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<h3>
Dylan Aïssi pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/plink1-9">Debian Med / plink1.9</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7">868d9efd</a></strong>
<div>
<span>by Dylan Aïssi</span>
<i>at 2018-11-01T06:30:14Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.90~b6.6-181012</pre>
</li>
</ul>
<h4>9 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
</a>
</li>
<li class="file-stats">
<a href="#28425200de5713f3e51a18ea3eff2b2c395faff4">
Makefile.std
</a>
</li>
<li class="file-stats">
<a href="#51f8eb620082fc9790d42dd3edff7bdbfdef0bfb">
plink.c
</a>
</li>
<li class="file-stats">
<a href="#ddc87b66f3aa93580d31aff93025241d811cc99e">
plink_common.h
</a>
</li>
<li class="file-stats">
<a href="#2247078d3acb03afff65f7427a390c544d3a2200">
plink_family.c
</a>
</li>
<li class="file-stats">
<a href="#c5addbbbc0190d5c540e05a57e47046a106a9e48">
plink_matrix.c
</a>
</li>
<li class="file-stats">
<a href="#0700cfdbab4549531e0e421133c5af43b961516e">
plink_matrix.h
</a>
</li>
<li class="file-stats">
<a href="#ba1c9b5bb7a2082fa0175bb7bc18d4f159fac3b7">
plink_rserve.c
</a>
</li>
<li class="file-stats">
<a href="#c6cd8bb18220d4c8b1380bbbdf5887bf9ce3f625">
toy.ped
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c"><strong>Makefile</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="31" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -31,7 +31,7 @@ CC ?= gcc</td>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC31" class="line" lang="make"><span class="nv" style="color: teal;">CXX</span> <span class="o" style="font-weight: 600;">?=</span> g++</span>
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<td class="diff-line-num old_line" data-linenumber="32" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC32" class="line" lang="make"><span class="nv" style="color: teal;">CFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-Wall</span> <span class="nt" style="color: navy;">-O2</span></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC33" class="line" lang="make"><span class="nv" style="color: teal;">CXXFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-Wall</span> <span class="nt" style="color: navy;">-O2</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="make"><span class="nv" style="color: teal;">BLASFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-L</span>/usr/lib64/atlas <span class="nt" style="color: navy;">-llapack</span> <span class="nt" style="color: navy;">-lcblas</span> <span class="nt" style="color: navy;">-latlas</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="make"><span class="nv" style="color: teal;">BLASFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-L</span>/usr/lib64/atlas <span class="nt" style="color: navy;">-llapack</span> <span class="nt" style="color: navy;">-l<span class="idiff left">blas</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff right">-l</span>cblas</span> <span class="nt" style="color: navy;">-latlas</span></span>
</pre>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="make"><span class="nv" style="color: teal;">LDFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-lm</span> <span class="nt" style="color: navy;">-lpthread</span> <span class="nt" style="color: navy;">-ldl</span></span>
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC36" class="line" lang="make"><span class="nv" style="color: teal;">ZLIB</span> <span class="o" style="font-weight: 600;">?=</span> ../zlib-1.2.11/libz.so.1.2.11</span>
</pre>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="make"></span>
</pre>
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<li id="28425200de5713f3e51a18ea3eff2b2c395faff4">
<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#28425200de5713f3e51a18ea3eff2b2c395faff4"><strong>Makefile.std</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">@@ -31,7 +31,7 @@ CC ?= gcc</td>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="make"><span class="nv" style="color: teal;">CXX</span> <span class="o" style="font-weight: 600;">?=</span> g++</span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="make"><span class="nv" style="color: teal;">CFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-Wall</span> <span class="nt" style="color: navy;">-O2</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="make"><span class="nv" style="color: teal;">CXXFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-Wall</span> <span class="nt" style="color: navy;">-O2</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="make"><span class="nv" style="color: teal;">BLASFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-L</span>/usr/lib64/atlas <span class="nt" style="color: navy;">-llapack</span> <span class="nt" style="color: navy;">-lcblas</span> <span class="nt" style="color: navy;">-latlas</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="make"><span class="nv" style="color: teal;">BLASFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-L</span>/usr/lib64/atlas <span class="nt" style="color: navy;">-llapack</span> <span class="nt" style="color: navy;">-l<span class="idiff left">blas</span></span><span class="idiff"> </span><span class="nt" style="color: navy;"><span class="idiff right">-l</span>cblas</span> <span class="nt" style="color: navy;">-latlas</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="make"><span class="nv" style="color: teal;">LDFLAGS</span> <span class="o" style="font-weight: 600;">?=</span> <span class="nt" style="color: navy;">-lm</span> <span class="nt" style="color: navy;">-lpthread</span> <span class="nt" style="color: navy;">-ldl</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="make"><span class="nv" style="color: teal;">ZLIB</span> <span class="o" style="font-weight: 600;">?=</span> ../zlib-1.2.11/libz.so.1.2.11</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="make"></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#51f8eb620082fc9790d42dd3edff7bdbfdef0bfb"><strong>plink.c</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">@@ -93,7 +93,7 @@</td>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">ver_str</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span></span>
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef STABLE_BUILD</span></span>
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90b6.<span class="idiff left right">5</span>"</span></span>
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90b6.<span class="idiff left right">6</span>"</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90p"</span></span>
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</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">@@ -105,7 +105,7 @@ static const char ver_str[] =</td>
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="c"> <span class="s" style="color: #d14;">" 32-bit"</span></span>
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<pre style="margin: 0;"> <span id="LC107" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="c"> <span class="s" style="color: #d14;">" (1<span class="idiff left right">3 Sep</span> 2018)"</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="c"> <span class="s" style="color: #d14;">" (1<span class="idiff left right">2 Oct</span> 2018)"</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC109" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">ver_str2</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// include leading space if day < 10, so character length stays the same</span></span>
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="c"> <span class="s" style="color: #d14;">""</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#ddc87b66f3aa93580d31aff93025241d811cc99e"><strong>plink_common.h</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">@@ -27,6 +27,9 @@</td>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></span></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <math.h></span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdint.h></span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef __STDC_FORMAT_MACROS</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define __STDC_FORMAT_MACROS 1</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <inttypes.h></span></span>
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34
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<pre style="margin: 0;"> <span id="LC34" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// avoid compiler warning</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">@@ -59,7 +62,13 @@</td>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// needed for MEMORYSTATUSEX</span></span>
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<pre style="margin: 0;"> <span id="LC63" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#ifndef _WIN64</span></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define WINVER 0x0500</span></span>
