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<h3>
Andreas Tille pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/suitename">Debian Med / suitename</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683">dd932622</a></strong>
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<span>by Andreas Tille</span>
<i>at 2020-11-06T14:40:04+01:00</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 0.3.070919+git20180613.ebb1325</pre>
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<h4>11 changed files:</h4>
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<a href="#bd33e415bedf7978f400686ba5a3833e84cc2bbc">
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−
0.3.070525
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<li class="file-stats">
<a href="#8e28377ec7b97dade9b9a301811698c2db8eca2b">
Makefile.macOSX
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<li class="file-stats">
<a href="#d1bc52909f19d31bcffd5f6b93e99d17d0b171ff">
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+
SConscript
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<a href="#ad5d172d81b1d58d3cc589bf37a7d3b7a9f36fe1">
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+
command_line/suitename.py
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<li class="file-stats">
<a href="#848f71b37edad9466d741b0340fe192696976fad">
suitename.c
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<li class="file-stats">
<a href="#d01439ff4207f240944587b9c32604bc5929010a">
suitename.h
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<a href="#3dae85ed01d3c431af93670160c1205eb9cdaf8d">
suiteninit.c
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<li class="file-stats">
<a href="#2fab2120f04e82f753d96ca847a66e6d1e917a5c">
suiteninit.h
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<li class="file-stats">
<a href="#817d4eb779bf402a2df872a94ae666f8ea94f06e">
suiteninpt.c
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<li class="file-stats">
<a href="#c9e4637ab5159005b43a30b5a79ded7e1d2838f5">
suitenout.c
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<a href="#c64cb2a6b6e86d55eb0a237e27e0e3e7b101f7e9">
suitenutil.c
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<h4>Changes:</h4>
<li id="bd33e415bedf7978f400686ba5a3833e84cc2bbc">
<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#bd33e415bedf7978f400686ba5a3833e84cc2bbc"><strong>0.3.070525</strong>
deleted
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">suitename.0.2.070524</span></pre>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#8e28377ec7b97dade9b9a301811698c2db8eca2b"><strong>Makefile.macOSX</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># suitename</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="make"><span class="k" style="font-weight: 600;">ifeq</span> <span class="nv" style="color: #008080;">($(MAKECMDGOALS),debug)</span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="make"> <span class="nv" style="color: #008080;">CFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-g</span> <span class="nt" style="color: #000080;">-isysroot</span> /<span class="idiff left">Developer/SDKs/MacOSX10.4u.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff"> i386 </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> ppc</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="make"> <span class="nv" style="color: #008080;">CFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-g</span> <span class="nt" style="color: #000080;">-isysroot</span> /<span class="idiff left">Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> x86_64</span></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="make"><span class="k" style="font-weight: 600;">else</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="make"> <span class="nv" style="color: #008080;">CFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-isysroot</span> /<span class="idiff left">Developer/SDKs/MacOSX10.4u.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff"> i386 </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> ppc</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="make"> <span class="nv" style="color: #008080;">CFLAGS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-isysroot</span> /<span class="idiff left">Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> x86_64</span></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="make"><span class="k" style="font-weight: 600;">endif</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="make"></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="make"><span class="nv" style="color: #008080;">LIBS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-lm</span> <span class="nt" style="color: #000080;">-Wl</span>,-syslibroot,/<span class="idiff left">Developer/SDKs/MacOSX10.4u.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff"> i386 </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> ppc</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="make"><span class="nv" style="color: #008080;">LIBS</span> <span class="o" style="font-weight: 600;">=</span> <span class="nt" style="color: #000080;">-lm</span> <span class="nt" style="color: #000080;">-Wl</span>,-syslibroot,/<span class="idiff left">Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.9.sdk </span><span class="nt" style="color: #000080;"><span class="idiff">-arch</span></span><span class="idiff right"> x86_64</span></span>
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<pre style="margin: 0;"> <span id="LC10" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="make"><span class="c" style="color: #998; font-style: italic;"># ---------------------------------------------------------------------</span></span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="make"><span class="nv" style="color: #008080;">PROG_FLGS</span> <span class="o" style="font-weight: 600;">=</span> </span>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#d1bc52909f19d31bcffd5f6b93e99d17d0b171ff"><strong>SConscript</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">libtbx.load_env</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="python"><span class="n" style="color: #333;">Import</span><span class="p">(</span><span class="s" style="color: #d14;">"env_base"</span><span class="p">,</span> <span class="s" style="color: #d14;">"env_etc"</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="python"><span class="n" style="color: #333;">env</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">env_base</span><span class="p">.</span><span class="n" style="color: #333;">Clone</span><span class="p">(</span><span class="n" style="color: #333;">LIBS</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">env_etc</span><span class="p">.</span><span class="n" style="color: #333;">libm</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">libtbx</span><span class="p">.</span><span class="n" style="color: #333;">manual_date_stamp</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">20090819</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="python"> <span class="c1" style="color: #998; font-style: italic;"># XXX backward compatibility 2009-08-19</span></span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="python"> <span class="n" style="color: #333;">env</span><span class="p">.</span><span class="n" style="color: #333;">Replace</span><span class="p">(</span><span class="n" style="color: #333;">CCFLAGS</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">env_etc</span><span class="p">.</span><span class="n" style="color: #333;">ccflags_base</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">env_etc</span><span class="p">.</span><span class="n" style="color: #333;">compiler</span> <span class="o" style="font-weight: 600;">!=</span> <span class="s" style="color: #d14;">"win32_cl"</span><span class="p">):</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"> <span class="n" style="color: #333;">env</span><span class="p">.</span><span class="n" style="color: #333;">Replace</span><span class="p">(</span><span class="n" style="color: #333;">LINK</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">env_base</span><span class="p">[</span><span class="s" style="color: #d14;">"CC"</span><span class="p">])</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"><span class="n" style="color: #333;">exe</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">env</span><span class="p">.</span><span class="n" style="color: #333;">Program</span><span class="p">(</span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"> <span class="n" style="color: #333;">target</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span><span class="s" style="color: #d14;">"#suitename/exe/suitename"</span><span class="p">],</span></span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"> <span class="n" style="color: #333;">source</span><span class="o" style="font-weight: 600;">=</span><span class="p">[</span></span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"> <span class="s" style="color: #d14;">"suitename.c"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"> <span class="s" style="color: #d14;">"suiteninit.c"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"> <span class="s" style="color: #d14;">"suiteninpt.c"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"> <span class="s" style="color: #d14;">"suitenout.c"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"> <span class="s" style="color: #d14;">"suitenscrt.c"</span><span class="p">,</span></span>
