATIVE_INT, 1, &length);</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="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">
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -95,7 +95,7 @@ public:</span></span>
</pre>
</td>
</tr>
<tr class="line_holder new" id="" style="line-height: 1.6;">
<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="175" 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="LC175" class="line" lang="diff">         attribute.write(H5::PredType::NATIVE_INT, &((vect)[0]));</span>
</pre>
</td>
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<td class="diff-line-num new new_line" data-linenumber="176" 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="LC176" class="line" lang="diff">     }</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="177" 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="LC177" class="line" lang="diff"> </span>
</pre>
</td>
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<tr class="line_holder new" id="" style="line-height: 1.6;">
<td class="diff-line-num new old_line" data-linenumber="0" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="178" 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="LC178" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void Create(H5::H5Object &object, const std::string &name, const std::vector<std::string> &vect)</span></span>
</pre>
</td>
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void Create(H5::H5Location &object, const std::string &name, const std::vector<std::string> &vect)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="diff">     {</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="181" 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="LC181" class="line" lang="diff">         hsize_t length = vect.size();</span>
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="diff">         H5::StrType strType(0, H5T_VARIABLE);</span>
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -104,7 +104,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="diff">         attribute.write(strType, &((vect)[0]));</span>
</pre>
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="diff">     }</span>
</pre>
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void TypedCreate(H5::H5Object &object, const std::string &atomName, H5::DataSpace &dataSpace)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void TypedCreate(H5::H5Location &object, const std::string &atomName, H5::DataSpace &dataSpace)</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="diff">     {</span>
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<pre style="margin: 0;">+<span id="LC190" class="line" lang="diff">         (void)(object);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC191" class="line" lang="diff">         (void)(atomName);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC192" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -132,11 +132,11 @@ public:</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC193" class="line" lang="diff"> //</span>
</pre>
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="diff"> template <></span>
</pre>
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-void HDFAtom<std::string>::Create(H5::H5Object &object, const std::string &atomName);</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC197" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+void HDFAtom<std::string>::Create(H5::H5Location &object, const std::string &atomName);</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC198" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="diff"> #define DECLARE_TYPED_CREATE_ATOM(T, predtype)                                      \</span>
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="diff">     template <>                                                                     \</span>
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<pre style="margin: 0;">+<span id="LC201" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void HDFAtom<T>::TypedCreate(H5::H5Object &object, const std::string &atomName, \</span></span>
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void HDFAtom<T>::TypedCreate(H5::H5Location &object, const std::string &atomName, \</span></span>
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="diff">                                  H5::DataSpace &defaultDataSpace);</span>
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="diff"> DECLARE_TYPED_CREATE_ATOM(int, H5::PredType::NATIVE_INT)</span>
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFAttributable.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFAttributable.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -12,7 +12,7 @@ using namespace H5;</span></span>
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="diff"> //</span>
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="diff"> // whereas HDF5 1.10 has for attr_operator_t</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"><span class="gd" style="color: #000; background-color: #fdd;">-//   typedef void(* H5::attr_operator_t)(H5Object &loc, const H5std_string attr_name, void *operator_data)</span></span>
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+//   typedef void(* H5::attr_operator_t)(H5Location &loc, const H5std_string attr_name, void *operator_data)</span></span>
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="diff"> template <typename T></span>
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<pre style="margin: 0;">+<span id="LC216" class="line" lang="diff"> void CallStoreAttributeName(T &obj, std::string attrName, void *attrList)</span>
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<pre style="margin: 0;">+<span id="LC217" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -21,7 +21,7 @@ void CallStoreAttributeName(T &obj, std:</span></span>
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="diff">     ((std::vector<std::string> *)attrList)->push_back(std::string(attrName));</span>
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<pre style="margin: 0;">+<span id="LC219" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC220" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-void HDFAttributable::StoreAttributeNames(H5Object &thisobject,</span></span>
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+void HDFAttributable::StoreAttributeNames(H5Location &thisobject,</span></span>
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<pre style="margin: 0;">+<span id="LC223" class="line" lang="diff">                                           const std::vector<std::string> &attributeNames)</span>
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="diff">     int nAttr = thisobject.getNumAttrs();</span>
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -32,14 +32,14 @@ void HDFAttributable::StoreAttributeName</span></span>
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<pre style="margin: 0;">+<span id="LC227" class="line" lang="diff">     thisobject.iterateAttrs(&CallStoreAttributeName, bounds, (void *)&attributeNames);</span>
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<pre style="margin: 0;">+<span id="LC228" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC230" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-H5Object *HDFAttributable::GetObject() { return NULL; }</span></span>
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+H5Location *HDFAttributable::GetObject() { return NULL; }</span></span>
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<pre style="margin: 0;">+<span id="LC232" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC233" class="line" lang="diff"> int HDFAttributable::ContainsAttribute(const std::string &attributeName)</span>
