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GitLab

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<h3>

Étienne Mollier pushed to branch master

at <a href="https://salsa.debian.org/med-team/libmaus2">Debian Med / libmaus2</a>

</h3>

<h4>

Commits:

</h4>

<ul>

<li>

<strong><a href="https://salsa.debian.org/med-team/libmaus2/-/commit/3e494a3f9158264f29fd006c579e7c95b1d55578">3e494a3f</a></strong>

<div>

<span>by Étienne Mollier</span>

<i>at 2022-02-24T20:33:21+01:00</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: New upstream version

</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/libmaus2/-/commit/f487c23719ada369798f125fb6b89e15a8dfb4d0">f487c237</a></strong>

<div>

<span>by Étienne Mollier</span>

<i>at 2022-02-24T20:33:22+01:00</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.0.810+ds</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/libmaus2/-/commit/462ebb36ca0a59f54f162219e6e34f61df91b8b6">462ebb36</a></strong>

<div>

<span>by Étienne Mollier</span>

<i>at 2022-02-24T20:33:27+01:00</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Update upstream source from tag 'upstream/2.0.810+ds'

Update to upstream version '2.0.810+ds'

with Debian dir 55eabd21ea303b9125a4014774d6313dc8f99fe3</pre>

</li>

<li>

<strong><a href="https://salsa.debian.org/med-team/libmaus2/-/commit/665d425f57ae2ceacb27ecaa5766d97e701f9858">665d425f</a></strong>

<div>

<span>by Étienne Mollier</span>

<i>at 2022-02-24T20:50:10+01:00</i>

</div>

<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">routine-update: Ready to upload to unstable

</pre>

</li>

</ul>

<h4>11 changed files:</h4>

<ul>

<li class="file-stats">

<a href="#00fe7828d56d7a3ee4030d6cea057cf13f50e70c">

ChangeLog

</a>

</li>

<li class="file-stats">

<a href="#87db583be5c13c1f7b3c958b10e03d67b6a2ca06">

configure.ac

</a>

</li>

<li class="file-stats">

<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">

debian/changelog

</a>

</li>

<li class="file-stats">

<a href="#a7f99236fa7771d4b1dc4f0025a0b2881dbb3a8f">

src/libmaus2/suffixsort/BwtMergeBlockSortResult.hpp

</a>

</li>

<li class="file-stats">

<a href="#23edc13602cd8272402debc0ba8dce317b5e3c23">

src/libmaus2/suffixsort/BwtMergeTempFileNameSet.hpp

</a>

</li>

<li class="file-stats">

<a href="#6bce6ba7853cfde7990a59364860c00fbb2922a5">

src/libmaus2/suffixsort/bwtb3m/BwtMergeSortTemplate.hpp

</a>

</li>

<li class="file-stats">

<a href="#544bbc78e83add663505786a84e9c3021c826425">

src/libmaus2/suffixsort/bwtb3m/MergeStrategyBaseBlock.hpp

</a>

</li>

<li class="file-stats">

<a href="#abc051354cc3c15fdf03d1a3a92187108d6dc32c">

src/libmaus2/suffixsort/bwtb3m/MergeStrategyBlock.hpp

</a>

</li>

<li class="file-stats">

<a href="#d74d3fb91360d8a835161a332cb5e683eef62bbb">

src/libmaus2/suffixsort/bwtb3m/MergeStrategyMergeBlock.hpp

</a>

</li>

<li class="file-stats">

<a href="#f5317e989ea71106d5c87c33e735f9a00a3f4d6c">

src/libmaus2/suffixsort/bwtb3m/MergeStrategyMergeGapRequest.hpp

</a>

</li>

<li class="file-stats">

<a href="#1b92add32e64064816c27ce5d24c732587fa9d20">

src/libmaus2/suffixsort/bwtb3m/MergeTree.hpp

</a>

</li>

</ul>

<h4>Changes:</h4>

<li id="00fe7828d56d7a3ee4030d6cea057cf13f50e70c">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#00fe7828d56d7a3ee4030d6cea057cf13f50e70c"><strong>ChangeLog</strong></a>

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1

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libmaus2 (2.0.810-1) unstable; urgency=medium</span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="1" 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="new_line diff-line-num new" 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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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="1" 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="new_line diff-line-num new" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

3

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">  *  Apply some improvements in BWT construction</span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="1" 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="new_line diff-line-num new" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

4

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="1" 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="new_line diff-line-num new" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

5

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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> -- German Tischler-Höhle <germant@miltenyibiotec.de>  Wed, 16 Feb 2022 14:51:33 +0100</span>

</pre>

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6

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>

</pre>

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1

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">libmaus2 (2.0.809-1) unstable; urgency=medium</span>

</pre>

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2

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>

</pre>

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3

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<td class="new_line diff-line-num" 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">

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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">  * Improve cleanup in BwtMergeSortTemplate</span>

</pre>

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<br>

</li>

<li id="87db583be5c13c1f7b3c958b10e03d67b6a2ca06">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#87db583be5c13c1f7b3c958b10e03d67b6a2ca06"><strong>configure.ac</strong></a>

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1

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<td class="new_line diff-line-num old" data-linenumber="1" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">AC_INIT(libmaus2,2.0.80<span class="idiff left right">9</span>,[germant@miltenyibiotec.de],[libmaus2],[https://gitlab.com/german.tischler/libmaus2])</span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2

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<td class="new_line diff-line-num old" data-linenumber="1" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">LIBRARY_VERSION=2:80<span class="idiff left right">9</span>:0</span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<td class="new_line diff-line-num new" data-linenumber="1" 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">

1

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">AC_INIT(libmaus2,2.0.8<span class="idiff left right">1</span>0,[germant@miltenyibiotec.de],[libmaus2],[https://gitlab.com/german.tischler/libmaus2])</span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

</td>

<td class="new_line diff-line-num new" 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

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">LIBRARY_VERSION=2:8<span class="idiff left right">1</span>0:0</span>

</pre>

</td>

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3

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<td class="new_line diff-line-num" data-linenumber="3" 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">

3

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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">AC_MSG_NOTICE([Configuring for source in directory ${srcdir}])</span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

4

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<td class="new_line diff-line-num" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">

4

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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">AC_CANONICAL_SYSTEM</span>

</pre>

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5

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5

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="plaintext">AC_CANONICAL_HOST</span>

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<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>

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1

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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">libmaus2 (2.0.810+ds-1) unstable; urgency=medium</span>

</pre>

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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">  * New upstream version</span>

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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"></span>

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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> -- Étienne Mollier <emollier@debian.org>  Thu, 24 Feb 2022 20:33:36 +0100</span>

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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"></span>

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1

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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">libmaus2 (2.0.809+ds-1) unstable; urgency=medium</span>

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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>

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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">  * New upstream version</span>

</pre>

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<li id="a7f99236fa7771d4b1dc4f0025a0b2881dbb3a8f">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#a7f99236fa7771d4b1dc4f0025a0b2881dbb3a8f"><strong>src/libmaus2/suffixsort/BwtMergeBlockSortResult.hpp</strong></a>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -99,6 +99,10 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC99" class="line" lang="cpp">                   <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">removeFilesButBwtAndGt</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span> <span class="p">{</span> <span class="n" style="color: #333;">files</span><span class="p">.</span><span class="n" style="color: #333;">removeFilesButBwtAndGt</span><span class="p">();</span> <span class="p">}</span></span>

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<td class="new_line diff-line-num" data-linenumber="100" 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="LC100" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setTempPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numbwt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numgt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numisa</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC101" class="line" lang="cpp">                  <span class="p">{</span> <span class="n" style="color: #333;">files</span><span class="p">.</span><span class="n" style="color: #333;">setPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span><span class="n" style="color: #333;">numbwt</span><span class="p">,</span><span class="n" style="color: #333;">numgt</span><span class="p">,</span><span class="n" style="color: #333;">numisa</span><span class="p">);</span> <span class="p">}</span></span>

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<pre style="margin: 0;">+<span id="LC102" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setTempPrefixSingleAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">)</span></span>

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<td class="new_line diff-line-num new" data-linenumber="103" 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="LC103" class="line" lang="cpp">                  <span class="p">{</span> <span class="n" style="color: #333;">files</span><span class="p">.</span><span class="n" style="color: #333;">setPrefixSingleAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p">);</span> <span class="p">}</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC104" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setTempPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">dir_name</span><span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC105" class="line" lang="cpp">                  <span class="p">{</span> <span class="n" style="color: #333;">files</span><span class="p">.</span><span class="n" style="color: #333;">setTempPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">dir_name</span><span class="p">);</span> <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC106" class="line" lang="cpp">                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">autoarray</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">AutoArray</span> <span class="o" style="font-weight: 600;"><</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeZBlock</span> <span class="o" style="font-weight: 600;">></span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">getZBlocks</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span> <span class="p">{</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">zblocks</span><span class="p">;</span> <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC107" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">resizeZBlocks</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">n</span><span class="p">)</span> <span class="p">{</span> <span class="n" style="color: #333;">zblocks</span><span class="p">.</span><span class="n" style="color: #333;">resize</span><span class="p">(</span><span class="n" style="color: #333;">n</span><span class="p">);</span> <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC108" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setZBlock</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeZBlock</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">z</span><span class="p">)</span> <span class="p">{</span> <span class="n" style="color: #333;">zblocks</span><span class="p">.</span><span class="n" style="color: #333;">at</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">z</span><span class="p">;</span> <span class="p">}</span></span>

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<br>

</li>

<li id="23edc13602cd8272402debc0ba8dce317b5e3c23">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#23edc13602cd8272402debc0ba8dce317b5e3c23"><strong>src/libmaus2/suffixsort/BwtMergeTempFileNameSet.hpp</strong></a>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -165,10 +165,58 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC165" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setSampledISA</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">rsampledisa</span><span class="p">)</span> <span class="p">{</span> <span class="n" style="color: #333;">sampledisa</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">rsampledisa</span><span class="p">);</span> <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC166" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setSampledISA</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">rsampledisa</span><span class="p">)</span> <span class="p">{</span> <span class="n" style="color: #333;">sampledisa</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">rsampledisa</span><span class="p">;</span> <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC167" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC168" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setTempPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">dir_name</span><span class="p">)</span> <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC169" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">p_dir_name</span><span class="p">(</span><span class="n" style="color: #333;">dir_name</span><span class="p">);</span></span>

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<td class="new_line diff-line-num new" 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="cpp"></span>

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<td class="new_line diff-line-num new" 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="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">p_hwt_req</span><span class="p">(</span><span class="n" style="color: #333;">p_dir_name</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"block.hwtreq"</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC172" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">p_hwt</span><span class="p">(</span><span class="n" style="color: #333;">p_dir_name</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"block.hwt"</span><span class="p">);</span></span>

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<td class="new_line diff-line-num new" 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">

173

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<pre style="margin: 0;">+<span id="LC173" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">p_hist</span><span class="p">(</span><span class="n" style="color: #333;">p_dir_name</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"block.hist"</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="174" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

174

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<pre style="margin: 0;">+<span id="LC174" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">p_hist_freq</span><span class="p">(</span><span class="n" style="color: #333;">p_dir_name</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"block.histfreq"</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

175

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<pre style="margin: 0;">+<span id="LC175" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

176

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<pre style="margin: 0;">+<span id="LC176" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWTReq</span>  <span class="p">(</span><span class="n" style="color: #333;">p_hwt_req</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" 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">

177

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<pre style="margin: 0;">+<span id="LC177" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWT</span>     <span class="p">(</span><span class="n" style="color: #333;">p_hwt</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

178

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<pre style="margin: 0;">+<span id="LC178" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHist</span>    <span class="p">(</span><span class="n" style="color: #333;">p_hist</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="179" 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">

179

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<pre style="margin: 0;">+<span id="LC179" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHistFreq</span><span class="p">(</span><span class="n" style="color: #333;">p_hist_freq</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="180" 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">

180

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<pre style="margin: 0;">+<span id="LC180" class="line" lang="cpp">                  <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" 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">

181

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<pre style="margin: 0;">+<span id="LC181" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="182" 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">

182

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<pre style="margin: 0;">+<span id="LC182" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="183" 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">

183

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<pre style="margin: 0;">+<span id="LC183" class="line" lang="cpp">                  <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="184" 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">

184

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<pre style="margin: 0;">+<span id="LC184" class="line" lang="cpp">                          <span class="cm" style="color: #998; font-style: italic;">/**</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="185" 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">

185

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<pre style="margin: 0;">+<span id="LC185" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">                               * number of files: 4</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="186" 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="LC186" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">                               **/</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="187" 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="LC187" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thwtreq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hwtreq"</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="188" 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="LC188" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWTReq</span><span class="p">(</span><span class="n" style="color: #333;">thwtreq</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="189" 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="LC189" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thwt</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hwt"</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="190" 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">

190

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<pre style="margin: 0;">+<span id="LC190" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWT</span><span class="p">(</span><span class="n" style="color: #333;">thwt</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="191" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

191

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<pre style="margin: 0;">+<span id="LC191" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hist"</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="192" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

192

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<pre style="margin: 0;">+<span id="LC192" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHist</span><span class="p">(</span><span class="n" style="color: #333;">thist</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

193

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<pre style="margin: 0;">+<span id="LC193" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thistfreq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".histfreq"</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="194" 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">

194

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<pre style="margin: 0;">+<span id="LC194" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHistFreq</span><span class="p">(</span><span class="n" style="color: #333;">thistfreq</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

195

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<pre style="margin: 0;">+<span id="LC195" class="line" lang="cpp">                  <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="196" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

196

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<pre style="margin: 0;">+<span id="LC196" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="197" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC197" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">registerAsTempSingle</span><span class="p">()</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" data-linenumber="198" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

198

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<pre style="margin: 0;">+<span id="LC198" class="line" lang="cpp">                  <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="199" 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="LC199" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHWT</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="200" 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="LC200" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHWTReq</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="201" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC201" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHist</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="202" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC202" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHistFreq</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="203" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC203" class="line" lang="cpp">                  <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="204" 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="LC204" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="205" 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="LC205" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setPrefixSingleAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="206" 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="LC206" class="line" lang="cpp">                  <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="207" 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="LC207" class="line" lang="cpp">                          <span class="n" style="color: #333;">setPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC208" class="line" lang="cpp">                          <span class="n" style="color: #333;">registerAsTempSingle</span><span class="p">();</span></span>