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<pre style="margin: 0;">+<span id="LC65" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC66" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define __LP64__</span></span>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#ifndef WIN32_LEAN_AND_MEAN</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define WIN32_LEAN_AND_MEAN</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <windows.h></span></span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else // Unix</span></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <sys/stat.h></span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</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">@@ -77,12 +86,13 @@</td>
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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87
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef _WIN32</span></span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define PRId64 "I64d"</span></span>
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<pre style="margin: 0;">-<span id="LC81" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define PRIu64 "I64u"</span></span>
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82
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89
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<pre style="margin: 0;"> <span id="LC89" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define fseeko fseeko64</span></span>
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90
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define ftello ftello64</span></span>
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <windows.h></span></span>
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91
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<pre style="margin: 0;"> <span id="LC91" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <process.h></span></span>
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92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRId64</span></span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRIu64</span></span>
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRId64 "I64d"</span></span>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIu64 "I64u"</span></span>
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86
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96
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define pthread_t HANDLE</span></span>
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87
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97
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define THREAD_RET_TYPE unsigned __stdcall</span></span>
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98
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define THREAD_RETURN return 0</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="106" style="width: 35px; color: rgba(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">@@ -96,8 +106,10 @@</td>
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define getc_unlocked getc</span></span>
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<pre style="margin: 0;"> <span id="LC107" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define putc_unlocked putc</span></span>
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98
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<pre style="margin: 0;"> <span id="LC108" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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99
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define uint64_t unsigned long long</span></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define int64_t long long</span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#if __cplusplus < 201103L</span></span>
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define uint64_t unsigned long long</span></span>
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define int64_t long long</span></span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC113" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <pthread.h></span></span>
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define THREAD_RET_TYPE void*</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="144" style="width: 35px; color: rgba(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="156" style="width: 35px; color: rgba(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">@@ -144,6 +156,27 @@</td>
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="c"></span>
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145
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157
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<pre style="margin: 0;"> <span id="LC157" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __cplusplus</span></span>
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146
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158
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#include <algorithm></span></span>
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159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef _WIN32</span></span>
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160
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// Windows C++11 <algorithm> resets these values :(</span></span>
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161
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRIu64</span></span>
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<td class="diff-line-num new new_line" data-linenumber="162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
162
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRId64</span></span>
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<td class="diff-line-num new new_line" data-linenumber="163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
163
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIu64 "I64u"</span></span>
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164
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRId64 "I64d"</span></span>
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165
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRIuPTR</span></span>
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166
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<pre style="margin: 0;">+<span id="LC166" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># undef PRIdPTR</span></span>
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167
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef __LP64__</span></span>
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<td class="diff-line-num new new_line" data-linenumber="168" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIuPTR PRIu64</span></span>
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<td class="diff-line-num new new_line" data-linenumber="169" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
169
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<pre style="margin: 0;">+<span id="LC169" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIdPTR PRId64</span></span>
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<td class="diff-line-num new new_line" data-linenumber="170" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
170
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<pre style="margin: 0;">+<span id="LC170" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
171
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<pre style="margin: 0;">+<span id="LC171" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># if __cplusplus < 201103L</span></span>
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<td class="diff-line-num new new_line" data-linenumber="172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
172
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<pre style="margin: 0;">+<span id="LC172" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIuPTR "lu"</span></span>
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<td class="diff-line-num new new_line" data-linenumber="173" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
173
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIdPTR "ld"</span></span>
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<td class="diff-line-num new new_line" data-linenumber="174" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIuPTR "u"</span></span>
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<td class="diff-line-num new new_line" data-linenumber="176" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
176
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define PRIdPTR "d"</span></span>
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<td class="diff-line-num new new_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
177