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<pre style="margin: 0;">+<span id="LC234" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC235" class="line" lang="diff">     size_t i;</span>
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<pre style="margin: 0;">+<span id="LC236" class="line" lang="diff">     std::vector<std::string> tmpAttributeNames;</span>
</pre>
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<pre style="margin: 0;">+<span id="LC237" class="line" lang="diff">     try {</span>
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<pre style="margin: 0;">+<span id="LC238" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-        H5Object *obj = GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC239" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+        H5Location *obj = GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC240" class="line" lang="diff">         assert(obj != NULL);</span>
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<pre style="margin: 0;">+<span id="LC241" class="line" lang="diff">         StoreAttributeNames(*obj, tmpAttributeNames);</span>
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="diff">         for (i = 0; i < tmpAttributeNames.size(); i++) {</span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFAttributable.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFAttributable.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -12,10 +12,10 @@ class HDFAttributable</span></span>
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<pre style="margin: 0;">+<span id="LC246" class="line" lang="diff"> public:</span>
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<pre style="margin: 0;">+<span id="LC247" class="line" lang="diff">     std::vector<std::string> attributeNameList;</span>
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<pre style="margin: 0;">+<span id="LC248" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC249" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    void StoreAttributeNames(H5::H5Object &thisobject,</span></span>
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<pre style="margin: 0;">+<span id="LC250" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    void StoreAttributeNames(H5::H5Location &thisobject,</span></span>
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<pre style="margin: 0;">+<span id="LC251" class="line" lang="diff">                              const std::vector<std::string> &attributeNames);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC252" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC253" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    virtual H5::H5Object *GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC254" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    virtual H5::H5Location *GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC256" class="line" lang="diff">     int ContainsAttribute(const std::string &attributeName);</span>
</pre>
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<pre style="margin: 0;">+<span id="LC257" class="line" lang="diff"> };</span>
</pre>
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<pre style="margin: 0;">+<span id="LC258" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFData.cpp</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC259" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFData.cpp</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC260" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -2,9 +2,9 @@</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC261" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC262" class="line" lang="diff"> using namespace H5;</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"><span class="gd" style="color: #000; background-color: #fdd;">-H5Object *HDFData::GetObject() { return &dataset; }</span></span>
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<pre style="margin: 0;">+<span id="LC265" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+H5Location *HDFData::GetObject() { return &dataset; }</span></span>
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<pre style="margin: 0;">+<span id="LC266" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC267" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-HDFData::HDFData(Group *_container, const std::string &_datasetName)</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;">+HDFData::HDFData(CommonFG *_container, const std::string &_datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC269" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC270" class="line" lang="diff">     container = _container;</span>
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<pre style="margin: 0;">+<span id="LC271" class="line" lang="diff">     datasetName = _datasetName;</span>
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<pre style="margin: 0;">+<span id="LC272" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -32,7 +32,7 @@ int HDFData::Initialize(HDFGroup &parent</span></span>
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<pre style="margin: 0;">+<span id="LC273" class="line" lang="diff">     std::exit(EXIT_FAILURE);</span>
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<pre style="margin: 0;">+<span id="LC274" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC275" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC276" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-int HDFData::BaseInitializeDataset(Group &hdfFile, const std::string &_datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC277" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+int HDFData::BaseInitializeDataset(CommonFG &hdfFile, const std::string &_datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC278" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC279" class="line" lang="diff">     dataset = hdfFile.openDataSet(_datasetName.c_str());</span>
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<pre style="margin: 0;">+<span id="LC280" class="line" lang="diff">     isInitialized = true;</span>
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<pre style="margin: 0;">+<span id="LC281" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -45,7 +45,7 @@ int HDFData::InitializeDataset(HDFGroup</span></span>
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="diff">     return InitializeDataset(group.group, _datasetName);</span>
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<pre style="margin: 0;">+<span id="LC283" class="line" lang="diff"> }</span>
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<pre style="margin: 0;">+<span id="LC284" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC285" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-int HDFData::InitializeDataset(Group &hdfFile, const std::string &_datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC286" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+int HDFData::InitializeDataset(CommonFG &hdfFile, const std::string &_datasetName)</span></span>
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<pre style="margin: 0;">+<span id="LC287" class="line" lang="diff"> {</span>
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<pre style="margin: 0;">+<span id="LC288" class="line" lang="diff">     try {</span>
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="diff">         datasetName = _datasetName;</span>
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<pre style="margin: 0;">+<span id="LC290" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFData.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC291" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFData.hpp</span></span>