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<pre style="margin: 0;">+<span id="LC209" class="line" lang="cpp">                  <span class="p">}</span></span>

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<pre style="margin: 0;">+<span id="LC210" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC211" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setPrefix</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numbwt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numgt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numisa</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC212" class="line" lang="cpp">                  <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC213" class="line" lang="cpp">                          <span class="cm" style="color: #998; font-style: italic;">/**</span></span>

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<pre style="margin: 0;">+<span id="LC214" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">                               * number of files: 4 + numgt + numbwt + numisa</span></span>

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<pre style="margin: 0;">+<span id="LC215" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">                               **/</span></span>

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<pre style="margin: 0;">+<span id="LC216" class="line" lang="cpp">                          <span class="n" style="color: #333;">setPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC217" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC218" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">gtfilenames</span><span class="p">(</span><span class="n" style="color: #333;">numgt</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC171" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">num<span class="idiff left right">bw</span>t</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC219" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">num<span class="idiff left right">g</span>t</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC220" class="line" lang="cpp">                          <span class="p">{</span></span>

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<pre style="margin: 0;"> <span id="LC221" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostringstream</span> <span class="n" style="color: #333;">ostr</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC222" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ostr</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="sc" style="color: #d14;">'_'</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -187,16 +235,7 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC235" class="line" lang="cpp">                                          <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">".bwt"</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC236" class="line" lang="cpp">                                  <span class="n" style="color: #333;">bwtfilenames</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ostr</span><span class="p">.</span><span class="n" style="color: #333;">str</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num" data-linenumber="237" 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="LC237" class="line" lang="cpp">                          <span class="p">}</span></span>

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<td class="old_line diff-line-num old" data-linenumber="190" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="new_line diff-line-num old" data-linenumber="238" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC190" class="line" lang="cpp"></span>

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<td class="old_line diff-line-num" data-linenumber="191" 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="LC238" class="line" lang="cpp">                          <span class="n" style="color: #333;">setBWT</span><span class="p">(</span><span class="n" style="color: #333;">bwtfilenames</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC192" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thwtreq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hwtreq"</span><span class="p">;</span></span>

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<td class="old_line diff-line-num old" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="new_line diff-line-num old" data-linenumber="239" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC193" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWTReq</span><span class="p">(</span><span class="n" style="color: #333;">thwtreq</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC194" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thwt</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hwt"</span><span class="p">;</span></span>

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<td class="old_line diff-line-num old" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC195" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHWT</span><span class="p">(</span><span class="n" style="color: #333;">thwt</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC196" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thist</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".hist"</span><span class="p">;</span></span>

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<td class="new_line diff-line-num old" data-linenumber="239" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC197" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHist</span><span class="p">(</span><span class="n" style="color: #333;">thist</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC198" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">thistfreq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span><span class="o" style="font-weight: 600;">+</span><span class="s" style="color: #d14;">".histfreq"</span><span class="p">;</span></span>

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<pre style="margin: 0;">-<span id="LC199" class="line" lang="cpp">                          <span class="n" style="color: #333;">setHist</span><span class="p">(</span><span class="n" style="color: #333;">thistfreq</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC239" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC240" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">isafilenames</span><span class="p">(</span><span class="n" style="color: #333;">numisa</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC241" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">numisa</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="210" 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>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -210,15 +249,18 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC249" class="line" lang="cpp">                          <span class="n" style="color: #333;">setSampledISA</span><span class="p">(</span><span class="n" style="color: #333;">isafilenames</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC250" class="line" lang="cpp">                  <span class="p">}</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC251" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC252" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC253" class="line" lang="cpp">                  <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileNameGenerator</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numbwt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numgt</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numisa</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC254" class="line" lang="cpp">                  <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC255" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC256" class="line" lang="cpp">                          <span class="n" style="color: #333;">setPrefix</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span> <span class="n" style="color: #333;">numbwt</span><span class="p">,</span> <span class="n" style="color: #333;">numgt</span><span class="p">,</span> <span class="n" style="color: #333;">numisa</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC257" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC258" class="line" lang="cpp">                          <span class="n" style="color: #333;">registerAsTempSingle</span><span class="p">();</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC259" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC260" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">getGT</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC261" class="line" lang="cpp">                                  <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getGT</span><span class="p">()[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>

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<pre style="margin: 0;"> <span id="LC262" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">getBWT</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC263" class="line" lang="cpp">                                  <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getBWT</span><span class="p">()[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>

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<pre style="margin: 0;">-<span id="LC220" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHWT</span><span class="p">());</span></span>

</pre>

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<pre style="margin: 0;">-<span id="LC221" class="line" lang="cpp">                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getHist</span><span class="p">());</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC264" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">getSampledISAVector</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC265" class="line" lang="cpp">                                  <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">getSampledISAVector</span><span class="p">()[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>

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<pre style="margin: 0;"> <span id="LC266" class="line" lang="cpp">                  <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC353" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numgtfiles</span></span>

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<pre style="margin: 0;"> <span id="LC354" class="line" lang="cpp">                  <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC355" class="line" lang="cpp">                  <span class="p">{</span></span>

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<pre style="margin: 0;">-<span id="LC314" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">numgtfiles</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">numbwtfiles</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;"><span class="idiff left">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC356" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">numgtfiles</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">numbwtfiles</span> <span class="o" style="font-weight: 600;">+</span> <span class="mi" style="color: #099;">1</span> <span class="cm" style="color: #998; font-style: italic;"><span class="idiff left">/* hwtreq */</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* hwt */</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* hist */</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* hist.freq */</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">+</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* sample isa */</span></span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC357" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC358" class="line" lang="cpp">                  <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC359" class="line" lang="cpp"></span>

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<br>

</li>

<li id="6bce6ba7853cfde7990a59364860c00fbb2922a5">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#6bce6ba7853cfde7990a59364860c00fbb2922a5"><strong>src/libmaus2/suffixsort/bwtb3m/BwtMergeSortTemplate.hpp</strong></a>

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1

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<pre style="margin: 0;"> <span id="LC1" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">/**</span></span>

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<pre style="margin: 0;"> <span id="LC2" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">    libmaus2</span></span>

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<td class="new_line diff-line-num old" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC3" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">    Copyright (C) 2009-202<span class="idiff left right">1</span> German Tischler-Höhle</span></span>

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<pre style="margin: 0;">+<span id="LC3" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">    Copyright (C) 2009-202<span class="idiff left right">2</span> German Tischler-Höhle</span></span>

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<td class="old_line diff-line-num" 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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<td class="new_line diff-line-num" 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="cpp"><span class="cm" style="color: #998; font-style: italic;">    Copyright (C) 2011-2014 Genome Research Limited</span></span>

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<pre style="margin: 0;"> <span id="LC5" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC6" class="line" lang="cpp"><span class="cm" style="color: #998; font-style: italic;">    This program is free software: you can redistribute it and/or modify</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -108,13 +108,19 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC108" class="line" lang="cpp">                          <span class="c1" style="color: #998; font-style: italic;">// array of computed LCP values between block and start of next block</span></span>

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<pre style="margin: 0;"> <span id="LC109" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">shared_ptr</span><span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">AtomicArray</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_boundedlcpblockvalues</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC110" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC111" class="line" lang="cpp">                          <span class="c1" style="color: #998; font-style: italic;">// base tmp directory name</span></span>

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<pre style="margin: 0;"> <span id="LC112" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="n" style="color: #333;">tmpdirname</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC113" class="line" lang="cpp">                          <span class="c1" style="color: #998; font-style: italic;">// tmpdirname as path object</span></span>

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<pre style="margin: 0;"> <span id="LC114" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">tmppath</span><span class="p">;</span></span>

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<pre style="margin: 0;">-<span id="LC113" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">ds_tmp_path</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC115" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">base_tmp_path</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC116" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC117" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">merge_tmp_path</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC118" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">filesystem</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">path</span> <span class="n" style="color: #333;">ds_tmp_path_merge_ds_tmp</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC119" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC120" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DirectoryStructure</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">DSbase</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC121" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DirectoryStructure</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">DSmerge</span><span class="p">;</span></span>

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<td class="new_line diff-line-num new" data-linenumber="122" 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="LC122" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">map</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*</span><span class="p">,</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC123" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">map</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*</span><span class="p">,</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC124" class="line" lang="cpp"></span>

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<td class="new_line diff-line-num" data-linenumber="125" 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="LC125" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr</span><span class="o" style="font-weight: 600;"><</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeTempFileNameSetVector</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">blocktmpnames</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC126" class="line" lang="cpp"></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="125" 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="131" 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">@@ -125,6 +131,8 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC131" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC132" class="line" lang="cpp">                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">huffman</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">HuffmanTree</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr_type</span> <span class="n" style="color: #333;">uhnode</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC133" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC134" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">shared_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeTree</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">merge_tree</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="135" 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="LC135" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC136" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">serialiseNumber</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">ostr</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">n</span><span class="p">)</span> <span class="p">{</span></span>

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<pre style="margin: 0;"> <span id="LC137" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseNumber</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">n</span><span class="p">);</span></span>

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<pre style="margin: 0;"> <span id="LC138" class="line" lang="cpp">                          <span class="p">}</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="154" 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="162" 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">@@ -154,14 +162,23 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC162" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC163" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">tmpdirname</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num" data-linenumber="164" 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="LC164" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">tmppath</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="157" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

157

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<td class="new_line diff-line-num old" data-linenumber="165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC157" class="line" lang="cpp"><span class="idiff left">                                 </span><span class="n" style="color: #333;"><span class="idiff">libmaus2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">util</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">StringSerialisation</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">serialiseString</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">ostr</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff">ds_tmp_path</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff">string</span></span><span class="p"><span class="idiff right">());</span></span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="158" 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="new_line diff-line-num new" 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">

165

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<pre style="margin: 0;">+<span id="LC165" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num" data-linenumber="166" 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="LC166" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">base_tmp_path</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="159" 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="new_line diff-line-num" data-linenumber="167" 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">

167

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<pre style="margin: 0;"> <span id="LC167" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="160" 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="new_line diff-line-num" data-linenumber="168" 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">

168

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<pre style="margin: 0;"> <span id="LC168" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

169

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<pre style="margin: 0;">+<span id="LC169" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">merge_tmp_path</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

170

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<pre style="margin: 0;">+<span id="LC170" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseString</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">ds_tmp_path_merge_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

171

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<pre style="margin: 0;">+<span id="LC171" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="161" 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">

161

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<td class="new_line diff-line-num" data-linenumber="172" 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">

172

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<pre style="margin: 0;"> <span id="LC172" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberMapSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseMap</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span><span class="p">,</span><span class="kt" style="color: #458; font-weight: 600;">int64_t</span><span class="p">,</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">chistnoterm</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="162" 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="new_line diff-line-num" data-linenumber="173" 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">

173

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<pre style="margin: 0;"> <span id="LC173" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberMapSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseMap</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span><span class="p">,</span><span class="kt" style="color: #458; font-weight: 600;">int64_t</span><span class="p">,</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">chist</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="163" 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">

163

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<td class="new_line diff-line-num" data-linenumber="174" 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">

174

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<pre style="margin: 0;"> <span id="LC174" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseSignedNumber</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">bwtterm</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="164" 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">

164

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<td class="new_line diff-line-num" data-linenumber="175" 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">

175

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<pre style="margin: 0;"> <span id="LC175" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseNumber</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="n" style="color: #333;">maxsym</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" 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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<td class="new_line diff-line-num new" 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">

176

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<pre style="margin: 0;">+<span id="LC176" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC177" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">merge_tree</span> <span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC178" class="line" lang="cpp">                                  <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC179" class="line" lang="cpp">                                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">serialiseNumber</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">,</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC180" class="line" lang="cpp">                                          <span class="n" style="color: #333;">merge_tree</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">serialise</span><span class="p">(</span><span class="n" style="color: #333;">ostr</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC181" class="line" lang="cpp">                                  <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC182" class="line" lang="cpp">                          <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC183" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC184" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">deserialise</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">istream</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">istr</span><span class="p">)</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -191,10 +208,13 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC208" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC209" class="line" lang="cpp">                                  <span class="n" style="color: #333;">tmpdirname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;"> <span id="LC210" class="line" lang="cpp">                                  <span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;">-<span id="LC194" class="line" lang="cpp"><span class="idiff left">                                 </span><span class="n" style="color: #333;"><span class="idiff">ds_tmp_path</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">libmaus2</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">util</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">StringSerialisation</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">deserialiseString</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff">istr</span></span><span class="p"><span class="idiff right">);</span></span></span>

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<pre style="margin: 0;">+<span id="LC211" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC212" class="line" lang="cpp">                                  <span class="n" style="color: #333;">base_tmp_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;"> <span id="LC213" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;"> <span id="LC214" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC215" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tmp_path</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC216" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ds_tmp_path_merge_ds_tmp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StringSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseString</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC217" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC218" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DirectoryStructure</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">t_DSbase</span><span class="p">(</span></span>

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<pre style="margin: 0;"> <span id="LC219" class="line" lang="cpp">                                          <span class="n" style="color: #333;">BwtMergeTempFileNameSetVector</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">getDirectoryStructure</span><span class="p">(</span></span>

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<pre style="margin: 0;"> <span id="LC220" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">(),</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -221,6 +241,18 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC241" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC242" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">chist</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC243" class="line" lang="cpp">                                          <span class="n" style="color: #333;">computeHuffmanTree</span><span class="p">();</span></span>

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<pre style="margin: 0;">+<span id="LC244" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC245" class="line" lang="cpp">                                  <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">have_merge_tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deserialiseNumber</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">)</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC246" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC247" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">have_merge_tree</span> <span class="p">)</span></span>

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<td class="new_line diff-line-num new" data-linenumber="248" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC248" class="line" lang="cpp">                                  <span class="p">{</span></span>

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<td class="new_line diff-line-num new" data-linenumber="249" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">

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<pre style="margin: 0;">+<span id="LC249" class="line" lang="cpp">                                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">shared_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeTree</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">t_merge_tree</span><span class="p">(</span></span>

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<pre style="margin: 0;">+<span id="LC250" class="line" lang="cpp">                                                  <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeTree</span><span class="p">(</span><span class="n" style="color: #333;">istr</span><span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC251" class="line" lang="cpp">                                          <span class="p">);</span></span>