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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<td class="diff-line-num new new_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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<td class="diff-line-num new new_line" 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="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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147
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180
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<pre style="margin: 0;"> <span id="LC180" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define HEADER_INLINE inline</span></span>
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148
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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182
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define HEADER_INLINE static inline</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">@@ -206,12 +239,12 @@</td>
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239
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<pre style="margin: 0;"> <span id="LC239" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC240" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define ZEROLU 0LU</span></span>
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<pre style="margin: 0;"> <span id="LC241" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define ONELU 1LU</span></span>
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<pre style="margin: 0;">-<span id="LC209" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#ifndef PRIuPTR</span></span></span>
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<pre style="margin: 0;">-<span id="LC210" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#define PRIuPTR "lu"</span></span></span>
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<pre style="margin: 0;">-<span id="LC211" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#endif</span></span></span>
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<pre style="margin: 0;">-<span id="LC212" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#ifndef PRIdPTR</span></span></span>
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#</span>define PRIdPTR "ld"</span></span>
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214
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<pre style="margin: 0;">-<span id="LC214" class="line" lang="c"><span class="idiff left"> </span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff right">#</span>endif</span></span>
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<pre style="margin: 0;">+<span id="LC242" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># if (__GNUC__ <= 4) && (__GNUC_MINOR__ < 8) && (__cplusplus < 201103L)</span></span></span>
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<pre style="margin: 0;">+<span id="LC243" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># undef PRIuPTR</span></span></span>
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<pre style="margin: 0;">+<span id="LC244" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># undef PRIdPTR</span></span></span>
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<pre style="margin: 0;">+<span id="LC245" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># define PRIuPTR "lu"</span></span></span>
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<pre style="margin: 0;">+<span id="LC246" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># </span>define PRIdPTR "ld"</span></span>
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247
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<pre style="margin: 0;">+<span id="LC247" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"># </span>endif</span></span>
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215
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<pre style="margin: 0;"> <span id="LC248" class="line" lang="c"> <span class="cp" style="color: #999; font-weight: 600;">#define PRIxPTR2 "08lx"</span></span>
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216
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249
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<pre style="margin: 0;"> <span id="LC249" class="line" lang="c"></span>
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217
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<pre style="margin: 0;"> <span id="LC250" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// todo: update code so this still works when reduced to 4</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#2247078d3acb03afff65f7427a390c544d3a2200"><strong>plink_family.c</strong></a>
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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>
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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">@@ -1749,6 +1749,7 @@ int32_t tdt_poo(pthread_t* threads, FILE* bedfile, uintptr_t bed_offset, char* o</td>
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1749
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1749
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<pre style="margin: 0;"> <span id="LC1749" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// entry bit 16 & 24: hhh?</span></span>
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1750
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1750
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<pre style="margin: 0;"> <span id="LC1750" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// entry bit 17: paternal A1 transmitted?</span></span>
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<pre style="margin: 0;"> <span id="LC1751" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// entry bit 25: maternal A1 transmitted?</span></span>
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<pre style="margin: 0;">+<span id="LC1752" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// bugfix (10 Oct 2018): missed a few chrX possibilities</span></span>
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<pre style="margin: 0;"> <span id="LC1753" class="line" lang="c"> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">poo_table</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span></span>
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<pre style="margin: 0;"> <span id="LC1754" class="line" lang="c"> <span class="p">{</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</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="LC1755" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</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">@@ -1758,10 +1759,10 @@ int32_t tdt_poo(pthread_t* threads, FILE* bedfile, uintptr_t bed_offset, char* o</td>
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<pre style="margin: 0;"> <span id="LC1759" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1760
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<pre style="margin: 0;"> <span id="LC1760" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1761
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<pre style="margin: 0;"> <span id="LC1761" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</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="LC1761" class="line" lang="c"> <span class="mh" style="color: #099;">0x2000200</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x200</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1762
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<pre style="margin: 0;">+<span id="LC1762" class="line" lang="c"> <span class="mh" style="color: #099;">0x2000200</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x200</span><span class="p">,</span> <span class="mh" style="color: #099;">0<span class="idiff left right">x200</span></span><span class="p">,</span></span>
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1763
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<pre style="margin: 0;"> <span id="LC1763" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1764
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<pre style="margin: 0;"> <span id="LC1764" class="line" lang="c"> <span class="mh" style="color: #099;">0x2020202</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x1010202</span><span class="p">,</span> <span class="mh" style="color: #099;">0x202</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC1764" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x2000200</span><span class="p">,</span> <span class="mh" style="color: #099;">0x200</span><span class="p">,</span></span>
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1765
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<pre style="margin: 0;">+<span id="LC1765" class="line" lang="c"> <span class="mh" style="color: #099;">0<span class="idiff left right">x2000200</span></span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x2000200</span><span class="p">,</span> <span class="mh" style="color: #099;">0x200</span><span class="p">,</span></span>