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<pre style="margin: 0;">+<span id="LC20" class="line" lang="python"> <span class="s" style="color: #d14;">"suitenutil.c"</span><span class="p">])</span></span></pre>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#ad5d172d81b1d58d3cc589bf37a7d3b7a9f36fe1"><strong>command_line/suitename.py</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># LIBTBX_SET_DISPATCHER_NAME phenix.suitename</span></span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="python"><span class="c1" style="color: #998; font-style: italic;"># LIBTBX_SET_DISPATCHER_NAME molprobity.suitename</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="python"></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">libtbx.load_env</span></span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="python"><span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">libtbx.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Usage</span></span>
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="python"><span class="kn" style="font-weight: 600;">import</span> <span class="nn" style="color: #555;">os</span><span class="p">,</span> <span class="n" style="color: #333;">sys</span><span class="p">,</span> <span class="n" style="color: #333;">subprocess</span></span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="python"></span>
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8
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="python"><span class="k" style="font-weight: 600;">def</span> <span class="nf" style="color: #900; font-weight: 600;">run</span><span class="p">(</span><span class="n" style="color: #333;">args</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
9
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="python"> <span class="n" style="color: #333;">exe</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">libtbx</span><span class="p">.</span><span class="n" style="color: #333;">env</span><span class="p">.</span><span class="n" style="color: #333;">under_build</span><span class="p">(</span><span class="s" style="color: #d14;">"suitename/exe/suitename"</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">name</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"nt"</span><span class="p">):</span></span>
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<td class="diff-line-num new new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="python"> <span class="n" style="color: #333;">exe</span> <span class="o" style="font-weight: 600;">+=</span> <span class="s" style="color: #d14;">".exe"</span></span>
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<td class="diff-line-num new new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="python"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="ow" style="font-weight: 600;">not</span> <span class="n" style="color: #333;">os</span><span class="p">.</span><span class="n" style="color: #333;">path</span><span class="p">.</span><span class="n" style="color: #333;">isfile</span><span class="p">(</span><span class="n" style="color: #333;">exe</span><span class="p">)):</span></span>
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13
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="python"> <span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">libtbx.str_utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">show_string</span></span>
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14
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="python"> <span class="kn" style="font-weight: 600;">from</span> <span class="nn" style="color: #555;">libtbx.utils</span> <span class="kn" style="font-weight: 600;">import</span> <span class="n" style="color: #333;">Sorry</span></span>
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15
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="python"> <span class="k" style="font-weight: 600;">raise</span> <span class="n" style="color: #333;">Sorry</span><span class="p">(</span><span class="s" style="color: #d14;">"Missing phenix.suitename executable: %s"</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">show_string</span><span class="p">(</span><span class="n" style="color: #333;">exe</span><span class="p">))</span></span>
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16
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<pre style="margin: 0;">+<span id="LC16" class="line" lang="python"> <span class="n" style="color: #333;">subprocess</span><span class="p">.</span><span class="n" style="color: #333;">call</span><span class="p">([</span><span class="n" style="color: #333;">exe</span><span class="p">]</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">args</span><span class="p">)</span></span>
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17
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="python"></span>
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18
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="python"><span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">__name__</span> <span class="o" style="font-weight: 600;">==</span> <span class="s" style="color: #d14;">"__main__"</span><span class="p">):</span></span>
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19
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<pre style="margin: 0;">+<span id="LC19" class="line" lang="python"> <span class="n" style="color: #333;">run</span><span class="p">(</span><span class="n" style="color: #333;">sys</span><span class="p">.</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">:])</span></span></pre>
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<li id="848f71b37edad9466d741b0340fe192696976fad">
<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#848f71b37edad9466d741b0340fe192696976fad"><strong>suitename.c</strong></a>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="21" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -21,11 +21,17 @@</td>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "suitenout.h"</span></span>
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22
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="c"></span>
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23
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.2.070524 preserve chi-1 and chi, so could preserve eta, theta */</span></span>
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24
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<pre style="margin: 0;">-<span id="LC24" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.2.070525 general read dangle record for, e.g., eta, theta */</span></span>
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25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.2.070628 triage reports zeta-1, epsilon-1, delta-1,... Ltriage codes */</span></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC24" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.3.070525 general read dangle record for, e.g., eta, theta */</span></span>
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.3.070628 triage reports zeta-1, epsilon-1, delta-1,... Ltriage codes */</span></span>
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<pre style="margin: 0;">+<span id="LC26" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.3.070803 notes: rearranged suitenhead.h/janesviews ... */</span></span>
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<pre style="margin: 0;">+<span id="LC27" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* put something in to say what veiws mean */</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* what are masters e and d ???? */</span></span>
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<pre style="margin: 0;">+<span id="LC29" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.3.070919 3g wannabe (tRNA TpseudoUC loop) */</span></span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*0.3.110606 range of delta updated by S.J. */</span></span>
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<pre style="margin: 0;">+<span id="LC31" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* 01/07/2014 S.J. updated so that it can take input with alternate conformations, *nd by default will calculate the suite for altA*/</span></span>
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<pre style="margin: 0;">+<span id="LC32" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* 09/18/2014 S.J. updated so that suitename will ignore DNA residues*/</span></span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/****main()*******************************************************************/</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="c"><span class="n" style="color: #333;">main</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">argc</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;">argv</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff left">int</span></span><span class="idiff right"> </span><span class="nf" style="color: #900; font-weight: 600;">main</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">argc</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;">argv</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC35" class="line" lang="c"><span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">LOK</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="n" style="color: #333;">ibin</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">jclst</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="LC37" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">sour</span><span class="p">[</span><span class="mi" style="color: #099;">32</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">@@ -39,11 +45,11 @@ main(int argc, char** argv)</td>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="c"> <span class="n" style="color: #333;">ptmaster</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*default is no point master*/</span></span>