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<pre style="margin: 0;">+<span id="LC252" class="line" lang="cpp">                                          <span class="n" style="color: #333;">merge_tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">t_merge_tree</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC253" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC254" class="line" lang="cpp">                                          <span class="n" style="color: #333;">setupMergeDirectoryStructure</span><span class="p">();</span></span>

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<pre style="margin: 0;">+<span id="LC255" class="line" lang="cpp">                                  <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC256" class="line" lang="cpp">                          <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC257" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC258" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">static</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">getFileSize</span><span class="p">(</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -325,11 +357,14 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC357" class="line" lang="cpp">                                  <span class="n" style="color: #333;">blocksizeprevtwo</span><span class="p">((</span><span class="n" style="color: #333;">blocksize</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">blocksizenexttwo</span><span class="p">)</span> <span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">blocksize</span> <span class="o" style="font-weight: 600;">:</span> <span class="p">(</span><span class="n" style="color: #333;">blocksizenexttwo</span> <span class="o" style="font-weight: 600;">/</span> <span class="mi" style="color: #099;">2</span><span class="p">)),</span></span>

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<pre style="margin: 0;"> <span id="LC358" class="line" lang="cpp">                                  <span class="n" style="color: #333;">preisasamplingrate</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">min</span><span class="p">(</span><span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">maxpreisasamplingrate</span><span class="p">,</span><span class="n" style="color: #333;">blocksizeprevtwo</span><span class="p">)),</span></span>

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<pre style="margin: 0;"> <span id="LC359" class="line" lang="cpp">                                  <span class="n" style="color: #333;">V_boundedlcpblockvalues</span><span class="p">(</span><span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">AtomicArray</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span><span class="p">(</span><span class="n" style="color: #333;">numblocks</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">)),</span></span>

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<pre style="margin: 0;">+<span id="LC360" class="line" lang="cpp">                                  <span class="c1" style="color: #998; font-style: italic;">// tmp directory name</span></span>

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<pre style="margin: 0;"> <span id="LC361" class="line" lang="cpp">                                  <span class="n" style="color: #333;">tmpdirname</span><span class="p">(</span><span class="n" style="color: #333;">ensureDirectory</span><span class="p">(</span><span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">tmpfilenamebase</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">"_tmpdir"</span><span class="p">)),</span></span>

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<pre style="margin: 0;">+<span id="LC362" class="line" lang="cpp">                                  <span class="c1" style="color: #998; font-style: italic;">// path object for tmp directory name</span></span>

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<pre style="margin: 0;"> <span id="LC363" class="line" lang="cpp">                                  <span class="n" style="color: #333;">tmppath</span><span class="p">(</span><span class="n" style="color: #333;">tmpdirname</span><span class="p">),</span></span>

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<pre style="margin: 0;">-<span id="LC330" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ds_tmp_path</span><span class="p">(</span><span class="n" style="color: #333;">ensureDirectory</span><span class="p">(</span><span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"ds_tmp"</span><span class="p">)),</span></span>

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<pre style="margin: 0;"> <span id="LC364" class="line" lang="cpp">                                  <span class="n" style="color: #333;">base_tmp_path</span><span class="p">(</span><span class="n" style="color: #333;">ensureDirectory</span><span class="p">(</span><span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"base_tmp"</span><span class="p">)),</span></span>

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<pre style="margin: 0;"> <span id="LC365" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">(</span><span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"base_ds.tmp"</span><span class="p">),</span></span>

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<td class="old_line diff-line-num new" data-linenumber="333" 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="new_line diff-line-num new" data-linenumber="366" 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="LC366" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tmp_path</span><span class="p">(</span><span class="n" style="color: #333;">ensureDirectory</span><span class="p">(</span><span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"merge_tmp"</span><span class="p">)),</span></span>

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<pre style="margin: 0;">+<span id="LC367" class="line" lang="cpp">                                  <span class="n" style="color: #333;">ds_tmp_path_merge_ds_tmp</span><span class="p">(</span><span class="n" style="color: #333;">tmppath</span> <span class="o" style="font-weight: 600;">/</span> <span class="s" style="color: #d14;">"merge_ds.tmp"</span><span class="p">),</span></span>

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<pre style="margin: 0;"> <span id="LC368" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSbase</span><span class="p">(</span></span>

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<pre style="margin: 0;"> <span id="LC369" class="line" lang="cpp">                                          <span class="n" style="color: #333;">BwtMergeTempFileNameSetVector</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">getDirectoryStructure</span><span class="p">(</span></span>

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<pre style="margin: 0;"> <span id="LC370" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">(),</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -340,6 +375,7 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC375" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">numthreads</span> <span class="cm" style="color: #998; font-style: italic;">/* gt */</span></span>

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<pre style="margin: 0;"> <span id="LC376" class="line" lang="cpp">                                          <span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC377" class="line" lang="cpp">                                  <span class="p">),</span></span>

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<pre style="margin: 0;">+<span id="LC378" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSmerge</span><span class="p">(),</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC379" class="line" lang="cpp">                                  <span class="n" style="color: #333;">blocktmpnames</span><span class="p">(</span></span>

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<pre style="margin: 0;"> <span id="LC380" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">new</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeTempFileNameSetVector</span><span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">DSbase</span><span class="p">,</span> <span class="n" style="color: #333;">getNumBlocks</span><span class="p">(),</span> <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">numthreads</span> <span class="cm" style="color: #998; font-style: italic;">/* bwt */</span><span class="p">,</span> <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">numthreads</span> <span class="cm" style="color: #998; font-style: italic;">/* gt */</span><span class="p">)</span></span>

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<pre style="margin: 0;"> <span id="LC381" class="line" lang="cpp">                                  <span class="p">),</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="356" 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="392" 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">@@ -356,12 +392,6 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC392" class="line" lang="cpp">                                  <span class="c1" style="color: #998; font-style: italic;">// there should be at least one block as input size is not zero</span></span>

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<pre style="margin: 0;"> <span id="LC393" class="line" lang="cpp">                                  <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">numblocks</span> <span class="p">);</span></span>

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<pre style="margin: 0;"> <span id="LC394" class="line" lang="cpp"></span>

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<pre style="margin: 0;">-<span id="LC359" class="line" lang="cpp">                                  <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>

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<pre style="margin: 0;">-<span id="LC360" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                       libmaus2::aio::OutputStreamFactoryContainer::mkdirp(tmpdirname,0700);</span></span>

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<pre style="margin: 0;">-<span id="LC361" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                       libmaus2::aio::OutputStreamFactoryContainer::mkdirp(ds_tmp_path.string(),0700);</span></span>

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<pre style="margin: 0;">-<span id="LC362" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                       libmaus2::aio::OutputStreamFactoryContainer::mkdirp(base_tmp_path.string(),0700);</span></span>

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<pre style="margin: 0;">-<span id="LC363" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                       #endif</span></span>

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<pre style="margin: 0;">-<span id="LC364" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC395" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSbase</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">doGenerate</span><span class="p">();</span></span>

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<pre style="margin: 0;"> <span id="LC396" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC397" class="line" lang="cpp">                                  <span class="c1" style="color: #998; font-style: italic;">// std::cerr << "blocktmpnames=\n" << blocktmpnames->toString();</span></span>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -376,9 +406,17 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC406" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC407" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">cleanup</span><span class="p">()</span></span>

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<pre style="margin: 0;"> <span id="LC408" class="line" lang="cpp">                          <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC409" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">DSmerge</span> <span class="p">)</span> <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC410" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">P</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">M_merge_dirs</span> <span class="p">)</span></span>

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<td class="new_line diff-line-num new" data-linenumber="411" 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="LC411" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">OutputStreamFactoryContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">rmdir</span><span class="p">(</span><span class="n" style="color: #333;">P</span><span class="p">.</span><span class="n" style="color: #333;">second</span><span class="p">);</span></span>

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<td class="new_line diff-line-num new" data-linenumber="412" 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="LC412" class="line" lang="cpp">                                          <span class="n" style="color: #333;">DSmerge</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">doRemove</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="413" 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="LC413" class="line" lang="cpp">                                  <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="414" 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="LC414" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">else</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="415" 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="LC415" class="line" lang="cpp">                                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">OutputStreamFactoryContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">rmdir</span><span class="p">(</span><span class="n" style="color: #333;">merge_tmp_path</span><span class="p">);</span></span>

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<td class="new_line diff-line-num new" data-linenumber="416" 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="LC416" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC417" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSbase</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">doRemove</span><span class="p">();</span></span>

</pre>

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380

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<pre style="margin: 0;"> <span id="LC418" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">FileRemoval</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">removeFile</span><span class="p">(</span><span class="n" style="color: #333;">ds_tmp_path_base_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<td class="new_line diff-line-num old" data-linenumber="419" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC381" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;"><span class="idiff left">OutputStreamFactoryContainer</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">rmdir</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">ds_tmp_path</span></span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC419" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;"><span class="idiff left">FileRemoval</span></span><span class="o" style="font-weight: 600;"><span class="idiff">::</span></span><span class="n" style="color: #333;"><span class="idiff">removeFile</span></span><span class="p"><span class="idiff">(</span></span><span class="n" style="color: #333;"><span class="idiff right">ds_tmp_path_merge_ds_tmp</span></span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">());</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC420" class="line" lang="cpp">                                  <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">OutputStreamFactoryContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">rmdir</span><span class="p">(</span><span class="n" style="color: #333;">tmpdirname</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;"> <span id="LC421" class="line" lang="cpp">                          <span class="p">}</span></span>

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<td class="new_line diff-line-num" data-linenumber="422" 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="LC422" class="line" lang="cpp"></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="530" 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="568" 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">@@ -530,6 +568,99 @@ namespace libmaus2</td>

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530

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<pre style="margin: 0;"> <span id="LC568" class="line" lang="cpp">                                  <span class="n" style="color: #333;">huftreeCOS</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">flush</span><span class="p">();</span></span>

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<pre style="margin: 0;"> <span id="LC569" class="line" lang="cpp">                                  <span class="n" style="color: #333;">huftreeCOS</span><span class="p">.</span><span class="n" style="color: #333;">reset</span><span class="p">();</span></span>

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<pre style="margin: 0;"> <span id="LC570" class="line" lang="cpp">                          <span class="p">}</span></span>

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<pre style="margin: 0;">+<span id="LC571" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC572" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">getMergeGTExpected</span><span class="p">(</span><span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="k" style="font-weight: 600;">const</span></span>

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<td class="new_line diff-line-num new" data-linenumber="573" 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="LC573" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="574" 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="LC574" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">auto</span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="575" 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">

575

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<pre style="margin: 0;">+<span id="LC575" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC576" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">.</span><span class="n" style="color: #333;">end</span><span class="p">()</span> <span class="p">)</span> <span class="p">{</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC577" class="line" lang="cpp">                                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="578" 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">

578

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<pre style="margin: 0;">+<span id="LC578" class="line" lang="cpp">                                          <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"BwtMergeState::getMergeGTExpected: unable to find node"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="579" 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">

579

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC579" class="line" lang="cpp">                                          <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="580" 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">

580

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<pre style="margin: 0;">+<span id="LC580" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="581" 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">

581

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<pre style="margin: 0;">+<span id="LC581" class="line" lang="cpp">                                  <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="582" 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">

582

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC582" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="583" 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">

583

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<pre style="margin: 0;">+<span id="LC583" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">second</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="584" 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">

584

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<pre style="margin: 0;">+<span id="LC584" class="line" lang="cpp">                          <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="585" 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">

585

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<pre style="margin: 0;">+<span id="LC585" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="586" 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">

586

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<pre style="margin: 0;">+<span id="LC586" class="line" lang="cpp">                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="n" style="color: #333;">getDirectoryForMerge</span><span class="p">(</span><span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="k" style="font-weight: 600;">const</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="587" 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">

587

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<pre style="margin: 0;">+<span id="LC587" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="588" 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">

588

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<pre style="margin: 0;">+<span id="LC588" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">auto</span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">.</span><span class="n" style="color: #333;">find</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="589" 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">

589

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<pre style="margin: 0;">+<span id="LC589" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="590" 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">

590

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<pre style="margin: 0;">+<span id="LC590" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">it</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">.</span><span class="n" style="color: #333;">end</span><span class="p">()</span> <span class="p">)</span> <span class="p">{</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="591" 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">

591

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<pre style="margin: 0;">+<span id="LC591" class="line" lang="cpp">                                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">exception</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">LibMausException</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="592" 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">

592

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<pre style="margin: 0;">+<span id="LC592" class="line" lang="cpp">                                          <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">getStream</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"BwtMergeState::getDirectoryForMerge: unable to find node"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="593" 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">

593

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<pre style="margin: 0;">+<span id="LC593" class="line" lang="cpp">                                          <span class="n" style="color: #333;">lme</span><span class="p">.</span><span class="n" style="color: #333;">finish</span><span class="p">();</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="594" 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">

594

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<pre style="margin: 0;">+<span id="LC594" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">throw</span> <span class="n" style="color: #333;">lme</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="595" 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">

595

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<pre style="margin: 0;">+<span id="LC595" class="line" lang="cpp">                                  <span class="p">}</span></span>

</pre>

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596

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<pre style="margin: 0;">+<span id="LC596" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="597" 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">

597

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<pre style="margin: 0;">+<span id="LC597" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">it</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">second</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="598" 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">

598

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<pre style="margin: 0;">+<span id="LC598" class="line" lang="cpp">                          <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="599" 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">

599

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<pre style="margin: 0;">+<span id="LC599" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="600" 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">

600

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<pre style="margin: 0;">+<span id="LC600" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">fillGTExpected</span><span class="p">()</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="601" 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">

601

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<pre style="margin: 0;">+<span id="LC601" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="602" 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">

602

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<pre style="margin: 0;">+<span id="LC602" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="603" 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">

603

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<pre style="margin: 0;">+<span id="LC603" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal_small</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="604" 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">

604

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<pre style="margin: 0;">+<span id="LC604" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_external</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="605" 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">

605

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<pre style="margin: 0;">+<span id="LC605" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="606" 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">