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1766
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<pre style="margin: 0;"> <span id="LC1766" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1767
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<pre style="margin: 0;"> <span id="LC1767" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span></span>
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1768
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<pre style="margin: 0;"> <span id="LC1768" class="line" lang="c"> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="mh" style="color: #099;">0x20002</span><span class="p">,</span> <span class="mi" style="color: #099;">2</span><span class="p">};</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#c5addbbbc0190d5c540e05a57e47046a106a9e48"><strong>plink_matrix.c</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">@@ -20,9 +20,9 @@</td>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "plink_matrix.h"</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef NOLAPACK</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef __APPLE__</span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>ifndef __APPLE__</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">xerbla_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">)</span> <span class="p">{}</span> <span class="c1" style="color: #998; font-style: italic;">// fix static linking error</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>endif</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="nf" style="color: #900; font-weight: 600;">SQR</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">a</span><span class="p">)</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">@@ -286,7 +286,7 @@ int32_t invert_matrix(int32_t dim, double* matrix, MATRIX_INVERT_BUF1_TYPE* dbl_</td>
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<pre style="margin: 0;"> <span id="LC286" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC287" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC288" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC289" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC289" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else<span class="idiff left right"> // !NOLAPACK</span></span></span>
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<pre style="margin: 0;"> <span id="LC290" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="nf" style="color: #900; font-weight: 600;">invert_matrix</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">dim</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">matrix</span><span class="p">,</span> <span class="n" style="color: #333;">MATRIX_INVERT_BUF1_TYPE</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">int_1d_buf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dbl_2d_buf</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC291" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// dgetrf_/dgetri_ is more efficient than dpotrf_/dpotri_ on OS X.</span></span>
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<pre style="margin: 0;"> <span id="LC292" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">lwork</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dim</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dim</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">@@ -321,7 +321,7 @@ int32_t invert_matrix_checked(__CLPK_integer dim, double* matrix, MATRIX_INVERT_</td>
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<pre style="margin: 0;"> <span id="LC321" class="line" lang="c"> <span class="n" style="color: #333;">dgetri_</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dim</span><span class="p">,</span> <span class="n" style="color: #333;">matrix</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dim</span><span class="p">,</span> <span class="n" style="color: #333;">int_1d_buf</span><span class="p">,</span> <span class="n" style="color: #333;">dbl_2d_buf</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">lwork</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">info</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC322" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC323" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC324" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC324" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif<span class="idiff left right"> // !NOLAPACK</span></span></span>
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<pre style="margin: 0;"> <span id="LC325" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">col_major_matrix_multiply</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC327" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef NOLAPACK</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">@@ -345,15 +345,15 @@ void col_major_matrix_multiply(__CLPK_integer row1_ct, __CLPK_integer col2_ct, _</td>
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<pre style="margin: 0;"> <span id="LC345" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC346" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC347" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">-<span id="LC348" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right">ifdef _WIN32</span></span></span>
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<pre style="margin: 0;">+<span id="LC348" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> ifndef USE_CBLAS_XGEMM</span></span></span>
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<pre style="margin: 0;"> <span id="LC349" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">blas_char</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'N'</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC350" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">dyy</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC351" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">dzz</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="LC352" class="line" lang="c"> <span class="n" style="color: #333;">dgemm_</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">blas_char</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">blas_char</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dyy</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dzz</span><span class="p">,</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC353" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC353" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>else</span></span>
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<pre style="margin: 0;"> <span id="LC354" class="line" lang="c"> <span class="n" style="color: #333;">cblas_dgemm</span><span class="p">(</span><span class="n" style="color: #333;">CblasColMajor</span><span class="p">,</span> <span class="n" style="color: #333;">CblasNoTrans</span><span class="p">,</span> <span class="n" style="color: #333;">CblasNoTrans</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC355" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right">endif // _WIN32</span></span></span>
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<pre style="margin: 0;">-<span id="LC356" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right">// </span>NOLAPACK</span></span>
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<pre style="margin: 0;">+<span id="LC355" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> endif // USE_CBLAS_XGEMM</span></span></span>
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<pre style="margin: 0;">+<span id="LC356" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right"> // !</span>NOLAPACK</span></span>
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<pre style="margin: 0;"> <span id="LC357" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC358" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC359" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="nf" style="color: #900; font-weight: 600;">col_major_fmatrix_multiply</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">)</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">@@ -378,15 +378,15 @@ void col_major_fmatrix_multiply(__CLPK_integer row1_ct, __CLPK_integer col2_ct,</td>
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<pre style="margin: 0;"> <span id="LC378" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC379" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC380" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">-<span id="LC381" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right">ifdef _WIN32</span></span></span>
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<pre style="margin: 0;">+<span id="LC381" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> ifndef USE_CBLAS_XGEMM</span></span></span>