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<pre style="margin: 0;">+<span id="LC292" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -17,13 +17,13 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC293" class="line" lang="diff">     H5::DataSpace sourceSpace, destSpace;</span>
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<pre style="margin: 0;">+<span id="LC294" class="line" lang="diff">     H5::DataSpace fullSourceSpace;</span>
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<pre style="margin: 0;">+<span id="LC295" class="line" lang="diff">     bool fileDataSpaceInitialized;</span>
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<pre style="margin: 0;">+<span id="LC296" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    H5::Group *container;</span></span>
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<pre style="margin: 0;">+<span id="LC297" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    H5::CommonFG *container;</span></span>
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<pre style="margin: 0;">+<span id="LC298" class="line" lang="diff">     std::string datasetName;</span>
</pre>
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<pre style="margin: 0;">+<span id="LC299" class="line" lang="diff">     bool isInitialized;</span>
</pre>
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<pre style="margin: 0;">+<span id="LC300" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC301" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    H5::H5Object *GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    H5::H5Location *GetObject();</span></span>
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<pre style="margin: 0;">+<span id="LC303" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC304" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    HDFData(H5::Group *_container, const std::string &_datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC305" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    HDFData(H5::CommonFG *_container, const std::string &_datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC306" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC307" class="line" lang="diff">     HDFData();</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"><span class="gu" style="color: #800080; font-weight: 600;">@@ -43,11 +43,11 @@ public:</span></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">     virtual int Initialize(HDFGroup &parentGroup, const std::string &datasetName);</span>
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<pre style="margin: 0;">+<span id="LC312" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC313" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    int BaseInitializeDataset(H5::Group &hdfFile, const std::string &_datasetName);</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;">+    int BaseInitializeDataset(H5::CommonFG &hdfFile, const std::string &_datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC315" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC316" class="line" lang="diff">     int InitializeDataset(HDFGroup &group, const std::string &_datasetName);</span>
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<pre style="margin: 0;">+<span id="LC317" class="line" lang="diff"> </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;">-    int InitializeDataset(H5::Group &hdfFile, const std::string &_datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC319" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    int InitializeDataset(H5::CommonFG &hdfFile, const std::string &_datasetName);</span></span>
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<pre style="margin: 0;">+<span id="LC320" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC321" class="line" lang="diff">     void Close();</span>
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<pre style="margin: 0;">+<span id="LC322" class="line" lang="diff"> };</span>
</pre>
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<pre style="margin: 0;">+<span id="LC323" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFGroup.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC324" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFGroup.cpp</span></span>
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<pre style="margin: 0;">+<span id="LC325" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -12,7 +12,7 @@ void HDFGroup::AddGroup(std::string grou</span></span>
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<pre style="margin: 0;">+<span id="LC326" class="line" lang="diff"> </span>
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<pre style="margin: 0;">+<span id="LC327" class="line" lang="diff"> H5Object *HDFGroup::GetObject() { return &group; }</span>
</pre>
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<pre style="margin: 0;">+<span id="LC328" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC329" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-int HDFGroup::Initialize(Group &fg, std::string groupName)</span></span>
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<pre style="margin: 0;">+<span id="LC330" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+int HDFGroup::Initialize(CommonFG &fg, std::string groupName)</span></span>
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="diff"> {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="diff">     try {</span>
</pre>
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="diff">         group = fg.openGroup(groupName.c_str());</span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">--- a/hdf/HDFGroup.hpp</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+++ b/hdf/HDFGroup.hpp</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC336" class="line" lang="diff"><span class="gu" style="color: #800080; font-weight: 600;">@@ -25,7 +25,7 @@ public:</span></span>
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<pre style="margin: 0;">+<span id="LC337" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC338" class="line" lang="diff">     H5::H5Object* GetObject();</span>
</pre>
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<pre style="margin: 0;">+<span id="LC339" class="line" lang="diff"> </span>
</pre>
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<pre style="margin: 0;">+<span id="LC340" class="line" lang="diff"><span class="gd" style="color: #000; background-color: #fdd;">-    int Initialize(H5::Group& fg, std::string groupName);</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC341" class="line" lang="diff"><span class="gi" style="color: #000; background-color: #dfd;">+    int Initialize(H5::CommonFG& fg, std::string groupName);</span></span>
</pre>
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<pre style="margin: 0;">+<span id="LC342" class="line" lang="diff"> </span>
</pre>
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343
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<pre style="margin: 0;">+<span id="LC343" class="line" lang="diff">     int Initialize(HDFGroup& parentGroup, std::string groupName);</span>
</pre>
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</td>
<td class="diff-line-num new new_line" data-linenumber="344" 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">
344
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<pre style="margin: 0;">+<span id="LC344" class="line" lang="diff"> </span></pre>
</td>
</tr>

</table>
<br>
</li>
<li id="bc34014ab4b9a49dd7a27bdd8d352912607c3a96">