606

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<pre style="margin: 0;">+<span id="LC606" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tree</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getMergeBlocks</span><span class="p">(</span><span class="n" style="color: #333;">V_internal</span><span class="p">,</span><span class="n" style="color: #333;">V_internal_small</span><span class="p">,</span><span class="n" style="color: #333;">V_external</span><span class="p">);</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="607" 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">

607

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<pre style="margin: 0;">+<span id="LC607" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="608" 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">

608

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC608" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_internal</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="609" 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">

609

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<pre style="margin: 0;">+<span id="LC609" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">();</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="610" 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">

610

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<pre style="margin: 0;">+<span id="LC610" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_internal_small</span> <span class="p">)</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="611" 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">

611

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<pre style="margin: 0;">+<span id="LC611" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">();</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="612" 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">

612

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<pre style="margin: 0;">+<span id="LC612" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_external</span> <span class="p">)</span></span>

</pre>

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613

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<pre style="margin: 0;">+<span id="LC613" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_gt_expected</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="614" 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">

614

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<pre style="margin: 0;">+<span id="LC614" class="line" lang="cpp">                          <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="615" 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">

615

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<pre style="margin: 0;">+<span id="LC615" class="line" lang="cpp"></span>

</pre>

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616

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<pre style="margin: 0;">+<span id="LC616" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setupMergeDirectoryStructure</span><span class="p">()</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="617" 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">

617

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<pre style="margin: 0;">+<span id="LC617" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="618" 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">

618

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<pre style="margin: 0;">+<span id="LC618" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="619" 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">

619

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<pre style="margin: 0;">+<span id="LC619" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal_small</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="533" 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="new_line diff-line-num new" data-linenumber="620" 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">

620

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<pre style="margin: 0;">+<span id="LC620" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_external</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="621" 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">

621

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<pre style="margin: 0;">+<span id="LC621" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="622" 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">

622

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<pre style="margin: 0;">+<span id="LC622" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tree</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getMergeBlocks</span><span class="p">(</span><span class="n" style="color: #333;">V_internal</span><span class="p">,</span><span class="n" style="color: #333;">V_internal_small</span><span class="p">,</span><span class="n" style="color: #333;">V_external</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="623" 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">

623

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<pre style="margin: 0;">+<span id="LC623" class="line" lang="cpp"></span>

</pre>

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624

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<pre style="margin: 0;">+<span id="LC624" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">num_merge_nodes</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">V_internal</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">V_internal_small</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">V_external</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="625" 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">

625

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<pre style="margin: 0;">+<span id="LC625" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="626" 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">

626

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<pre style="margin: 0;">+<span id="LC626" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">unique_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DirectoryStructure</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">tDS</span><span class="p">(</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="627" 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">

627

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC627" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">new</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DirectoryStructure</span><span class="p">(</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="628" 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">

628

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<pre style="margin: 0;">+<span id="LC628" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">ds_tmp_path_merge_ds_tmp</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">(),</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="629" 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">

629

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<pre style="margin: 0;">+<span id="LC629" class="line" lang="cpp">                                                  <span class="mi" style="color: #099;">64</span> <span class="cm" style="color: #998; font-style: italic;">/* mod */</span><span class="p">,</span></span>

</pre>

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630

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<pre style="margin: 0;">+<span id="LC630" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">num_merge_nodes</span><span class="p">,</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="631" 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">

631

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<pre style="margin: 0;">+<span id="LC631" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">merge_tmp_path</span><span class="p">.</span><span class="n" style="color: #333;">string</span><span class="p">()</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="632" 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">

632

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<pre style="margin: 0;">+<span id="LC632" class="line" lang="cpp">                                          <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="633" 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">

633

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<pre style="margin: 0;">+<span id="LC633" class="line" lang="cpp">                                  <span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="634" 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">

634

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<pre style="margin: 0;">+<span id="LC634" class="line" lang="cpp"></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="635" 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">

635

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<pre style="margin: 0;">+<span id="LC635" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSmerge</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">move</span><span class="p">(</span><span class="n" style="color: #333;">tDS</span><span class="p">);</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="636" 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">

636

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<pre style="margin: 0;">+<span id="LC636" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSmerge</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">setAsciiFlag</span><span class="p">(</span><span class="nb" style="color: #0086b3;">true</span><span class="p">);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="637" 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">

637

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<pre style="margin: 0;">+<span id="LC637" class="line" lang="cpp"></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="638" 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">

638

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<pre style="margin: 0;">+<span id="LC638" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">z</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="639" 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">

639

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<pre style="margin: 0;">+<span id="LC639" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_internal</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="640" 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">

640

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<pre style="margin: 0;">+<span id="LC640" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">DSmerge</span><span class="p">)[</span><span class="n" style="color: #333;">z</span><span class="o" style="font-weight: 600;">++</span><span class="p">];</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="641" 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">

641

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<pre style="margin: 0;">+<span id="LC641" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_internal_small</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="642" 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">

642

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<pre style="margin: 0;">+<span id="LC642" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">DSmerge</span><span class="p">)[</span><span class="n" style="color: #333;">z</span><span class="o" style="font-weight: 600;">++</span><span class="p">];</span></span>

</pre>

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</td>

<td class="new_line diff-line-num new" data-linenumber="643" 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">

643

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<pre style="margin: 0;">+<span id="LC643" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">V_external</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="644" 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">

644

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<pre style="margin: 0;">+<span id="LC644" class="line" lang="cpp">                                          <span class="n" style="color: #333;">M_merge_dirs</span><span class="p">[</span><span class="n" style="color: #333;">p</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">DSmerge</span><span class="p">)[</span><span class="n" style="color: #333;">z</span><span class="o" style="font-weight: 600;">++</span><span class="p">];</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="645" 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">

645

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<pre style="margin: 0;">+<span id="LC645" class="line" lang="cpp">                          <span class="p">}</span></span>

</pre>

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646

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<pre style="margin: 0;">+<span id="LC646" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC647" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setMergeTree</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">shared_ptr</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeTree</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">r_merge_tree</span><span class="p">)</span></span>

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<pre style="margin: 0;">+<span id="LC648" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC649" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tree</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">r_merge_tree</span><span class="p">;</span></span>

</pre>

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650

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<pre style="margin: 0;">+<span id="LC650" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC651" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC652" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_internal_small</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC653" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">V_external</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC654" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC655" class="line" lang="cpp">                                  <span class="n" style="color: #333;">merge_tree</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getMergeBlocks</span><span class="p">(</span><span class="n" style="color: #333;">V_internal</span><span class="p">,</span><span class="n" style="color: #333;">V_internal_small</span><span class="p">,</span><span class="n" style="color: #333;">V_external</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC656" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;">+<span id="LC657" class="line" lang="cpp">                                  <span class="n" style="color: #333;">setupMergeDirectoryStructure</span><span class="p">();</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC658" class="line" lang="cpp">                                  <span class="n" style="color: #333;">DSmerge</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">doGenerate</span><span class="p">();</span></span>

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<td class="new_line diff-line-num new" data-linenumber="659" 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="LC659" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">P</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">M_merge_dirs</span> <span class="p">)</span> <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC660" class="line" lang="cpp">                                          <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">OutputStreamFactoryContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">mkdir</span><span class="p">(</span><span class="n" style="color: #333;">P</span><span class="p">.</span><span class="n" style="color: #333;">second</span><span class="p">,</span><span class="mo" style="color: #099;">0700</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC661" class="line" lang="cpp">                                          <span class="n" style="color: #333;">P</span><span class="p">.</span><span class="n" style="color: #333;">first</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">sortresult</span><span class="p">.</span><span class="n" style="color: #333;">setTempPrefixSingle</span><span class="p">(</span><span class="n" style="color: #333;">P</span><span class="p">.</span><span class="n" style="color: #333;">second</span><span class="p">);</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC662" class="line" lang="cpp">                                  <span class="p">}</span></span>

</pre>

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<pre style="margin: 0;">+<span id="LC663" class="line" lang="cpp">                          <span class="p">}</span></span>

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<pre style="margin: 0;"> <span id="LC664" class="line" lang="cpp">                  <span class="p">};</span></span>

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534

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<pre style="margin: 0;"> <span id="LC665" class="line" lang="cpp">          <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="535" 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="LC666" class="line" lang="cpp">  <span class="p">}</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="824" 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="955" 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">@@ -824,6 +955,13 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="824" 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="new_line diff-line-num" data-linenumber="955" 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="LC955" class="line" lang="cpp">                                  <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">verbose</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="825" 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">

825

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956

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<pre style="margin: 0;"> <span id="LC956" class="line" lang="cpp">                          <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="826" 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="new_line diff-line-num" data-linenumber="957" 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="LC957" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="958" 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="LC958" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">gtpartnames</span><span class="p">(</span><span class="n" style="color: #333;">zblocks</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">());</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="959" 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">

959

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<pre style="margin: 0;">+<span id="LC959" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">z</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">z</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">gtpartnames</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">z</span> <span class="p">)</span> <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="960" 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="LC960" class="line" lang="cpp">                                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">gtpartname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">"_"</span> <span class="o" style="font-weight: 600;">+</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">formatNumber</span><span class="p">(</span><span class="n" style="color: #333;">z</span><span class="p">,</span><span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">".gt"</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="961" 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">

961

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<pre style="margin: 0;">+<span id="LC961" class="line" lang="cpp">                                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">gtpartname</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="962" 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">

962

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<pre style="margin: 0;">+<span id="LC962" class="line" lang="cpp">                                          <span class="n" style="color: #333;">gtpartnames</span><span class="p">[</span><span class="n" style="color: #333;">z</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtpartname</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="963" 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">

963

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<pre style="margin: 0;">+<span id="LC963" class="line" lang="cpp">                                  <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="827" 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="new_line diff-line-num new" data-linenumber="964" 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">

964

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<pre style="margin: 0;">+<span id="LC964" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="827" 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="new_line diff-line-num" data-linenumber="965" 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">

965

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<pre style="margin: 0;"> <span id="LC965" class="line" lang="cpp">                                  <span class="c1" style="color: #998; font-style: italic;">// gap array</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="828" 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">

828

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<td class="new_line diff-line-num" data-linenumber="966" 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">

966

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<pre style="margin: 0;"> <span id="LC966" class="line" lang="cpp">                                  <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">Gsize</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cblocksize</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="829" 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">

829

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<td class="new_line diff-line-num" data-linenumber="967" 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">

967

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC967" class="line" lang="cpp"></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="903" 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="1041" 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">@@ -903,7 +1041,6 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="903" 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">

903

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1041

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<pre style="margin: 0;"> <span id="LC1041" class="line" lang="cpp">                                         <span class="n" style="color: #333;">zabsblockpos</span><span class="p">[</span><span class="n" style="color: #333;">z</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">zblocks</span><span class="p">[</span><span class="n" style="color: #333;">z</span><span class="p">].</span><span class="n" style="color: #333;">getZAbsPos</span><span class="p">();</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="904" 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">

904

</td>

<td class="new_line diff-line-num" data-linenumber="1042" 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">

1042

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<pre style="margin: 0;"> <span id="LC1042" class="line" lang="cpp">                                 <span class="n" style="color: #333;">zabsblockpos</span> <span class="p">[</span> <span class="n" style="color: #333;">zactive</span> <span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">blockstart</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">cblocksize</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="905" 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">

905

</td>

<td class="new_line diff-line-num" data-linenumber="1043" 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">

1043

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1043" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="906" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

906

</td>

<td class="new_line diff-line-num old" data-linenumber="1044" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC906" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">gtpartnames</span><span class="p">(</span><span class="n" style="color: #333;">zactive</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="907" 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">

907

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<td class="new_line diff-line-num" data-linenumber="1044" 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">

1044

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1044" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="908" 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">

908

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<td class="new_line diff-line-num" data-linenumber="1045" 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">

1045

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<pre style="margin: 0;"> <span id="LC1045" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">verbose</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">5</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">logstr</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="909" 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">

909

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<td class="new_line diff-line-num" data-linenumber="1046" 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">

1046

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<pre style="margin: 0;"> <span id="LC1046" class="line" lang="cpp">                                 <span class="p">{</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="921" 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="1058" 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">@@ -921,9 +1058,8 @@ namespace libmaus2</td>

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921

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<td class="new_line diff-line-num" data-linenumber="1058" 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">

1058

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<pre style="margin: 0;"> <span id="LC1058" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="922" 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">

922

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<td class="new_line diff-line-num" data-linenumber="1059" 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">

1059

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<pre style="margin: 0;"> <span id="LC1059" class="line" lang="cpp">                                         <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeZBlock</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">zblock</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">zblocks</span><span class="p">[</span><span class="n" style="color: #333;">z</span><span class="p">];</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="923" 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">

923

</td>

<td class="new_line diff-line-num" data-linenumber="1060" 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">

1060

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1060" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="924" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

924

</td>

<td class="new_line diff-line-num old" data-linenumber="1061" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC924" class="line" lang="cpp">                                          <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">gtpartname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtmpgen</span><span class="p">.</span><span class="n" style="color: #333;">getFileName</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">"_"</span> <span class="o" style="font-weight: 600;">+</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">NumberSerialisation</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">formatNumber</span><span class="p">(</span><span class="n" style="color: #333;">z</span><span class="p">,</span><span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="o" style="font-weight: 600;">+</span> <span class="s" style="color: #d14;">".gt"</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="925" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

925

</td>

<td class="new_line diff-line-num old" data-linenumber="1061" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC925" class="line" lang="cpp">                                          <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">TempFileRemovalContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">addTempFile</span><span class="p">(</span><span class="n" style="color: #333;">gtpartname</span><span class="p">);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="926" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

926

</td>

<td class="new_line diff-line-num old" data-linenumber="1061" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC926" class="line" lang="cpp">                                          <span class="n" style="color: #333;">gtpartnames</span><span class="p">[</span><span class="n" style="color: #333;">z</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtpartname</span><span class="p">;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="927" 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="new_line diff-line-num new" data-linenumber="1061" 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">

1061

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1061" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">gtpartname</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gtpartnames</span><span class="p">.</span><span class="n" style="color: #333;">at</span><span class="p">(</span><span class="n" style="color: #333;">z</span><span class="p">);</span></span>

</pre>

</td>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="927" 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="new_line diff-line-num new" data-linenumber="1062" 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">

1062

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1062" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="927" 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">

927

</td>

<td class="new_line diff-line-num" data-linenumber="1063" 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">