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<pre style="margin: 0;"> <span id="LC46" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="c"> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">version</span><span class="p">,</span><span class="s" style="color: #d14;">"suitename.0.<span class="idiff left right">3.070628</span> "</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/* VERSION */</span></span>
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<pre style="margin: 0;">+<span id="LC48" class="line" lang="c"> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">version</span><span class="p">,</span><span class="s" style="color: #d14;">"suitename.0.<span class="idiff left right">4.130509</span> "</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/* VERSION */</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* default values before parsecommandline */</span></span>
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51
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="c"> <span class="n" style="color: #333;">Ltest</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*compile in... */</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="c"> <span class="n" style="color: #333;">Ltestout</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*commandline -test */</span><span class="idiff left right"> </span></span>
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52
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="c"> <span class="n" style="color: #333;">Ltestout</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*commandline -test */</span></span>
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47
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53
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="c"> <span class="n" style="color: #333;">fpin</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">stdin</span><span class="p">;</span></span>
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48
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54
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<pre style="margin: 0;"> <span id="LC54" class="line" lang="c"> <span class="n" style="color: #333;">fpout</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">stdout</span><span class="p">;</span></span>
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55
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="c"></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">@@ -58,14 +64,20 @@ main(int argc, char** argv)</td>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"> <span class="n" style="color: #333;">Lsuitesin</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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59
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"> <span class="n" style="color: #333;">Lresiduesin</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="LC66" class="line" lang="c"> <span class="n" style="color: #333;">NptIDfields</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">6</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*for dangle residue input*/</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="c"> <span class="n" style="color: #333;">altIDfield</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/* by default, no altID field - S.J. 01/07/2014*/</span> </span>
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68
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"> <span class="n" style="color: #333;">altID</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span> <span class="n" style="color: #333;">altID</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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61
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="c"> <span class="n" style="color: #333;">Nanglefields</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">9</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*for 9D kinemage edited suite input*/</span></span>
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62
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70
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="c"> <span class="n" style="color: #333;">Lnewfile</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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63
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="c"> <span class="n" style="color: #333;">Lhelpout</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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72
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="c"> <span class="n" style="color: #333;">LNptIDfields</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/* initializing the four variables to check correct usage of altIDfield - S.J. 01/07/2014*/</span></span>
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73
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="c"> <span class="n" style="color: #333;">LaltIDfield</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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74
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="c"> <span class="n" style="color: #333;">Luseincorrect</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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75
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="c"> <span class="n" style="color: #333;">LaltID</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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64
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76
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<pre style="margin: 0;"> <span id="LC76" class="line" lang="c"> <span class="n" style="color: #333;">Lchangesout</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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65
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77
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="c"> <span class="n" style="color: #333;">NameStr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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66
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<td class="diff-line-num new_line" data-linenumber="78" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
78
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="c"> <span class="n" style="color: #333;">Lgeneralsatw</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*flag for special general case satellite widths 070328*/</span></span>
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67
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<td class="diff-line-num new_line" data-linenumber="79" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
79
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="c"> <span class="n" style="color: #333;">Lwannabe</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span><span class="cm" style="color: #998; font-style: italic;">/* -wannabe input flag 070429, default 070525, else -nowannabe*/</span></span>
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68
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="c"><span class="idiff left right"> </span></span>
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80
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="c"></span>
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69
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<td class="diff-line-num new_line" data-linenumber="81" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
81
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="c"> <span class="n" style="color: #333;">Lsequence</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*output 1 letter Base code sequence part of string 070409*/</span></span>
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70
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<td class="diff-line-num new_line" data-linenumber="82" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
82
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="c"> <span class="n" style="color: #333;">Loverlap</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*overlap string lines, e.g. 1-20, 11-30, 21-40, ... 070409*/</span></span>
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71
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<td class="diff-line-num new_line" data-linenumber="83" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
83
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="c"> <span class="n" style="color: #333;">Loneline</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*string output all as oneline 070409*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="74" style="width: 35px; color: rgba(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="86" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -74,8 +86,10 @@ main(int argc, char** argv)</td>
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74
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86
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<pre style="margin: 0;"> <span id="LC86" class="line" lang="c"> <span class="p">{</span></span>
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75
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87
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<pre style="margin: 0;"> <span id="LC87" class="line" lang="c"> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">parsecommandline</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">argc</span><span class="p">,</span> <span class="n" style="color: #333;">argv</span><span class="p">);</span></span>