<a href="https://salsa.debian.org/med-team/pbseqlib/compare/ead5c6f0d465a2fff39f11145386a262da309e34...6d264df05b17c493576a5ac5008a8a0f4fc6dc63#bc34014ab4b9a49dd7a27bdd8d352912607c3a96"><strong>debian/patches/series</strong></a>
<hr>
<table class="code white" style="font-family: monospace; font-size: 12px;" bgcolor="#fff" width="100%" cellpadding="0" cellspacing="0">
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<td class="diff-line-num old_line" data-linenumber="1" 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">
1
</td>
<td class="diff-line-num new_line" data-linenumber="1" 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">
1
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">hdf5-1.10.1-support.patch</span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="2" 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">
2
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">hdf5-1.10.0-support.patch</span></pre>
</td>
</tr>

</table>
<br>
</li>
<li id="8756c63497c8dc39f7773438edf53b220c773f67">
<a href="https://salsa.debian.org/med-team/pbseqlib/compare/ead5c6f0d465a2fff39f11145386a262da309e34...6d264df05b17c493576a5ac5008a8a0f4fc6dc63#8756c63497c8dc39f7773438edf53b220c773f67"><strong>debian/rules</strong></a>
<hr>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="19" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="19" 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">@@ -19,6 +19,8 @@ ifeq (yes,$(shell dpkg --compare-versions $(HDF5_VERSION) '>=' 1.10.1 && echo ye</td>
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19
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">export DEB_CPPFLAGS_MAINT_APPEND=-DHAVE_HDF5_1_10_1</span>
</pre>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC20" class="line" lang="plaintext">endif</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="21" 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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<td class="diff-line-num new_line" data-linenumber="21" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC21" class="line" lang="plaintext"></span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="22" 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">
 
</td>
<td class="diff-line-num new new_line" data-linenumber="22" 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="LC22" class="line" lang="plaintext">export DEB_BUILD_MAINT_OPTIONS=hardening=+all</span>
</pre>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="22" 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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<td class="diff-line-num new_line" data-linenumber="24" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext">%:</span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="25" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC25" class="line" lang="plaintext">     dh $@</span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="24" 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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<td class="diff-line-num new_line" data-linenumber="26" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"></span>
</pre>
</td>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="29" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="31" 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">@@ -29,9 +31,11 @@ override_dh_auto_build:</td>
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<td class="diff-line-num old_line" data-linenumber="29" 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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<td class="diff-line-num new_line" data-linenumber="31" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext">     dh_auto_build -- PREFIX_INC=..</span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="30" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext"></span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="31" 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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<td class="diff-line-num new_line" data-linenumber="33" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext">override_dh_auto_test:</span>
</pre>
</td>
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<td class="diff-line-num new old_line" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
 
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<td class="diff-line-num new new_line" data-linenumber="34" 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="LC34" class="line" lang="plaintext">ifeq (,$(filter nocheck,$(DEB_BUILD_OPTIONS)))</span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="35" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC35" class="line" lang="plaintext"># Ignore the return code because some tests</span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="33" 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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<td class="diff-line-num new_line" data-linenumber="36" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext"># require data that is not available in the source distribution.</span>
</pre>
</td>
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<td class="diff-line-num old_line" data-linenumber="34" 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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<td class="diff-line-num new_line" data-linenumber="37" 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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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext">     -$(MAKE) -k gtest</span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="38" 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">
38
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext">endif</span>
</pre>
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35
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<td class="diff-line-num new_line" data-linenumber="39" 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">
39
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC39" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="36" 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">
36
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<td class="diff-line-num new_line" data-linenumber="40" 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">
40
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<pre style="margin: 0;"> <span id="LC40" class="line" lang="plaintext">override_dh_auto_install:</span>
</pre>
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37
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<td class="diff-line-num new_line" data-linenumber="41" 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">
41
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext">     mkdir -p debian/libpbdata-dev/usr/include/pbseq</span>
</pre>
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<li id="85ccdeeb03055211183e48520592d9a93592b330">
<a href="https://salsa.debian.org/med-team/pbseqlib/compare/ead5c6f0d465a2fff39f11145386a262da309e34...6d264df05b17c493576a5ac5008a8a0f4fc6dc63#85ccdeeb03055211183e48520592d9a93592b330"><strong>debian/source/lintian-overrides</strong>
deleted
</a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext"># This is a build artifact that should not have been distributed,</span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext"># but the source for it is indeed present.</span>
</pre>
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3
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">source-is-missing hdf/HDFAlnInfoGroup.o.tmp.rm.login14-biofx01.11097</span></pre>
</td>
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