1063

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1063" class="line" lang="cpp">                                         <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="928" 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">

928

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1064

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<pre style="margin: 0;"> <span id="LC1064" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              ::libmaus2::huffman::HuffmanEncoderFileStd GTHEF(gtpartname);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="929" 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">

929

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<td class="new_line diff-line-num" data-linenumber="1065" 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">

1065

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<pre style="margin: 0;"> <span id="LC1065" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="962" 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="1098" 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">@@ -962,7 +1098,7 @@ namespace libmaus2</td>

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962

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1098

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<pre style="margin: 0;"> <span id="LC1098" class="line" lang="cpp">                                 <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">parallel</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">StdSpinLock</span> <span class="n" style="color: #333;">gslock</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="963" 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">

963

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<td class="new_line diff-line-num" data-linenumber="1099" 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">

1099

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<pre style="margin: 0;"> <span id="LC1099" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="964" 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">

964

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<td class="new_line diff-line-num" data-linenumber="1100" 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">

1100

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<pre style="margin: 0;"> <span id="LC1100" class="line" lang="cpp">                                 <span class="cp" style="color: #999; font-weight: 600;">#if defined(_OPENMP)</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="965" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

965

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<td class="new_line diff-line-num old" data-linenumber="1101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC965" class="line" lang="cpp">                                  <span class="cp" style="color: #999; font-weight: 600;">#pragma omp parallel for</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="966" 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="new_line diff-line-num new" data-linenumber="1101" 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="LC1101" class="line" lang="cpp">                                 <span class="cp" style="color: #999; font-weight: 600;">#pragma omp parallel for<span class="idiff left right"> num_threads(numthreads)</span></span></span>

</pre>

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966

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<td class="new_line diff-line-num" data-linenumber="1102" 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">

1102

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<pre style="margin: 0;"> <span id="LC1102" class="line" lang="cpp">                                 <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="967" 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">

967

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<td class="new_line diff-line-num" data-linenumber="1103" 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">

1103

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<pre style="margin: 0;"> <span id="LC1103" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">t</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">t</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">cblocks</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">t</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="968" 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">

968

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<td class="new_line diff-line-num" data-linenumber="1104" 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">

1104

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<pre style="margin: 0;"> <span id="LC1104" class="line" lang="cpp">                                 <span class="p">{</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1000" 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="1136" 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">@@ -1000,7 +1136,6 @@ namespace libmaus2</td>

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1000

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<td class="new_line diff-line-num" data-linenumber="1136" 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">

1136

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<pre style="margin: 0;"> <span id="LC1136" class="line" lang="cpp">                                 <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">fs</span><span class="p">,</span> <span class="c1" style="color: #998; font-style: italic;">// length of text file in symbols</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1001" 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">

1001

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<td class="new_line diff-line-num" data-linenumber="1137" 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">

1137

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<pre style="margin: 0;"> <span id="LC1137" class="line" lang="cpp">                                 <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeStrategyMergeGapRequest</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">msmgr</span><span class="p">,</span> <span class="c1" style="color: #998; font-style: italic;">// merge request</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1002" 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">

1002

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<td class="new_line diff-line-num" data-linenumber="1138" 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">

1138

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<pre style="margin: 0;"> <span id="LC1138" class="line" lang="cpp">                                 <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">mergedgtname</span><span class="p">,</span> <span class="c1" style="color: #998; font-style: italic;">// previous gt file name</span></span>

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<td class="old_line diff-line-num old" data-linenumber="1003" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1003

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<td class="new_line diff-line-num old" data-linenumber="1139" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1003" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">//std::string const & newmergedgtname, // new gt file name</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1004" 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">

1004

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<td class="new_line diff-line-num" data-linenumber="1139" 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">

1139

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<pre style="margin: 0;"> <span id="LC1139" class="line" lang="cpp">                                 <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">lf</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">DArray</span> <span class="o" style="font-weight: 600;">*</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">accD</span><span class="p">,</span> <span class="c1" style="color: #998; font-style: italic;">// accumulated symbol freqs for block</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1005" 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">

1005

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<td class="new_line diff-line-num" data-linenumber="1140" 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">

1140

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<pre style="margin: 0;"> <span id="LC1140" class="line" lang="cpp">                                 <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">numthreads</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1006" 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">

1006

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<td class="new_line diff-line-num" data-linenumber="1141" 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">

1141

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1141" class="line" lang="cpp">                                 <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">logstr</span><span class="p">,</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1749" 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="1884" 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">@@ -1749,7 +1884,6 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="1749" 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">

1749

</td>

<td class="new_line diff-line-num" data-linenumber="1884" 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">

1884

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1884" class="line" lang="cpp">                                 <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">verbose</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1750" 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">

1750

</td>

<td class="new_line diff-line-num" data-linenumber="1885" 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">

1885

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1885" class="line" lang="cpp">                         <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1751" 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">

1751

</td>

<td class="new_line diff-line-num" data-linenumber="1886" 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">

1886

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1886" class="line" lang="cpp">                         <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1752" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1752

</td>

<td class="new_line diff-line-num old" data-linenumber="1887" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1752" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1753" 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">

1753

</td>

<td class="new_line diff-line-num" data-linenumber="1887" 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">

1887

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<pre style="margin: 0;"> <span id="LC1887" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">logstr</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="1754" 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">

1754

</td>

<td class="new_line diff-line-num" data-linenumber="1888" 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">

1888

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1888" class="line" lang="cpp">                                         <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">logstr</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[V] Merging BWT blocks MergeStrategyMergeInternalBlock."</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1755" 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">

1755

</td>

<td class="new_line diff-line-num" data-linenumber="1889" 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">

1889

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1889" class="line" lang="cpp"></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1785" 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="1919" 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">@@ -1785,7 +1919,7 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="1785" 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">

1785

</td>

<td class="new_line diff-line-num" data-linenumber="1919" 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">

1919

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<pre style="margin: 0;"> <span id="LC1919" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// gt bit array,</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1786" 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">

1786

</td>

<td class="new_line diff-line-num" data-linenumber="1920" 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">

1920

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<pre style="margin: 0;"> <span id="LC1920" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// huffman shaped wavelet tree and</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1787" 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">

1787

</td>

<td class="new_line diff-line-num" data-linenumber="1921" 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">

1921

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<pre style="margin: 0;"> <span id="LC1921" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// histogram</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1788" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1788

</td>

<td class="new_line diff-line-num old" data-linenumber="1922" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1788" class="line" lang="cpp">                                 <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setTempPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p"><span class="idiff left">,</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* no preset bwt file names */</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* no preset gt file names */</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* no preset isa */</span></span><span class="p">);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="1789" 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="new_line diff-line-num new" data-linenumber="1922" 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">

1922

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<pre style="margin: 0;">+<span id="LC1922" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left">// </span>result.setTempPrefix<span class="idiff right">Single</span>AndRegisterAsTemp(gtmpgen);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1789" 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">

1789

</td>

<td class="new_line diff-line-num" data-linenumber="1923" 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">

1923

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1923" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1790" 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">

1790

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<td class="new_line diff-line-num" data-linenumber="1924" 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">

1924

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<pre style="margin: 0;"> <span id="LC1924" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">verbose</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">5</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">logstr</span> <span class="p">)</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="1791" 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">

1791

</td>

<td class="new_line diff-line-num" data-linenumber="1925" 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">

1925

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1925" class="line" lang="cpp">                                 <span class="p">{</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1855" 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="1989" 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">@@ -1855,6 +1989,7 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="1855" 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">

1855

</td>

<td class="new_line diff-line-num" data-linenumber="1989" 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">

1989

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1989" class="line" lang="cpp">                                                 <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">logstr</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[V] renaming gt files"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1856" 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">

1856

</td>

<td class="new_line diff-line-num" data-linenumber="1990" 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">

1990

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1990" class="line" lang="cpp">                                         <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1857" 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">

1857

</td>

<td class="new_line diff-line-num" data-linenumber="1991" 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">

1991

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1991" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1858" 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="new_line diff-line-num new" data-linenumber="1992" 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">

1992

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC1992" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// move gt files for left block to output by renaming them</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1858" 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">

1858

</td>

<td class="new_line diff-line-num" data-linenumber="1993" 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">

1993

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1993" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">oldgtnames</span><span class="p">;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1859" 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">

1859

</td>

<td class="new_line diff-line-num" data-linenumber="1994" 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">

1994

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1994" class="line" lang="cpp">                                         <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">blockresults</span><span class="p">.</span><span class="n" style="color: #333;">getFiles</span><span class="p">().</span><span class="n" style="color: #333;">getGT</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1860" 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">

1860

</td>

<td class="new_line diff-line-num" data-linenumber="1995" 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">

1995

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC1995" class="line" lang="cpp">                                         <span class="p">{</span></span>

</pre>

</td>

</tr>

<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1866" 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="2001" 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">@@ -1866,6 +2001,7 @@ namespace libmaus2</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1866" 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">

1866

</td>

<td class="new_line diff-line-num" data-linenumber="2001" 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">

2001

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2001" class="line" lang="cpp">                                                 <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">aio</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">OutputStreamFactoryContainer</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">rename</span><span class="p">(</span><span class="n" style="color: #333;">blockresults</span><span class="p">.</span><span class="n" style="color: #333;">getFiles</span><span class="p">().</span><span class="n" style="color: #333;">getGT</span><span class="p">()[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">c_str</span><span class="p">(),</span> <span class="n" style="color: #333;">renamed</span><span class="p">.</span><span class="n" style="color: #333;">c_str</span><span class="p">());</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1867" 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">

1867

</td>

<td class="new_line diff-line-num" data-linenumber="2002" 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">

2002

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2002" class="line" lang="cpp">                                         <span class="p">}</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1868" 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">

1868

</td>

<td class="new_line diff-line-num" data-linenumber="2003" 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">

2003

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2003" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="1869" 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="new_line diff-line-num new" data-linenumber="2004" 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">

2004

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC2004" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// concatenate new gt files and old ones to obtain output gt files</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1869" 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">

1869

</td>

<td class="new_line diff-line-num" data-linenumber="2005" 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">

2005

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2005" class="line" lang="cpp">                                         <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setGT</span><span class="p">(</span><span class="n" style="color: #333;">stringVectorAppend</span><span class="p">(</span><span class="n" style="color: #333;">GACR</span><span class="p">.</span><span class="n" style="color: #333;">gtpartnames</span><span class="p">,</span><span class="n" style="color: #333;">oldgtnames</span><span class="p">));</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1870" 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">

1870

</td>

<td class="new_line diff-line-num" data-linenumber="2006" 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">

2006

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2006" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1871" 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">

1871

</td>

<td class="new_line diff-line-num" data-linenumber="2007" 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">

2007

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2007" class="line" lang="cpp">                                         <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">timing</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">RealTimeClock</span> <span class="n" style="color: #333;">rtc</span><span class="p">;</span> <span class="n" style="color: #333;">rtc</span><span class="p">.</span><span class="n" style="color: #333;">start</span><span class="p">();</span></span>

</pre>

</td>

</tr>

<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1931" 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="2067" 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">@@ -1931,184 +2067,6 @@ namespace libmaus2</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1931" 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">

1931

</td>

<td class="new_line diff-line-num" data-linenumber="2067" 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">

2067

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2067" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1932" 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">

1932

</td>

<td class="new_line diff-line-num" data-linenumber="2068" 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">

2068

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2068" class="line" lang="cpp">                                         <span class="n" style="color: #333;">rtc</span><span class="p">.</span><span class="n" style="color: #333;">start</span><span class="p">();</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="1933" 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">

1933

</td>

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2069

</td>

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<pre style="margin: 0;"> <span id="LC2069" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1934" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1934

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<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1934" class="line" lang="cpp">                                         <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1935" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1935

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<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1935" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              if ( verbose >= 5 && logstr )</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1936" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1936

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1936" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1937" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1937

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1937" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      (*logstr) << "[V] computing work packets" << std::endl;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1938" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1938

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1938" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1939" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1939

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1939" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1940" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1940

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1940" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const logG = std::max(libmaus2::math::ilog(Gsize),static_cast<unsigned int>(1));</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1941" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1941

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1941" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const logG2 = logG*logG;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1942" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1942

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1942" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // target number of G samples</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1943" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1943

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1943" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const tnumGsamp = std::max(Gsize / logG2,static_cast<uint64_t>(256*numthreads));</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1944" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1944

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1944" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const Gsampleblocksize = (Gsize + tnumGsamp - 1) / tnumGsamp;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1945" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1945

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1945" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // number of G samples</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1946" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1946

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1946" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const numGsamp = (Gsize + Gsampleblocksize - 1) / Gsampleblocksize;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1947" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1947

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1947" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="1948" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1948

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1948" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              libmaus2::autoarray::AutoArray < uint64_t > Gsamples(numGsamp,false);</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1949" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1949

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1949" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1950" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1950

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1950" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #if defined(_OPENMP)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1951" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1951

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1951" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #pragma omp parallel for num_threads(numthreads)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1952" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1952

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1952" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1953" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1953

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1953" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              for ( uint64_t t = 0; t < numGsamp; ++t )</span></span>

</pre>

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1954

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<pre style="margin: 0;">-<span id="LC1954" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

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1955

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<pre style="margin: 0;">-<span id="LC1955" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const low = t * Gsampleblocksize;</span></span>

</pre>

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1956

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<pre style="margin: 0;">-<span id="LC1956" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const high = std::min(low + Gsampleblocksize, Gsize);</span></span>

</pre>

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1957

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<pre style="margin: 0;">-<span id="LC1957" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      assert ( high >= low );</span></span>

</pre>

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1958

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<pre style="margin: 0;">-<span id="LC1958" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t s = 0;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1959" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1959

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<pre style="margin: 0;">-<span id="LC1959" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      G_array_iterator gp = GACR.G.begin() + low;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1960" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1960

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<pre style="margin: 0;">-<span id="LC1960" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      for ( uint64_t i = low; i < high; ++i )</span></span>

</pre>

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1961

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<pre style="margin: 0;">-<span id="LC1961" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s += *(gp++);</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1962" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1962

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<pre style="margin: 0;">-<span id="LC1962" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      s += (high-low);</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1963" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1963

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<pre style="margin: 0;">-<span id="LC1963" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( high == Gsize && high != low )</span></span>