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76
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88
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<pre style="margin: 0;"> <span id="LC88" class="line" lang="c"> <span class="p">}</span></span>
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89
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<pre style="margin: 0;">+<span id="LC89" class="line" lang="c"></span>
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77
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90
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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78
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<td class="diff-line-num new_line old" data-linenumber="91" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*command OK*/</span></span>
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91
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<pre style="margin: 0;">+<span id="LC91" class="line" lang="c"> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="92" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
92
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<pre style="margin: 0;">+<span id="LC92" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*command OK*/</span></span>
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79
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<td class="diff-line-num new_line" data-linenumber="93" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
93
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"> <span class="n" style="color: #333;">inittextblock</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">mainscratch</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/*__open scratch "tapes" */</span></span>
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80
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94
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*--rewind scratch "tapes", inplicit with inittextblock() */</span></span>
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81
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95
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*--allocation of space automatic when attempting write*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="83" style="width: 35px; color: rgba(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="97" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -83,7 +97,7 @@ main(int argc, char** argv)</td>
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83
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97
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"> <span class="n" style="color: #333;">newresidueptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">residuestruct</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">residuestruct</span><span class="p">));</span></span>
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84
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98
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="n" style="color: #333;">oldresidueptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">residuestruct</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">residuestruct</span><span class="p">));</span></span>
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85
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99
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">suitestruct</span><span class="o" style="font-weight: 600;">*</span><span class="p">)</span><span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">suitestruct</span><span class="p">));</span></span>
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86
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">newresidueptr</span> <span class="o" style="font-weight: 600;">!=</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="idiff left right"> </span></span>
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100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">newresidueptr</span> <span class="o" style="font-weight: 600;">!=</span> <span class="nb" style="color: #0086b3;">NULL</span></span>
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87
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<td class="diff-line-num new_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">oldresidueptr</span> <span class="o" style="font-weight: 600;">!=</span> <span class="nb" style="color: #0086b3;">NULL</span></span>
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88
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102
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">suiteptr</span> <span class="o" style="font-weight: 600;">!=</span> <span class="nb" style="color: #0086b3;">NULL</span></span>
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89
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103
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<pre style="margin: 0;"> <span id="LC103" class="line" lang="c"> <span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</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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<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">@@ -92,11 +106,11 @@ main(int argc, char** argv)</td>
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92
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106
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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93
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107
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<pre style="margin: 0;"> <span id="LC107" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*storage allocated*/</span></span>
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94
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108
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<pre style="margin: 0;"> <span id="LC108" class="line" lang="c"> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">initializations</span><span class="p">();</span> <span class="cm" style="color: #998; font-style: italic;">/*070325*/</span></span>
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95
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span><span class="idiff left right"> </span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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96
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110
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*LOK to work*/</span></span>
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97
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111
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="c"></span>
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98
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112
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="c"> <span class="n" style="color: #333;">clearnewresidue</span><span class="p">();</span> <span class="cm" style="color: #998; font-style: italic;">/*only at beginning so first-1 handled correctly*/</span></span>
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99
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*sudo pre-Algorithm: accummulate suites or suites from residues */</span><span class="idiff left right"> </span></span>
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113
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*sudo pre-Algorithm: accummulate suites or suites from residues */</span></span>
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100
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<pre style="margin: 0;"> <span id="LC114" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">LatEOF</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*allow EOF on end of last line, see Lhitend */</span></span>
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<td class="diff-line-num old_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
101
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115
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*loop over all residues in the file*/</span></span>
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102
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="117" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="131" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -117,12 +131,12 @@ fprintf(stderr,"\n");</td>
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117
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131
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<pre style="margin: 0;"> <span id="LC131" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Lsuitesin</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getsuite</span><span class="p">();}</span></span>
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118
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<pre style="margin: 0;"> <span id="LC132" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getresidue</span><span class="p">();</span> <span class="n" style="color: #333;">Lresiduesin</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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133
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<pre style="margin: 0;"> <span id="LC133" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="c"> <span class="p">{</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Lresiduesin</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">loadsuite</span><span class="p">();}</span><span class="idiff left right"> </span></span>
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134