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<pre style="margin: 0;"> <span id="LC382" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">blas_char</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'N'</span><span class="p">;</span></span>
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383
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<pre style="margin: 0;"> <span id="LC383" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">fyy</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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384
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<pre style="margin: 0;"> <span id="LC384" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">fzz</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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385
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<pre style="margin: 0;"> <span id="LC385" class="line" lang="c"> <span class="n" style="color: #333;">sgemm_</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">blas_char</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">blas_char</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">fyy</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">fzz</span><span class="p">,</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">row1_ct</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC386" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>else</span></span>
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<pre style="margin: 0;"> <span id="LC387" class="line" lang="c"> <span class="n" style="color: #333;">cblas_sgemm</span><span class="p">(</span><span class="n" style="color: #333;">CblasColMajor</span><span class="p">,</span> <span class="n" style="color: #333;">CblasNoTrans</span><span class="p">,</span> <span class="n" style="color: #333;">CblasNoTrans</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">col2_ct</span><span class="p">,</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix1</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">,</span> <span class="n" style="color: #333;">inmatrix2</span><span class="p">,</span> <span class="n" style="color: #333;">common_ct</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">outmatrix</span><span class="p">,</span> <span class="n" style="color: #333;">row1_ct</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC388" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right">endif // _WIN32</span></span></span>
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<pre style="margin: 0;">-<span id="LC389" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right">// </span>NOLAPACK</span></span>
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<pre style="margin: 0;">+<span id="LC388" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> endif // USE_CBLAS_XGEMM</span></span></span>
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<pre style="margin: 0;">+<span id="LC389" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right"> // !</span>NOLAPACK</span></span>
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<pre style="margin: 0;"> <span id="LC390" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC391" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC392" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// Todo: replace these with cache-oblivious, or at least -friendlier,</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#0700cfdbab4549531e0e421133c5af43b961516e"><strong>plink_matrix.h</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">@@ -19,66 +19,118 @@</td>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// Wrappers for frequent LAPACK calls (sometimes with no-LAPACK fallbacks).</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// May want to make this comprehensive to make linking with Intel MKL practical</span></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// in the future.</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// todo: allow this to take advantage of 64-bit integer LAPACK. As of this</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// writing, it's available on Amazon EC2 64-bit Linux instances, but I can't</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// find it for Windows. (And even if OS X vecLib adds it soon, we can't use it</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// there anytime soon because static linking is not an option.)</span></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __APPLE__</span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <Accelerate/Accelerate.h></span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC22" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// (Update, 11 Oct 2018: Backported PLINK 2.0's MKL support.)</span></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef NOLAPACK</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_TYPE double</span></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_ELEM_ALLOC (2 * sizeof(double))</span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_CHECKED_ALLOC (2 * sizeof(double))</span></span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __CLPK_integer int</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_TYPE double</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_ELEM_ALLOC (2 * sizeof(double))</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_CHECKED_ALLOC (2 * sizeof(double))</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define __CLPK_integer int</span></span>
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else // <span class="idiff left right">not </span>NOLAPACK</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else // <span class="idiff left right">!</span>NOLAPACK</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef __APPLE__</span></span>
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<pre style="margin: 0;">+<span id="LC33" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef __APPLE__</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <Accelerate/Accelerate.h></span></span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define USE_CBLAS_XGEMM</span></span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __cplusplus</span></span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifndef __APPLE__</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef __cplusplus</span></span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="c"><span class="k" style="font-weight: 600;">extern</span> <span class="s" style="color: #d14;">"C"</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="c"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef _WIN32</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define HAVE_LAPACK_CONFIG_H</span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define LAPACK_COMPLEX_STRUCTURE</span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "lapack/lapacke/include/lapacke.h"</span></span>
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<pre style="margin: 0;">+<span id="LC45" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># if defined(__LP64__) || defined(_WIN32)</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="c"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC47" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="c"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">long</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC49" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef _WIN32</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// openblas is easy enough to set up on Windows nowadays.</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// not worth the trouble of ripping out vector extensions, etc. just so we</span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// can compile with Visual Studio and gain access to MKL.</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// (todo: upgrade from 0.2.19 to a later version, build setup will probably</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// need to change a bit)</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define HAVE_LAPACK_CONFIG_H</span></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define LAPACK_COMPLEX_STRUCTURE</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include "lapacke.h"</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span> <span class="n" style="color: #333;">ddot_</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dx</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dy</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dger_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">y</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC67" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC72" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC73" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dsymv_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">uplo</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC74" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC75" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">ddot_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dx</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dy</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC76" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dgetrf_</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ipiv</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">info</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">sgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span></span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">sgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC81" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC82" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC83" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC84" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC85" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else // Linux</span></span>