</pre>

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1964

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<pre style="margin: 0;">-<span id="LC1964" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s -= 1;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1965" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1965

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<pre style="margin: 0;">-<span id="LC1965" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      Gsamples[t] = s;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1966" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1966

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<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1966" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1967" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1967

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<pre style="margin: 0;">-<span id="LC1967" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1968" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1968

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1968" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #if 0</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1969" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1969

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1969" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              std::vector<uint64_t> G_A(Gsamples.begin(),Gsamples.end());</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1970" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1970

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1970" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              std::vector<uint64_t> G_B(Gsamples.begin(),Gsamples.end());</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="1971" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1971

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC1971" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1972" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1972

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC1972" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              libmaus2::util::PrefixSums::prefixSums(G_A.begin(),G_A.end());</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="1973" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1973

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1973" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              libmaus2::util::PrefixSums::parallelPrefixSums(G_A.begin(),G_A.end(),numthreads);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1974" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1974

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1974" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1975" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1975

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1975" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1976" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1976

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1976" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const Gsum = libmaus2::util::PrefixSums::parallelPrefixSums(Gsamples.begin(),Gsamples.end(),numthreads);</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1977" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1977

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1977" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1978" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1978

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1978" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              if ( verbose >= 5 && logstr )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1979" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1979

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1979" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1980" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1980

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1980" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      (*logstr) << "[V] G size " << Gsize << " number of G samples " << numGsamp << std::endl;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1981" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1981

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1981" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1982" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1982

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1982" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1983" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1983

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1983" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const Gsumperthread = (Gsum + numthreads-1)/numthreads;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1984" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1984

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1984" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              std::vector < std::pair<uint64_t,uint64_t> > wpacks;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1985" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1985

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1985" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              wpacks = std::vector < std::pair<uint64_t,uint64_t> >(numthreads);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1986" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1986

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1986" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #if defined(_OPENMP)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1987" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1987

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1987" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #pragma omp parallel for num_threads(numthreads)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1988" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1988

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1988" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1989" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1989

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1989" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              for ( uint64_t i = 0; i < numthreads; ++i )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1990" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1990

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1990" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1991" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1991

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1991" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const target = i * Gsumperthread;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1992" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1992

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1992" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const * p = ::std::lower_bound(Gsamples.begin(),Gsamples.end(),target);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1993" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1993

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1993" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1994" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1994

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1994" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( p == Gsamples.end() )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1995" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1995

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1995" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              --p;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1996" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1996

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1996" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      while ( *p > target )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1997" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1997

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1997" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              --p;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1998" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1998

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1998" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="1999" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

1999

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC1999" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      assert ( *p <= target );</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2000" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2000

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2000" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2001" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2001

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2001" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t iv = (p - Gsamples.begin()) * Gsampleblocksize;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2002" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2002

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2002" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t s = *p;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2003" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2003

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2003" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2004" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2004

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2004" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      G_array_iterator gp = GACR.G.begin() + iv;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2005" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2005

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2005" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      while ( s < target && iv < Gsize )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2006" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2006

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2006" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      {</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2007" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2007

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2007" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s += (*(gp++))+1;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2008" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2008

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2008" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              iv++;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2009" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2009

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2009" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2010" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2010

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2010" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( iv == Gsize )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2011" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2011

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2011" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s -= 1;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2012" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2012

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2012" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2013" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2013

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2013" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      wpacks[i].first = iv;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2014" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2014

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2014" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( i )</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2015" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2015

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2015" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              wpacks[i-1].second = iv;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2016" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2016

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2016" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      // std::cerr << "i=" << i << " iv=" << iv << " Gsize=" << Gsize << std::endl;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2017" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2017

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2017" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2018" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2018

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2018" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              wpacks.back().second = Gsize;</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2019" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2019

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2019" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2020" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2020

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2020" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // remove empty packages</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2021" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2021

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2021" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2022" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2022

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2022" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t o = 0;</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2023" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2023

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2023" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      for ( uint64_t i = 0; i < wpacks.size(); ++i )</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2024" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2024

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2024" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              if ( wpacks[i].first != wpacks[i].second )</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2025" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2025

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2025" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                                      wpacks[o++] = wpacks[i];</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2026" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2026

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2026" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      wpacks.resize(o);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2027" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2027

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2027" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2028" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2028

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2028" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2029" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2029

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2029" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              std::vector < uint64_t > P;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2030" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2030

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2030" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              P.resize(wpacks.size()+1);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2031" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2031

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2031" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #if defined(_OPENMP)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2032" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2032

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2032" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #pragma omp parallel for num_threads(numthreads)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2033" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2033

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2033" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2034" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2034

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2034" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              for ( uint64_t i = 0; i < wpacks.size(); ++i )</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2035" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2035

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2035" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2036" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2036

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2036" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const low = wpacks[i].first;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2037" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2037

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2037" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const high = wpacks[i].second;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2038" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2038

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2038" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2039" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2039

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2039" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      G_array_iterator gp = GACR.G.begin() + low;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2040" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2040

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2040" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t s = 0;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2041" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2041

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2041" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      for ( uint64_t i = low; i < high; ++i )</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2042" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2042

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2042" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s += *(gp++);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2043" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2043

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2043" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2044" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2044

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2044" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      P[i] = s;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2045" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2045

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2045" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2046" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2046

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2046" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2047" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2047

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2047" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              libmaus2::util::PrefixSums::prefixSums(P.begin(),P.end());</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2048" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2048

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2048" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2049" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2049

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2049" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #if 0</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2050" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2050

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2050" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // std::cerr << "(computing work packets...";</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2051" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2051

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2051" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              P.push_back(0);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2052" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2052

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2052" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t ilow = 0;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2053" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2053

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2053" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              //</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2054" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2054

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2054" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const totalsuf = result.getCBlockSize();</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2055" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2055

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2055" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // number of packets</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2056" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2056

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2056" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const numpack = numthreads;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2057" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2057

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2057" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              // suffixes per thread</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2058" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2058

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2058" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              uint64_t const tpacksize = (totalsuf + numpack-1)/numpack;</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2059" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2059

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2059" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              while ( ilow != Gsize )</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2060" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2060

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2060" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              {</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2061" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2061

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2061" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t s = 0;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2062" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2062

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2062" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t ihigh = ilow;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2063" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2063

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2063" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2064" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2064

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2064" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( verbose >= 5 && logstr )</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2065" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2065

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2065" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      {</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2066" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2066

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2066" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              (*logstr) << "[V] ilow=" << ilow << std::endl;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2067" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2067

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2067" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      }</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2068" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2068

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2068" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2069" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2069

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2069" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      while ( ihigh != Gsize && s < tpacksize )</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2070

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2070" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              s += (GACR.G[ihigh++]+1);</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2071" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2071

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2071" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2072" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2072

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2072" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      uint64_t const p = s-(ihigh-ilow);</span></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2073" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2073

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2073" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num old" data-linenumber="2074" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2074

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2074" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( ihigh+1 == Gsize && GACR.G[ihigh] == 0 )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2075" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2075

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2075" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              ihigh++;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2076" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2076

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2076" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2077" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2077

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2077" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2078" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2078

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2078" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( verbose >= 5 && logstr )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2079" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2079

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2079" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      {</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2080" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2080

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2080" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              (*logstr) << "[V] ihigh=" << ilow << std::endl;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2081" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2081

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2081" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2082" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2082

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2082" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2083" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2083

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2083" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      // std::cerr << "[" << ilow << "," << ihigh << ")" << std::endl;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2084" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2084

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2084" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2085" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2085

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2085" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      assert ( p == std::accumulate(GACR.G.begin()+ilow,GACR.G.begin()+ihigh,0ull) );</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2086" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2086

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2086" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2087" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2087

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2087" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( verbose >= 5 && logstr )</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2088" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2088

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2088" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      {</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2089" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2089

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2089" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              (*logstr) << "[V] accumulate check done" << std::endl;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2090" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2090

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2090" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2091" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2091

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2091" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2092" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2092

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2092" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      P.push_back(P.back() + p);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2093" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2093

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2093" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      wpacks.push_back(std::pair<uint64_t,uint64_t>(ilow,ihigh));</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2094" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2094

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2094" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      encfilenames.push_back(</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2095" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2095

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2095" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              gtmpgen.getFileName()</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2096" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2096

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2096" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              // result.getFiles().getBWT()</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2097" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2097

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2097" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              + "_"</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2098" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2098

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2098" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              + ::libmaus2::util::NumberSerialisation::formatNumber(encfilenames.size(),6)</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2099" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2099

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2099" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              + ".bwt"</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2100" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2100

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2100" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      );</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2101

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2101" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      ::libmaus2::util::TempFileRemovalContainer::addTempFile(encfilenames.back());</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2102

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

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<pre style="margin: 0;">-<span id="LC2102" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      ilow = ihigh;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2103" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2103

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2103" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2104" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2104

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2104" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      if ( verbose >= 5 && logstr )</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2105" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2105

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2105" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      {</span></span>

</pre>

</td>

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<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2106" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2106

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2106" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                              (*logstr) << "[V] end of single loop" << std::endl;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num old" data-linenumber="2107" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2107

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2107" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                                      }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2108" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2108

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2108" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              }</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2109" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2109

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2109" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2110" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2110

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2110" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              #endif</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="2111" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2111

</td>

<td class="new_line diff-line-num old" data-linenumber="2070" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC2111" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2112" 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">

2112

</td>

<td class="new_line diff-line-num" data-linenumber="2070" 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">

2070

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2070" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">encfilenames</span><span class="p">(</span><span class="n" style="color: #333;">wpacks</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">());</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2113" 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">

2113

</td>

<td class="new_line diff-line-num" data-linenumber="2071" 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">

2071

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC2071" class="line" lang="cpp">                                         <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">wpacks</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="2114" 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">

2114

</td>

<td class="new_line diff-line-num" data-linenumber="2072" 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">

2072

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<pre style="margin: 0;"> <span id="LC2072" class="line" lang="cpp">                                         <span class="p">{</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2317" 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="2275" 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">@@ -2317,7 +2275,7 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC2275" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">gapfilenames</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="n" style="color: #333;">newgapname</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2318" 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="new_line diff-line-num" data-linenumber="2276" 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">

2276

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<pre style="margin: 0;"> <span id="LC2276" class="line" lang="cpp">                                                 <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2319" 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="new_line diff-line-num" data-linenumber="2277" 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">

2277

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<pre style="margin: 0;"> <span id="LC2277" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2320" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="new_line diff-line-num old" data-linenumber="2278" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2320" class="line" lang="cpp">                                                 <span class="c1" style="color: #998; font-style: italic;">// bwt name</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="2321" 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="new_line diff-line-num new" data-linenumber="2278" 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="LC2278" class="line" lang="cpp">                                                 <span class="c1" style="color: #998; font-style: italic;">// <span class="idiff left">create new names for the input </span>bwt name<span class="idiff right">s</span></span></span>

</pre>

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<td class="new_line diff-line-num" data-linenumber="2279" 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="LC2279" class="line" lang="cpp">                                                 <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">newbwtnames</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2322" 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="new_line diff-line-num" data-linenumber="2280" 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="LC2280" class="line" lang="cpp">                                                 <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">mergereq</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">[</span><span class="n" style="color: #333;">bb</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">sortresult</span><span class="p">.</span><span class="n" style="color: #333;">getFiles</span><span class="p">().</span><span class="n" style="color: #333;">getBWT</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2323" 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="new_line diff-line-num" data-linenumber="2281" 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">

2281

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<pre style="margin: 0;"> <span id="LC2281" class="line" lang="cpp">                                                 <span class="p">{</span></span>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2377" 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="2335" 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">@@ -2377,7 +2335,6 @@ namespace libmaus2</td>

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2335

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<pre style="margin: 0;"> <span id="LC2335" class="line" lang="cpp">                                                 <span class="n" style="color: #333;">GapArrayComputationResult</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">GACR</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">computeGapArray</span><span class="p">(</span></span>

</pre>

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2378

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<td class="new_line diff-line-num" data-linenumber="2336" 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">

2336

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<pre style="margin: 0;"> <span id="LC2336" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">gtmpgen</span><span class="p">,</span><span class="n" style="color: #333;">fn</span><span class="p">,</span><span class="n" style="color: #333;">fs</span><span class="p">,</span><span class="o" style="font-weight: 600;">*</span><span class="p">(</span><span class="n" style="color: #333;">mergereq</span><span class="p">.</span><span class="n" style="color: #333;">gaprequests</span><span class="p">[</span><span class="n" style="color: #333;">bx</span><span class="p">]),</span></span>

</pre>

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2379

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<td class="new_line diff-line-num" data-linenumber="2337" 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">

2337

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<pre style="margin: 0;"> <span id="LC2337" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">mergedgtname</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2380" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2380

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<td class="new_line diff-line-num old" data-linenumber="2338" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2380" class="line" lang="cpp">                                                         <span class="c1" style="color: #998; font-style: italic;">//newmergedgtname,</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2381" 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">

2381

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<td class="new_line diff-line-num" data-linenumber="2338" 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="LC2338" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">accD</span><span class="p">.</span><span class="n" style="color: #333;">get</span><span class="p">(),</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2382" 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">

2382

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<td class="new_line diff-line-num" data-linenumber="2339" 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="LC2339" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">numthreads</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2383" 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="new_line diff-line-num" data-linenumber="2340" 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="LC2340" class="line" lang="cpp">                                                         <span class="n" style="color: #333;">logstr</span><span class="p">,</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="2574" 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="2531" 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">@@ -2574,7 +2531,7 @@ namespace libmaus2</td>

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2574

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<td class="new_line diff-line-num" data-linenumber="2531" 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">

2531

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<pre style="margin: 0;"> <span id="LC2531" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// gt bit array,</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2575" 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">

2575

</td>

<td class="new_line diff-line-num" data-linenumber="2532" 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">

2532

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<pre style="margin: 0;"> <span id="LC2532" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// huffman shaped wavelet tree and</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2576" 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">

2576

</td>

<td class="new_line diff-line-num" data-linenumber="2533" 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">

2533

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<pre style="margin: 0;"> <span id="LC2533" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// histogram</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="2577" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