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="c"> <span class="p">{</span></span>
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135
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Lresiduesin</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">loadsuite</span><span class="p">();}</span></span>
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122
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136
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<pre style="margin: 0;"> <span id="LC136" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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137
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="c"> <span class="p">{</span></span>
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124
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="c"> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">confirmsuite</span><span class="p">();</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span><span class="idiff left right"> </span></span>
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139
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<pre style="margin: 0;">+<span id="LC139" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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140
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<pre style="margin: 0;"> <span id="LC140" class="line" lang="c"> <span class="p">{</span></span>
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="c"> <span class="n" style="color: #333;">ibin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">13</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*angles not fully specified*/</span></span>
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128
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142
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="c"> <span class="n" style="color: #333;">jclst</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*cluster not assigned in dummy bin*/</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">@@ -140,9 +154,9 @@ fprintf(stderr,"\n");</td>
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154
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="c"></span>
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141
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155
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">ibin</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">){</span><span class="n" style="color: #333;">membership</span><span class="p">(</span><span class="n" style="color: #333;">ibin</span><span class="p">);}</span></span>
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142
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156
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="c"></span>
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143
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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157
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="c"> <span class="p">}</span></span>
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144
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158
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<pre style="margin: 0;"> <span id="LC158" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*loaded suite*/</span></span>
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145
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*got a residue (or a suite from a kinemage)*/</span><span class="idiff left right"> </span></span>
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159
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*got a residue (or a suite from a kinemage)*/</span></span>
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146
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160
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<pre style="margin: 0;"> <span id="LC160" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*loop over all residues in the file*/</span></span>
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147
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161
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<pre style="margin: 0;"> <span id="LC161" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
148
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<td class="diff-line-num new_line" data-linenumber="162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
162
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<pre style="margin: 0;"> <span id="LC162" class="line" lang="c"> <span class="n" style="color: #333;">writeoutput</span><span class="p">();</span> <span class="cm" style="color: #998; font-style: italic;">/*has logicals for what output possible*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="157" style="width: 35px; color: rgba(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="171" style="width: 35px; color: rgba(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">@@ -157,7 +171,7 @@ fprintf(stderr,"\n");</td>
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157
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<td class="diff-line-num new_line" data-linenumber="171" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
171
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="c"> <span class="n" style="color: #333;">initializations</span><span class="p">();</span></span>
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<td class="diff-line-num old_line" data-linenumber="158" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
158
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<td class="diff-line-num new_line" data-linenumber="172" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
172
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="c"> <span class="n" style="color: #333;">L33out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">L32out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">L23out</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">L22out</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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<td class="diff-line-num old_line" data-linenumber="159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
159
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<td class="diff-line-num new_line" data-linenumber="173" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
173
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;"><=</span><span class="mi" style="color: #099;">12</span><span class="p">;</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span></span>
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160
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<td class="diff-line-num new_line old" data-linenumber="174" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="c"> <span class="p">{</span><span class="idiff left right"> </span></span>
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<td class="diff-line-num new old_line" data-linenumber="161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<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="p">{</span></span>
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161
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<td class="diff-line-num new_line" data-linenumber="175" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
175
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<pre style="margin: 0;"> <span id="LC175" class="line" lang="c"> <span class="n" style="color: #333;">binout</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
162
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<td class="diff-line-num new_line" data-linenumber="176" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
176
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<pre style="margin: 0;"> <span id="LC176" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*for(j=1; j<ddgmax; j++)*/</span></span>
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<td class="diff-line-num old_line" data-linenumber="163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
163
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<td class="diff-line-num new_line" data-linenumber="177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
177
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<pre style="margin: 0;"> <span id="LC177" class="line" lang="c"> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*zeroth cluster of a bin holds its outliers*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="207" style="width: 35px; color: rgba(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="221" style="width: 35px; color: rgba(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">@@ -207,7 +221,7 @@ fprintf(stderr,"\n");</td>
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207
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<td class="diff-line-num new_line" data-linenumber="221" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
221
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<pre style="margin: 0;"> <span id="LC221" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"alphamin %.0f, alphamax %.0f</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">alphamin</span><span class="p">,</span><span class="n" style="color: #333;">alphamax</span><span class="p">);</span></span>
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208
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222
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<pre style="margin: 0;"> <span id="LC222" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"betamin %.0f, betamax %.0f</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">betamin</span><span class="p">,</span><span class="n" style="color: #333;">betamax</span><span class="p">);</span></span>