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<pre style="margin: 0;">+<span id="LC86" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef USE_MKL</span></span>
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<pre style="margin: 0;">+<span id="LC87" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifndef __LP64__</span></span>
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88
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<pre style="margin: 0;">+<span id="LC88" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># error "32-bit Linux build does not support Intel MKL."</span></span>
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89
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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90
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<pre style="margin: 0;">+<span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define USE_CBLAS_XGEMM</span></span>
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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// sizeof(MKL_INT) should be 4.</span></span>
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92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># define MKL_LP64</span></span>
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93
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef DYNAMIC_MKL</span></span>
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94
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<pre style="margin: 0;">+<span id="LC94" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <mkl_service.h></span></span>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <mkl_cblas.h></span></span>
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96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <mkl_lapack.h></span></span>
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97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include "mkl_service.h"</span></span>
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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include "mkl_cblas.h"</span></span>
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100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include "mkl_lapack.h"</span></span>
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101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef USE_CBLAS_XGEMM</span></span>
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104
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas.h></span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// ARGH</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// cmake on Ubuntu 14 seems to require use of cblas_f77.h instead of cblas.h.</span></span>
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<td class="diff-line-num new new_line" data-linenumber="108" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// Conversely, cblas_f77.h does not seem to be available on the Scientific</span></span>
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<td class="diff-line-num new new_line" data-linenumber="109" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// Linux ATLAS/LAPACK install, and right now that's my only option for</span></span>
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<td class="diff-line-num new new_line" data-linenumber="110" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
110
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<pre style="margin: 0;">+<span id="LC110" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// producing 32-bit static builds...</span></span>
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<td class="diff-line-num new new_line" data-linenumber="111" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
111
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<pre style="margin: 0;">+<span id="LC111" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// So. Default include is cblas.h. To play well with cmake + Ubuntu 14 and</span></span>
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<pre style="margin: 0;">+<span id="LC112" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// 16 simultaneously, there is a CBLAS_F77_ON_OLD_GCC mode which picks</span></span>
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113
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// cblas_f77.h on Ubuntu 14 and cblas.h on 16.</span></span>
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114
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef FORCE_CBLAS_F77</span></span>
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115
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas_f77.h></span></span>
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116
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># elif !defined(CBLAS_F77_ON_OLD_GCC)</span></span>
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117
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas.h></span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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119
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># if (__GNUC__ <= 4)</span></span>
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120
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas_f77.h></span></span>
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121
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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122
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># if __has_include(<cblas.h>)</span></span>
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123
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas.h></span></span>
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124
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># else</span></span>
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125
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># include <cblas_f77.h></span></span>
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126
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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127
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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128
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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129
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<pre style="margin: 0;">+<span id="LC129" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span> <span class="n" style="color: #333;">ddot_</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dx</span><span class="p">,</span></span>
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130
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dy</span><span class="p">,</span></span>
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131
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">);</span></span>
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132
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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74
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133
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="c"></span>
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75
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else // not _WIN32</span></span>
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76
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <cblas.h></span></span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __LP64__</span></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="c"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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80