2577

</td>

<td class="new_line diff-line-num old" data-linenumber="2534" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC2577" class="line" lang="cpp">                                 <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setTempPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p"><span class="idiff left">,</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* no preset bwt file names */</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff">/* no preset gt file names */</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* no preset isa */</span></span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="2578" 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="new_line diff-line-num new" data-linenumber="2534" 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">

2534

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<pre style="margin: 0;">+<span id="LC2534" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left">// </span>result.setTempPrefix<span class="idiff right">Single</span>AndRegisterAsTemp(gtmpgen);</span></span>

</pre>

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2578

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<td class="new_line diff-line-num" data-linenumber="2535" 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">

2535

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<pre style="margin: 0;"> <span id="LC2535" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2579" 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">

2579

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<td class="new_line diff-line-num" data-linenumber="2536" 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">

2536

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<pre style="margin: 0;"> <span id="LC2536" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// if we merge only two blocks together, then we do not need to write the gap array to disk</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="2580" 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">

2580

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<td class="new_line diff-line-num" data-linenumber="2537" 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">

2537

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<pre style="margin: 0;"> <span id="LC2537" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">mergereq</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">2</span> <span class="p">)</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="3161" 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="3118" 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">@@ -3161,13 +3118,10 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="3161" 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">

3161

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<td class="new_line diff-line-num" data-linenumber="3118" 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">

3118

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<pre style="margin: 0;"> <span id="LC3118" class="line" lang="cpp">                                 <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setCBlockSize</span> <span class="p">(</span> <span class="mi" style="color: #099;">0</span> <span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="3162" 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">

3162

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<td class="new_line diff-line-num" data-linenumber="3119" 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">

3119

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<pre style="margin: 0;"> <span id="LC3119" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">mergereq</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="3163" 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">

3163

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<td class="new_line diff-line-num" data-linenumber="3120" 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">

3120

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<pre style="margin: 0;"> <span id="LC3120" class="line" lang="cpp">                                         <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setCBlockSize</span><span class="p">(</span> <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">getCBlockSize</span><span class="p">()</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">mergereq</span><span class="p">.</span><span class="n" style="color: #333;">children</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">sortresult</span><span class="p">.</span><span class="n" style="color: #333;">getCBlockSize</span><span class="p">()</span> <span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="3164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

3164

</td>

<td class="new_line diff-line-num old" data-linenumber="3121" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC3164" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// set up</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="3165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

3165

</td>

<td class="new_line diff-line-num old" data-linenumber="3121" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC3165" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// filenames of output bwt,</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="3166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

3166

</td>

<td class="new_line diff-line-num old" data-linenumber="3121" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC3166" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// sampled inverse suffix array filename,</span></span>

</pre>

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<td class="old_line diff-line-num old" data-linenumber="3167" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

3167

</td>

<td class="new_line diff-line-num old" data-linenumber="3121" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

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<pre style="margin: 0;">-<span id="LC3167" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// gt bit array,</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="3168" 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="new_line diff-line-num new" data-linenumber="3121" 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">

3121

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<pre style="margin: 0;">+<span id="LC3121" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// set up file names for</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="3168" 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">

3168

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<td class="new_line diff-line-num" data-linenumber="3122" 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">

3122

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<pre style="margin: 0;"> <span id="LC3122" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// huffman shaped wavelet tree and</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="3169" 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">

3169

</td>

<td class="new_line diff-line-num" data-linenumber="3123" 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">

3123

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3123" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// histogram</span></span>

</pre>

</td>

</tr>

<tr class="line_holder old" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num old" data-linenumber="3170" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

3170

</td>

<td class="new_line diff-line-num old" data-linenumber="3124" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">

</td>

<td class="line_content old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">

<pre style="margin: 0;">-<span id="LC3170" class="line" lang="cpp">                                 <span class="n" style="color: #333;">result</span><span class="p">.</span><span class="n" style="color: #333;">setTempPrefixAndRegisterAsTemp</span><span class="p">(</span><span class="n" style="color: #333;">gtmpgen</span><span class="p"><span class="idiff left">,</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">,</span></span><span class="mi" style="color: #099;"><span class="idiff">0</span></span><span class="p"><span class="idiff">,</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="p">);</span></span>

</pre>

</td>

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<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="3171" 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="new_line diff-line-num new" data-linenumber="3124" 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">

3124

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3124" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left">// </span>result.setTempPrefix<span class="idiff right">Single</span>AndRegisterAsTemp(gtmpgen);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="3171" 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">

3171

</td>

<td class="new_line diff-line-num" data-linenumber="3125" 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">

3125

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3125" class="line" lang="cpp"></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="3172" 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">

3172

</td>

<td class="new_line diff-line-num" data-linenumber="3126" 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">

3126

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3126" class="line" lang="cpp">                                 <span class="p">{</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="3173" 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">

3173

</td>

<td class="new_line diff-line-num" data-linenumber="3127" 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">

3127

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3127" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">gapfilenames</span><span class="p">;</span></span>

</pre>

</td>

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<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="3986" 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="3940" 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">@@ -3986,6 +3940,8 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="3986" 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">

3986

</td>

<td class="new_line diff-line-num" data-linenumber="3940" 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">

3940

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3940" class="line" lang="cpp">                                         <span class="n" style="color: #333;">constructMergeTree</span><span class="p">(</span><span class="n" style="color: #333;">logstr</span><span class="p">,</span><span class="n" style="color: #333;">options</span><span class="p">,</span><span class="n" style="color: #333;">state</span><span class="p">,</span><span class="n" style="color: #333;">fn</span><span class="p">,</span><span class="n" style="color: #333;">rlencoderblocksize</span><span class="p">)</span></span>

</pre>

</td>

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<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="3987" 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">

3987

</td>

<td class="new_line diff-line-num" data-linenumber="3941" 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">

3941

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3941" class="line" lang="cpp">                                 <span class="p">);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="3988" 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">

3988

</td>

<td class="new_line diff-line-num" data-linenumber="3942" 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">

3942

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3942" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="3989" 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="new_line diff-line-num new" data-linenumber="3943" 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">

3943

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3943" class="line" lang="cpp">                                 <span class="n" style="color: #333;">state</span><span class="p">.</span><span class="n" style="color: #333;">setMergeTree</span><span class="p">(</span><span class="n" style="color: #333;">mergetree</span><span class="p">);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="3989" 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="new_line diff-line-num new" data-linenumber="3944" 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">

3944

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3944" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

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<td class="old_line diff-line-num" data-linenumber="3989" 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">

3989

</td>

<td class="new_line diff-line-num" data-linenumber="3945" 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">

3945

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3945" class="line" lang="cpp">                                 <span class="c1" style="color: #998; font-style: italic;">// inner node queue</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="3990" 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">

3990

</td>

<td class="new_line diff-line-num" data-linenumber="3946" 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">

3946

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3946" class="line" lang="cpp">                                 <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">deque</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">itodo</span><span class="p">;</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="3991" 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">

3991

</td>

<td class="new_line diff-line-num" data-linenumber="3947" 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">

3947

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3947" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="4033" 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="3989" 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">@@ -4033,6 +3989,8 @@ namespace libmaus2</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="4033" 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">

4033

</td>

<td class="new_line diff-line-num" data-linenumber="3989" 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">

3989

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3989" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="4034" 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">

4034

</td>

<td class="new_line diff-line-num" data-linenumber="3990" 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">

3990

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3990" class="line" lang="cpp">                                 <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">mergetree</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">checkSerialisation</span><span class="p">()</span> <span class="p">);</span></span>

</pre>

</td>

</tr>

<tr class="line_holder" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num" data-linenumber="4035" 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">

4035

</td>

<td class="new_line diff-line-num" data-linenumber="3991" 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">

3991

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3991" class="line" lang="cpp"></span>

</pre>

</td>

</tr>

<tr class="line_holder new" id="" style="line-height: 1.6;">

<td class="old_line diff-line-num new" data-linenumber="4036" 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="new_line diff-line-num new" data-linenumber="3992" 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">

3992

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3992" class="line" lang="cpp">                                 <span class="n" style="color: #333;">state</span><span class="p">.</span><span class="n" style="color: #333;">fillGTExpected</span><span class="p">();</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4036" 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="new_line diff-line-num new" data-linenumber="3993" 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">

3993

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC3993" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4036" 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">

4036

</td>

<td class="new_line diff-line-num" data-linenumber="3994" 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">

3994

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3994" class="line" lang="cpp">                                 <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">verbose</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">5</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">logstr</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4037" 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">

4037

</td>

<td class="new_line diff-line-num" data-linenumber="3995" 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">

3995

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<pre style="margin: 0;"> <span id="LC3995" class="line" lang="cpp">                                         <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">logstr</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[V] checked serialisation after filling gap request objects"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4038" 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">

4038

</td>

<td class="new_line diff-line-num" data-linenumber="3996" 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">

3996

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC3996" class="line" lang="cpp"></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="4072" 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="4030" 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">@@ -4072,6 +4030,10 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="4072" 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">

4072

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<td class="new_line diff-line-num" data-linenumber="4030" 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">

4030

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<pre style="margin: 0;"> <span id="LC4030" class="line" lang="cpp">                                                 <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">logstr</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4073" 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">

4073

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<td class="new_line diff-line-num" data-linenumber="4031" 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">

4031

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<pre style="margin: 0;"> <span id="LC4031" class="line" lang="cpp">                                         <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4074" 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">

4074

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<td class="new_line diff-line-num" data-linenumber="4032" 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">

4032

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4032" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="4075" 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="new_line diff-line-num new" data-linenumber="4033" 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">

4033

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<pre style="margin: 0;">+<span id="LC4033" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">string</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">l_merge_tmp_dir</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">state</span><span class="p">.</span><span class="n" style="color: #333;">getDirectoryForMerge</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4075" 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="new_line diff-line-num new" data-linenumber="4034" 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">

4034

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4034" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="4075" 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="new_line diff-line-num new" data-linenumber="4035" 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">

4035

</td>

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<pre style="margin: 0;">+<span id="LC4035" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// p->sortresult.setTempPrefixSingle(l_merge_tmp_dir);</span></span>

</pre>

</td>

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<td class="old_line diff-line-num new" data-linenumber="4075" 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="new_line diff-line-num new" data-linenumber="4036" 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">

4036

</td>

<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC4036" class="line" lang="cpp"></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="4075" 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">

4075

</td>

<td class="new_line diff-line-num" data-linenumber="4037" 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">

4037

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4037" class="line" lang="cpp">                                         <span class="c" style="color: #998; font-style: italic;">#if 0</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="4076" 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">

4076

</td>

<td class="new_line diff-line-num" data-linenumber="4038" 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">

4038

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4038" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              std::ostringstream tmpstr;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="4077" 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">

4077

</td>

<td class="new_line diff-line-num" data-linenumber="4039" 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">

4039

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4039" class="line" lang="cpp"><span class="c" style="color: #998; font-style: italic;">                                              tmpstr << options.tmpfilenamebase << "_" << std::setfill('0') << std::setw(6) << (mtmpid++);</span></span>

</pre>

</td>

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<tr class="line_holder match" id="" style="line-height: 1.6;">

<td class="diff-line-num unfold js-unfold old_line" data-linenumber="4080" 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="4042" 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">@@ -4080,6 +4042,8 @@ namespace libmaus2</td>

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<td class="old_line diff-line-num" data-linenumber="4080" 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">

4080

</td>

<td class="new_line diff-line-num" data-linenumber="4042" 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">

4042

</td>

<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4042" class="line" lang="cpp">                                         <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostringstream</span> <span class="n" style="color: #333;">sparsetmpstr</span><span class="p">;</span></span>

</pre>

</td>

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<td class="old_line diff-line-num" data-linenumber="4081" 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">

4081

</td>

<td class="new_line diff-line-num" data-linenumber="4043" 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">

4043

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<pre style="margin: 0;"> <span id="LC4043" class="line" lang="cpp">                                         <span class="n" style="color: #333;">sparsetmpstr</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">sparsetmpfilenamebase</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"_"</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">setfill</span><span class="p">(</span><span class="sc" style="color: #d14;">'0'</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">setw</span><span class="p">(</span><span class="mi" style="color: #099;">6</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="p">(</span><span class="n" style="color: #333;">mtmpid</span><span class="o" style="font-weight: 600;">++</span><span class="p">);</span></span>

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4082

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<td class="new_line diff-line-num" data-linenumber="4044" 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">

4044

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4044" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4083" 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="new_line diff-line-num new" data-linenumber="4045" 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="LC4045" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// std::size_t const gt_expected = state.getMergeGTExpected(p);</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="4046" 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="LC4046" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4083" 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">

4083

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<td class="new_line diff-line-num" data-linenumber="4047" 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">

4047

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<pre style="margin: 0;"> <span id="LC4047" class="line" lang="cpp">                                         <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">bwtb3m</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4084" 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">

4084

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<td class="new_line diff-line-num" data-linenumber="4048" 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">

4048

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<pre style="margin: 0;"> <span id="LC4048" class="line" lang="cpp">                                         <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4085" 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">

4085

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<td class="new_line diff-line-num" data-linenumber="4049" 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">

4049

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<pre style="margin: 0;"> <span id="LC4049" class="line" lang="cpp">                                                 <span class="n" style="color: #333;">mergeBlocks</span><span class="p">(</span></span>

</pre>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="4140" 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="4104" 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">@@ -4140,6 +4104,10 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC4104" class="line" lang="cpp">                                         <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">logstr</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4141" 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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4105

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<pre style="margin: 0;"> <span id="LC4105" class="line" lang="cpp">                                                 <span class="p">(</span><span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">logstr</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"[M"</span><span class="o" style="font-weight: 600;"><<</span> <span class="p">(</span><span class="n" style="color: #333;">mcnt</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">"] "</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">util</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">MemUsage</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="s" style="color: #d14;">" "</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">autoarray</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">AutoArrayMemUsage</span><span class="p">()</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">endl</span><span class="p">;</span></span>

</pre>

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4106

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<pre style="margin: 0;"> <span id="LC4106" class="line" lang="cpp">                                         <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4143" 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="new_line diff-line-num new" data-linenumber="4107" 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="LC4107" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4143" 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="new_line diff-line-num new" data-linenumber="4108" 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="LC4108" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// std::size_t const gt_produced = p->sortresult.getFiles().getGT().size();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="4109" 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">