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209
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<td class="diff-line-num new_line" data-linenumber="223" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
223
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"zetamin %.0f, zetamax %.0f</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">zetamin</span><span class="p">,</span><span class="n" style="color: #333;">zetamax</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="210" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
210
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<td class="diff-line-num new_line old" data-linenumber="224" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC210" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"cluster half-widths, & special satellite widths"</span><span class="p">);</span><span class="idiff left right"> </span></span>
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<td class="diff-line-num new old_line" data-linenumber="211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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224
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"cluster half-widths, & special satellite widths"</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
211
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<td class="diff-line-num new_line" data-linenumber="225" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
225
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<pre style="margin: 0;"> <span id="LC225" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">" version: %s</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">clusterhalfwidthsversion</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="212" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
212
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<td class="diff-line-num new_line" data-linenumber="226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
226
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"deltamw %.0f</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">deltamw</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="213" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
213
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<td class="diff-line-num new_line" data-linenumber="227" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
227
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"epsilonw %.0f, epsilonsatw %.0f</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span><span class="n" style="color: #333;">epsilonw</span><span class="p">,</span><span class="n" style="color: #333;">epsilonsatw</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="235" style="width: 35px; color: rgba(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="249" style="width: 35px; color: rgba(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">@@ -235,12 +249,17 @@ fprintf(stderr,"\n");</td>
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<pre style="margin: 0;"> <span id="LC249" class="line" lang="c"> <span class="p">}</span></span>
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250
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<pre style="margin: 0;"> <span id="LC250" class="line" lang="c"> <span class="p">}</span></span>
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237
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251
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<pre style="margin: 0;"> <span id="LC251" class="line" lang="c"> <span class="p">}</span></span>
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252
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<pre style="margin: 0;">+<span id="LC252" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">Luseincorrect</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* if both the point field and alt field are not specified, then exit - S.J. 01/07/2014*/</span></span>
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253
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<pre style="margin: 0;">+<span id="LC253" class="line" lang="c"> <span class="p">{</span></span>
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254
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<pre style="margin: 0;">+<span id="LC254" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"Please specify both -altIDfield and -pointIDfields</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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255
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<pre style="margin: 0;">+<span id="LC255" class="line" lang="c"> <span class="n" style="color: #333;">usageout</span><span class="p">();</span></span>
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256
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<pre style="margin: 0;">+<span id="LC256" class="line" lang="c"> <span class="p">}</span></span>
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238
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257
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<pre style="margin: 0;"> <span id="LC257" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="cm" style="color: #998; font-style: italic;">/*Lhelpout*/</span></span>
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239
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258
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<pre style="margin: 0;"> <span id="LC258" class="line" lang="c"> <span class="p">{</span></span>
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240
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259
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<pre style="margin: 0;"> <span id="LC259" class="line" lang="c"> <span class="n" style="color: #333;">usageout</span><span class="p">();</span></span>
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241
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260
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<pre style="margin: 0;"> <span id="LC260" class="line" lang="c"> <span class="p">}</span></span>
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242
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261
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="c"> <span class="p">}</span></span>
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243
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<pre style="margin: 0;">-<span id="LC243" class="line" lang="c"> <span class="n" style="color: #333;"><span class="idiff left right">exit</span></span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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262
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<pre style="margin: 0;">+<span id="LC262" class="line" lang="c"> <span class="k" style="font-weight: 600;"><span class="idiff left right">return</span></span><span class="p">(</span><span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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263
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<pre style="margin: 0;"> <span id="LC263" class="line" lang="c"><span class="p">}</span></span>
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264
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<pre style="margin: 0;"> <span id="LC264" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*___main()__________________________________________________________________*/</span></span>
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<pre style="margin: 0;"> <span id="LC265" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="274" style="width: 35px; color: rgba(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="293" style="width: 35px; color: rgba(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">@@ -274,7 +293,7 @@ int evaluatesuite(void)</td>
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<pre style="margin: 0;"> <span id="LC293" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo THEN s_bini = e_triage AND !OK */</span></span>
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<pre style="margin: 0;"> <span id="LC294" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC295" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">epsilon</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">epsilonmin</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">epsilon</span> <span class="o" style="font-weight: 600;">></span> <span class="n" style="color: #333;">epsilonmax</span><span class="p">)</span></span>
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<pre style="margin: 0;">-<span id="LC277" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" e out "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC296" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" e out "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="278" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
278
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<td class="diff-line-num new_line" data-linenumber="297" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
297
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<pre style="margin: 0;"> <span id="LC297" class="line" lang="c"> <span class="n" style="color: #333;">Ltriage</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">EPSILONM</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">ptmaster</span><span class="p">,</span><span class="s" style="color: #d14;">"'E'"</span><span class="p">);}</span></span>