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="c"> <span class="k" style="font-weight: 600;">typedef</span> <span class="kt" style="color: #458; font-weight: 600;">long</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="p">;</span></span>
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81
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<pre style="margin: 0;">-<span id="LC81" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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82
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<pre style="margin: 0;"> <span id="LC134" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">dgetrf_</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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83
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<pre style="margin: 0;"> <span id="LC135" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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84
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ipiv</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">info</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="118" style="width: 35px; color: rgba(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">@@ -118,27 +170,46 @@ extern "C" {</td>
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170
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">vt</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldvt</span><span class="p">,</span></span>
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119
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_doublereal</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">work</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lwork</span><span class="p">,</span></span>
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120
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">iwork</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">info</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">+<span id="LC173" class="line" lang="c"></span>
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174
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<pre style="margin: 0;">+<span id="LC174" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifndef USE_CBLAS_XGEMM</span></span>
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<td class="diff-line-num new new_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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176
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<pre style="margin: 0;">+<span id="LC176" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
177
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<pre style="margin: 0;">+<span id="LC177" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span></span>
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178
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<pre style="margin: 0;">+<span id="LC178" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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179
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<pre style="margin: 0;">+<span id="LC179" class="line" lang="c"></span>
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180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">dsymv_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">uplo</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" data-linenumber="181" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
181
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<pre style="margin: 0;">+<span id="LC181" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">x</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incx</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">y</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">incy</span><span class="p">);</span></span>
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182
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<pre style="margin: 0;">+<span id="LC182" class="line" lang="c"></span>
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<td class="diff-line-num new new_line" 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="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">sgemm_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transa</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">transb</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">n</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" 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="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">alpha</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">a</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">lda</span><span class="p">,</span></span>
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<td class="diff-line-num new new_line" 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="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">b</span><span class="p">,</span> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">beta</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">float</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">c</span><span class="p">,</span></span>
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186
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<pre style="margin: 0;">+<span id="LC186" class="line" lang="c"> <span class="n" style="color: #333;">__CLPK_integer</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ldc</span><span class="p">);</span></span>
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187
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<pre style="margin: 0;">+<span id="LC187" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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188
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="c"></span>
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189
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<pre style="margin: 0;">+<span id="LC189" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif // !USE_MKL</span></span>
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190
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<pre style="margin: 0;">+<span id="LC190" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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191
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<pre style="margin: 0;">+<span id="LC191" class="line" lang="c"></span>
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122
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192
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="c"></span>
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123
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193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">xerbla_</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">);</span></span>
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124
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __cplusplus</span></span>
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125
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"><span class="p">}</span></span>
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126
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif // __cplusplus</span></span>
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127
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif // __APPLE__</span></span>
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194
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># ifdef __cplusplus</span></span>
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195
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<pre style="margin: 0;">+<span id="LC195" class="line" lang="c"><span class="p">}</span> <span class="c1" style="color: #998; font-style: italic;">// extern "C"</span></span>
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196
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<pre style="margin: 0;">+<span id="LC196" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif</span></span>
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197
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<pre style="margin: 0;">+<span id="LC197" class="line" lang="c"></span>
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198
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<pre style="margin: 0;">+<span id="LC198" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"># endif // !__APPLE__</span></span>
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128
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199
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="c"></span>
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129
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_TYPE __CLPK_integer</span></span>
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130