4109

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<pre style="margin: 0;">+<span id="LC4109" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="4143" 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="new_line diff-line-num new" data-linenumber="4110" 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">

4110

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<pre style="margin: 0;">+<span id="LC4110" class="line" lang="cpp">                                         <span class="c1" style="color: #998; font-style: italic;">// std::cerr << "gt_expected=" << gt_expected << " gt_produced=" << gt_produced << std::endl;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4143" 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">

4143

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<td class="new_line diff-line-num" data-linenumber="4111" 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">

4111

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<pre style="margin: 0;"> <span id="LC4111" class="line" lang="cpp">                                 <span class="p">}</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4144" 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">

4144

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<td class="new_line diff-line-num" data-linenumber="4112" 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">

4112

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<td class="line_content" style="padding-left: 0.5em; padding-right: 0.5em;">

<pre style="margin: 0;"> <span id="LC4112" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="4145" 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">

4145

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<td class="new_line diff-line-num" data-linenumber="4113" 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">

4113

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<pre style="margin: 0;"> <span id="LC4113" class="line" lang="cpp">                                 <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">memperthread</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">mem</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">numthreads</span><span class="o" style="font-weight: 600;">-</span><span class="mi" style="color: #099;">1</span><span class="p">)</span><span class="o" style="font-weight: 600;">/</span><span class="n" style="color: #333;">options</span><span class="p">.</span><span class="n" style="color: #333;">numthreads</span><span class="p">;</span></span>

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<li id="544bbc78e83add663505786a84e9c3021c826425">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#544bbc78e83add663505786a84e9c3021c826425"><strong>src/libmaus2/suffixsort/bwtb3m/MergeStrategyBaseBlock.hpp</strong></a>

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<td class="diff-line-num unfold js-unfold 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">...</td>

<td class="diff-line-num unfold js-unfold 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">...</td>

<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -33,6 +33,11 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC33" class="line" lang="cpp">                           <span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeBlockSortRequest</span> <span class="n" style="color: #333;">sortreq</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC34" class="line" lang="cpp">                           <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">querypos</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC35" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC36" class="line" lang="cpp">                           <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span></span>

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<pre style="margin: 0;">+<span id="LC37" class="line" lang="cpp">                           <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC38" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">sortresult</span><span class="p">.</span><span class="n" style="color: #333;">getFiles</span><span class="p">().</span><span class="n" style="color: #333;">getGT</span><span class="p">().</span><span class="n" style="color: #333;">size</span><span class="p">();</span></span>

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<pre style="margin: 0;">+<span id="LC39" class="line" lang="cpp">                           <span class="p">}</span></span>

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<pre style="margin: 0;">+<span id="LC40" class="line" lang="cpp"></span>

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<pre style="margin: 0;"> <span id="LC41" class="line" lang="cpp">                           <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="n" style="color: #333;">equal</span><span class="p">(</span><span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">O</span><span class="p">)</span> <span class="k" style="font-weight: 600;">const</span></span>

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<pre style="margin: 0;"> <span id="LC42" class="line" lang="cpp">                           <span class="p">{</span></span>

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<pre style="margin: 0;"> <span id="LC43" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyBaseBlock</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">O</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span> <span class="p">)</span></span>

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<li id="abc051354cc3c15fdf03d1a3a92187108d6dc32c">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#abc051354cc3c15fdf03d1a3a92187108d6dc32c"><strong>src/libmaus2/suffixsort/bwtb3m/MergeStrategyBlock.hpp</strong></a>

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<pre style="margin: 0;"> <span id="LC238" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">virtual</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">fillNodeMap</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">map</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">,</span> <span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">M</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC239" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">virtual</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">setParentId</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int64_t</span> <span class="k" style="font-weight: 600;">const</span> <span class="n" style="color: #333;">parentid</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC240" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">virtual</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">collectBaseBlockIds</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V</span><span class="p">)</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<pre style="margin: 0;">+<span id="LC241" class="line" lang="cpp">                          <span class="k" style="font-weight: 600;">virtual</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC242" class="line" lang="cpp">                  <span class="p">};</span></span>

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<pre style="margin: 0;"> <span id="LC243" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC244" class="line" lang="cpp">                  <span class="kr" style="font-weight: 600;">inline</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">&</span> <span class="k" style="font-weight: 600;">operator</span><span class="o" style="font-weight: 600;"><<</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">out</span><span class="p">,</span> <span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">MSB</span><span class="p">)</span></span>

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</li>

<li id="d74d3fb91360d8a835161a332cb5e683eef62bbb">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#d74d3fb91360d8a835161a332cb5e683eef62bbb"><strong>src/libmaus2/suffixsort/bwtb3m/MergeStrategyMergeBlock.hpp</strong></a>

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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -41,6 +41,15 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC41" class="line" lang="cpp">                           <span class="cm" style="color: #998; font-style: italic;">/* number of children unfinished */</span></span>

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<td class="old_line diff-line-num" data-linenumber="42" 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="LC42" class="line" lang="cpp">                           <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">unfinishedChildren</span><span class="p">;</span></span>

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<pre style="margin: 0;"> <span id="LC43" class="line" lang="cpp"></span>

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<pre style="margin: 0;">+<span id="LC44" class="line" lang="cpp">                           <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span> <span class="p">{</span></span>

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<pre style="margin: 0;">+<span id="LC45" class="line" lang="cpp">                                   <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>

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<td class="new_line diff-line-num new" data-linenumber="46" 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="LC46" class="line" lang="cpp">                                   <span class="n" style="color: #333;">assert</span> <span class="p">(</span> <span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">()</span> <span class="p">);</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="44" 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="new_line diff-line-num new" data-linenumber="47" 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="LC47" class="line" lang="cpp">                                   <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">children</span><span class="p">.</span><span class="n" style="color: #333;">front</span><span class="p">()</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="48" 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="LC48" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gaprequests</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="49" 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="LC49" class="line" lang="cpp">                                           <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">();</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="50" 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="LC50" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">n</span><span class="p">;</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="51" 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="LC51" class="line" lang="cpp">                           <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="52" 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="LC52" class="line" lang="cpp"></span>

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<td class="old_line diff-line-num" data-linenumber="44" 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">

44

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<td class="new_line diff-line-num" data-linenumber="53" 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="LC53" class="line" lang="cpp">                           <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">fillNodeMap</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">map</span><span class="o" style="font-weight: 600;"><</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">,</span> <span class="n" style="color: #333;">MergeStrategyBlock</span> <span class="o" style="font-weight: 600;">*></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">M</span><span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="45" 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="LC54" class="line" lang="cpp">                           <span class="p">{</span></span>

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<td class="old_line diff-line-num" data-linenumber="46" 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="new_line diff-line-num" data-linenumber="55" 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="LC55" class="line" lang="cpp">                                   <span class="n" style="color: #333;">M</span><span class="p">[</span><span class="n" style="color: #333;">nodeid</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="k" style="font-weight: 600;">this</span><span class="p">;</span></span>

</pre>

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</li>

<li id="f5317e989ea71106d5c87c33e735f9a00a3f4d6c">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#f5317e989ea71106d5c87c33e735f9a00a3f4d6c"><strong>src/libmaus2/suffixsort/bwtb3m/MergeStrategyMergeGapRequest.hpp</strong></a>

<hr>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="38" 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="38" 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">@@ -38,6 +38,11 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC38" class="line" lang="cpp">                           <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">into</span><span class="p">;</span></span>

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<td class="old_line diff-line-num" 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">

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<pre style="margin: 0;"> <span id="LC39" class="line" lang="cpp">                           <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">libmaus2</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">suffixsort</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">BwtMergeZBlock</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">zblocks</span><span class="p">;</span></span>

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<td class="old_line diff-line-num" 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">

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<pre style="margin: 0;"> <span id="LC40" class="line" lang="cpp"></span>

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<td class="old_line diff-line-num new" data-linenumber="41" 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="new_line diff-line-num new" data-linenumber="41" 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="LC41" class="line" lang="cpp">                           <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">getNumGtTempFilesRequired</span><span class="p">()</span> <span class="k" style="font-weight: 600;">const</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="41" 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="new_line diff-line-num new" data-linenumber="42" 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="LC42" class="line" lang="cpp">                           <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="41" 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="new_line diff-line-num new" data-linenumber="43" 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="LC43" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">zblocks</span><span class="p">.</span><span class="n" style="color: #333;">size</span><span class="p">();</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="41" 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="new_line diff-line-num new" data-linenumber="44" 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="LC44" class="line" lang="cpp">                           <span class="p">}</span></span>

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<td class="old_line diff-line-num new" data-linenumber="41" 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="new_line diff-line-num new" data-linenumber="45" 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="LC45" class="line" lang="cpp"></span>

</pre>

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<pre style="margin: 0;"> <span id="LC46" class="line" lang="cpp">                           <span class="kt" style="color: #458; font-weight: 600;">bool</span> <span class="k" style="font-weight: 600;">operator</span><span class="o" style="font-weight: 600;">==</span><span class="p">(</span><span class="n" style="color: #333;">MergeStrategyMergeGapRequest</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">O</span><span class="p">)</span> <span class="k" style="font-weight: 600;">const</span></span>

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<pre style="margin: 0;"> <span id="LC47" class="line" lang="cpp">                           <span class="p">{</span></span>

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<pre style="margin: 0;"> <span id="LC48" class="line" lang="cpp">                                   <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="n" style="color: #333;">into</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">O</span><span class="p">.</span><span class="n" style="color: #333;">into</span> <span class="p">)</span></span>

</pre>

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<br>

</li>

<li id="1b92add32e64064816c27ce5d24c732587fa9d20">

<a href="https://salsa.debian.org/med-team/libmaus2/-/compare/c184ece2c1ad4b30a37cf14948c056f30d14d658...665d425f57ae2ceacb27ecaa5766d97e701f9858#1b92add32e64064816c27ce5d24c732587fa9d20"><strong>src/libmaus2/suffixsort/bwtb3m/MergeTree.hpp</strong></a>

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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="147" 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="147" 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">@@ -147,6 +147,24 @@ namespace libmaus2</td>

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<pre style="margin: 0;"> <span id="LC147" class="line" lang="cpp"></span>

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148

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<pre style="margin: 0;"> <span id="LC148" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">return</span> <span class="nb" style="color: #0086b3;">true</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num" data-linenumber="149" 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">

149

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149

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<pre style="margin: 0;"> <span id="LC149" class="line" lang="cpp">                          <span class="p">}</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="150" 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">

150

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<td class="line_content new" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">

<pre style="margin: 0;">+<span id="LC150" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="151" 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">

151

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<pre style="margin: 0;">+<span id="LC151" class="line" lang="cpp">                          <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">getMergeBlocks</span><span class="p">(</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="152" 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">

152

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<pre style="margin: 0;">+<span id="LC152" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V_internal</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="153" 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">

153

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<pre style="margin: 0;">+<span id="LC153" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V_internal_small</span><span class="p">,</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="154" 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">

154

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<pre style="margin: 0;">+<span id="LC154" class="line" lang="cpp">                                  <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">vector</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*</span> <span class="o" style="font-weight: 600;">></span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">V_external</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="155" 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">

155

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<pre style="margin: 0;">+<span id="LC155" class="line" lang="cpp">                          <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="156" 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">

156

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<pre style="margin: 0;">+<span id="LC156" class="line" lang="cpp">                          <span class="p">{</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" data-linenumber="157" 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">

157

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<pre style="margin: 0;">+<span id="LC157" class="line" lang="cpp">                                  <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">auto</span> <span class="n" style="color: #333;">P</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">node_map</span> <span class="p">)</span> <span class="p">{</span></span>

</pre>

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<td class="new_line diff-line-num new" data-linenumber="158" 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">

158

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<pre style="margin: 0;">+<span id="LC158" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">auto</span> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">P</span><span class="p">.</span><span class="n" style="color: #333;">second</span><span class="p">;</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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">

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<pre style="margin: 0;">+<span id="LC159" class="line" lang="cpp"></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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="cpp">                                          <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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">

161

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<pre style="margin: 0;">+<span id="LC161" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">V_internal</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeInternalBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">));</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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">

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<pre style="margin: 0;">+<span id="LC162" class="line" lang="cpp">                                          <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="p">)</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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="cpp">                                                  <span class="n" style="color: #333;">V_internal_small</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeInternalSmallBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">));</span></span>

</pre>

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<td class="old_line diff-line-num new" data-linenumber="150" 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="new_line diff-line-num new" 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="cpp">                                          <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span> <span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">)</span> <span class="p">)</span></span>

</pre>

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<td class="new_line diff-line-num new" 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">

165

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<pre style="margin: 0;">+<span id="LC165" class="line" lang="cpp">                                                  <span class="n" style="color: #333;">V_external</span><span class="p">.</span><span class="n" style="color: #333;">push_back</span><span class="p">(</span><span class="k" style="font-weight: 600;">dynamic_cast</span><span class="o" style="font-weight: 600;"><</span><span class="n" style="color: #333;">MergeStrategyMergeExternalBlock</span> <span class="o" style="font-weight: 600;">*></span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">));</span></span>

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<td class="new_line diff-line-num new" 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="cpp">                                  <span class="p">}</span></span>

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<td class="new_line diff-line-num new" 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">

167

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<pre style="margin: 0;">+<span id="LC167" class="line" lang="cpp">                          <span class="p">}</span></span>

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150

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168

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<pre style="margin: 0;"> <span id="LC168" class="line" lang="cpp">                  <span class="p">};</span></span>

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<td class="old_line diff-line-num" data-linenumber="151" 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">

151

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169

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<pre style="margin: 0;"> <span id="LC169" class="line" lang="cpp"></span>

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152

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170

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<pre style="margin: 0;"> <span id="LC170" class="line" lang="cpp">                  <span class="kr" style="font-weight: 600;">inline</span> <span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">&</span> <span class="k" style="font-weight: 600;">operator</span><span class="o" style="font-weight: 600;"><<</span><span class="p">(</span><span class="n" style="color: #333;">std</span><span class="o" style="font-weight: 600;">::</span><span class="n" style="color: #333;">ostream</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">out</span><span class="p">,</span> <span class="n" style="color: #333;">MergeTree</span> <span class="k" style="font-weight: 600;">const</span> <span class="o" style="font-weight: 600;">&</span> <span class="n" style="color: #333;">MT</span><span class="p">)</span></span>

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