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<td class="diff-line-num old_line" data-linenumber="279" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
279
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298
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<pre style="margin: 0;"> <span id="LC298" class="line" lang="c"> <span class="p">}</span></span>
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280
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299
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<pre style="margin: 0;"> <span id="LC299" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*------ filter on delta minus 1 -----------------------*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="290" style="width: 35px; color: rgba(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="309" style="width: 35px; color: rgba(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">@@ -290,7 +309,7 @@ int evaluatesuite(void)</td>
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290
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309
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<pre style="margin: 0;"> <span id="LC309" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">deltam</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">delta2min</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">deltam</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">delta2max</span><span class="p">)</span></span>
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291
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310
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<pre style="margin: 0;"> <span id="LC310" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerdm</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span><span class="p">;</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="p">}</span></span>
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292
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311
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span></span>
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293
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<pre style="margin: 0;">-<span id="LC293" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerdm</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" bad deltam "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span><span class="idiff left right"> </span></span>
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<td class="diff-line-num new new_line" data-linenumber="312" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
312
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<pre style="margin: 0;">+<span id="LC312" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerdm</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" bad deltam "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</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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294
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313
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="c"> <span class="n" style="color: #333;">Ltriage</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">DELTAM</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">ptmaster</span><span class="p">,</span><span class="s" style="color: #d14;">"'D'"</span><span class="p">);}</span></span>
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295
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314
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<pre style="margin: 0;"> <span id="LC314" class="line" lang="c"> <span class="p">}</span></span>
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296
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315
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<pre style="margin: 0;"> <span id="LC315" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*------ filter on delta -----------------------*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="306" style="width: 35px; color: rgba(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="325" style="width: 35px; color: rgba(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">@@ -306,7 +325,7 @@ int evaluatesuite(void)</td>
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306
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325
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<pre style="margin: 0;"> <span id="LC325" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">>=</span> <span class="n" style="color: #333;">delta2min</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;"><=</span> <span class="n" style="color: #333;">delta2max</span><span class="p">)</span></span>
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307
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326
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<pre style="margin: 0;"> <span id="LC326" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerd</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span><span class="p">;</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="p">}</span></span>
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308
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327
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<pre style="margin: 0;"> <span id="LC327" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span></span>
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309
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<pre style="margin: 0;">-<span id="LC309" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerd</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" bad delta "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span><span class="idiff left right"> </span></span>
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328
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<pre style="margin: 0;">+<span id="LC328" class="line" lang="c"> <span class="p">{</span> <span class="n" style="color: #333;">puckerd</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" bad delta "</span><span class="p">);</span> <span class="n" style="color: #333;">LOK</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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310
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<td class="diff-line-num new_line" data-linenumber="329" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
329
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<pre style="margin: 0;"> <span id="LC329" class="line" lang="c"> <span class="n" style="color: #333;">Ltriage</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">DELTA</span><span class="p">;</span> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">ptmaster</span><span class="p">,</span><span class="s" style="color: #d14;">"'D'"</span><span class="p">);}</span></span>
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<pre style="margin: 0;"> <span id="LC330" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC331" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*both deltas in range*/</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">@@ -441,7 +460,7 @@ int evaluatesuite(void)</td>
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<pre style="margin: 0;"> <span id="LC460" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*culled by single angle triage*/</span></span>
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461
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<pre style="margin: 0;"> <span id="LC461" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC462" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo ELSE {s_bini already set to be some kind of triage} */</span></span>
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<pre style="margin: 0;">-<span id="LC444" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC463" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC464" class="line" lang="c"> <span class="n" style="color: #333;">Ltriageout</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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465
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<pre style="margin: 0;"> <span id="LC465" class="line" lang="c"> <span class="n" style="color: #333;">binout</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</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="LC466" class="line" lang="c"> <span class="n" style="color: #333;">ibin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -464,7 +483,7 @@ void membership(int ibin)</td>
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483
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<pre style="margin: 0;"> <span id="LC483" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">penmindist</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">999</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC484" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">pi</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">3</span><span class="p">.</span><span class="mi" style="color: #099;">14159</span><span class="p">;</span></span>
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485
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<pre style="margin: 0;"> <span id="LC485" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">suiteness</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="LC467" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">sour</span><span class="p">[</span><span class="mi" style="color: #099;">96</span><span class="p">],</span><span class="n" style="color: #333;">sourness</span><span class="p">[</span><span class="mi" style="color: #099;"><span class="idiff left right">32</span></span><span class="p">];</span> <span class="cm" style="color: #998; font-style: italic;">/*070311 accum report*/</span></span>