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_ELEM_ALLOC sizeof(__CLPK_integer)</span></span>
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<pre style="margin: 0;">+<span id="LC200" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_TYPE __CLPK_integer</span></span>
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<pre style="margin: 0;">+<span id="LC201" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_ELEM_ALLOC sizeof(__CLPK_integer)</span></span>
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131
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202
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// invert_matrix_checked() usually requires a larger buffer</span></span>
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132
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_INVERT_BUF1_CHECKED_ALLOC (2 * sizeof(__CLPK_integer))</span></span>
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203
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define MATRIX_INVERT_BUF1_CHECKED_ALLOC (2 * sizeof(__CLPK_integer))</span></span>
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133
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204
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="c"></span>
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134
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right">// </span>NOLAPACK</span></span>
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205
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif <span class="idiff left right"> // !</span>NOLAPACK</span></span>
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135
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206
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="c"></span>
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136
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207
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<pre style="margin: 0;"> <span id="LC207" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MATRIX_SINGULAR_RCOND 1e-14</span></span>
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137
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208
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<pre style="margin: 0;"> <span id="LC208" class="line" lang="c"></span>
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138
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209
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<pre style="margin: 0;"> <span id="LC209" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef NOLAPACK</span></span>
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139
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210
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<pre style="margin: 0;"> <span id="LC210" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">invert_matrix</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">dim</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">matrix</span><span class="p">,</span> <span class="n" style="color: #333;">MATRIX_INVERT_BUF1_TYPE</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dbl_1d_buf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dbl_2d_buf</span><span class="p">);</span></span>
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140
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<pre style="margin: 0;"> <span id="LC211" class="line" lang="c"></span>
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141
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define invert_matrix_checked invert_matrix</span></span>
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#<span class="idiff left right"> </span>define invert_matrix_checked invert_matrix</span></span>
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142
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<pre style="margin: 0;"> <span id="LC213" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">invert_matrix</span><span class="p">(</span><span class="n" style="color: #333;">__CLPK_integer</span> <span class="n" style="color: #333;">dim</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">matrix</span><span class="p">,</span> <span class="n" style="color: #333;">MATRIX_INVERT_BUF1_TYPE</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">int_1d_buf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dbl_2d_buf</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="c"></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#ba1c9b5bb7a2082fa0175bb7bc18d4f159fac3b7"><strong>plink_rserve.c</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">@@ -20,14 +20,14 @@</td>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="c"><span class="c1" style="color: #998; font-style: italic;">// gcc instead of g++.</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#if defined __cplusplus && !defined _WIN32</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "plink_common.h"</span></span>
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "plink_cluster.h"</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MAIN</span></span>
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define SOCK_ERRORS</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "sisocks.h"</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "Rconnection.h"</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "plink_common.h"</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "plink_cluster.h"</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define RPLUGIN_BLOCK_SIZE 100</span></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="nf" style="color: #900; font-weight: 600;">rserve_call</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">rplugin_fname</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">rplugin_host_or_socket</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int32_t</span> <span class="n" style="color: #333;">rplugin_port</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">rplugin_debug</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">FILE</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">bedfile</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">bed_offset</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">marker_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">unfiltered_marker_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">marker_exclude</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">marker_reverse</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">marker_ids</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">max_marker_id_len</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">**</span> <span class="n" style="color: #333;">marker_allele_ptrs</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">marker_pos</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">plink_maxsnp</span><span class="p">,</span> <span class="n" style="color: #333;">Chrom_info</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">chrom_info_ptr</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">unfiltered_sample_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">pheno_nm</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">pheno_nm_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">pheno_c</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">pheno_d</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">cluster_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cluster_map</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">cluster_starts</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">uintptr_t</span> <span class="n" style="color: #333;">covar_ct</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">double</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">covar_d</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">outname</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">char</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">outname_end</span><span class="p">)</span> <span class="p">{</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/commit/868d9efd315a33e16f52340ecbcb18e579f731e7#c6cd8bb18220d4c8b1380bbbdf5887bf9ce3f625"><strong>toy.ped</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">1 1000000000 0 0 1 1 0 0 <span class="idiff left right">1 1</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="plaintext">1 1000000001 0 0 1 2 <span class="idiff left right">1 1 1 2</span></span></pre>
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1
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">1 1000000000 0 0 1 1 0 0 <span class="idiff left right">A A</span></span>
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2
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext">1 1000000001 0 0 1 2 <span class="idiff left right">C C A G</span></span></pre>
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