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<pre style="margin: 0;">+<span id="LC486" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">sour</span><span class="p">[</span><span class="mi" style="color: #099;">96</span><span class="p">],</span><span class="n" style="color: #333;">sourness</span><span class="p">[</span><span class="mi" style="color: #099;"><span class="idiff left right">64</span></span><span class="p">];</span> <span class="cm" style="color: #998; font-style: italic;">/*070311 accum report*/</span></span>
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<pre style="margin: 0;"> <span id="LC487" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Ldominant</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="LC488" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">LOK</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="LC489" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">sattodom</span><span class="p">[</span><span class="mi" style="color: #099;">8</span><span class="p">],</span> <span class="n" style="color: #333;">domtosat</span><span class="p">[</span><span class="mi" style="color: #099;">8</span><span class="p">],</span><span class="n" style="color: #333;">sattopt</span><span class="p">[</span><span class="mi" style="color: #099;">8</span><span class="p">],</span><span class="n" style="color: #333;">domtopt</span><span class="p">[</span><span class="mi" style="color: #099;">8</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">@@ -482,7 +501,7 @@ void membership(int ibin)</td>
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501
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<pre style="margin: 0;"> <span id="LC501" class="line" lang="c"> <span class="n" style="color: #333;">clearmatches</span><span class="p">();</span></span>
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<pre style="margin: 0;"> <span id="LC502" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="c"> <span class="n" style="color: #333;">matchcnt</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="LC485" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ibin</span><span class="p">;</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC504" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ibin</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC505" class="line" lang="c"></span>
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506
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<pre style="margin: 0;"> <span id="LC506" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo */</span></span>
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507
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<pre style="margin: 0;"> <span id="LC507" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo program body: cluster membership in assigned s_bini */</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">@@ -505,8 +524,8 @@ void membership(int ibin)</td>
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<pre style="margin: 0;"> <span id="LC524" class="line" lang="c"></span>
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525
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<pre style="margin: 0;"> <span id="LC525" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*070428*/</span></span>
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526
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<pre style="margin: 0;"> <span id="LC526" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*loop over all observed clusters in this ith bin*/</span></span>
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508
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<pre style="margin: 0;">-<span id="LC508" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">Lwannabe</span><span class="idiff left right"> </span></span>
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509
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<pre style="margin: 0;">-<span id="LC509" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span><span class="cm" style="color: #998; font-style: italic;">/*match*/</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC527" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">Lwannabe</span></span>
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<pre style="margin: 0;">+<span id="LC528" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span><span class="cm" style="color: #998; font-style: italic;">/*match*/</span></span>
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<pre style="margin: 0;"> <span id="LC529" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*empty bin dummy cluster at 0,0,0,0,0,0,0 is out of angle range*/</span></span>
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511
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<pre style="margin: 0;"> <span id="LC530" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*but safer to explicity skip*/</span></span>
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512
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<pre style="margin: 0;"> <span id="LC531" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*if(i==3 || i==9){continue;} not needed 070428*/</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="540" style="width: 35px; color: rgba(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">@@ -521,13 +540,13 @@ void membership(int ibin)</td>
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="c"> <span class="n" style="color: #333;">closestd</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distance</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC542" class="line" lang="c"> <span class="n" style="color: #333;">closestj</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">j</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC524" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC543" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC544" class="line" lang="c"></span>
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526
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545
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<pre style="margin: 0;"> <span id="LC545" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">distance</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* store all distances, needed for diagnostics */</span></span>
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546
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<pre style="margin: 0;"> <span id="LC546" class="line" lang="c"> <span class="p">{</span></span>
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528
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<pre style="margin: 0;">-<span id="LC528" class="line" lang="c"> <span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distance</span><span class="p">;</span><span class="idiff left right"> </span></span>
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547
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<pre style="margin: 0;">+<span id="LC547" class="line" lang="c"> <span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">distance</span><span class="p">;</span></span>
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529
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548
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo IF 0 <= d < 1 THEN */</span></span>
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530
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<pre style="margin: 0;">-<span id="LC530" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">distance</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* suite could be a member of this cluster */</span><span class="idiff left right"> </span></span>
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549
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<pre style="margin: 0;">+<span id="LC549" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">distance</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* suite could be a member of this cluster */</span></span>
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531
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550
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<pre style="margin: 0;"> <span id="LC550" class="line" lang="c"> <span class="p">{</span> <span class="cm" style="color: #998; font-style: italic;">/*APPEND to list of clusters of which suite could be a member*/</span></span>
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532
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551
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<pre style="margin: 0;"> <span id="LC551" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo APPEND cj to s_list_ci */</span></span>
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<pre style="margin: 0;"> <span id="LC552" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo FLAG when possible_cluster is a dominant_cluster */</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">@@ -554,12 +573,12 @@ void membership(int ibin)</td>
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573
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<pre style="margin: 0;"> <span id="LC573" class="line" lang="c"></span>
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574
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<pre style="margin: 0;"> <span id="LC574" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*now find the next closest cluster (for debugging purposes)*/</span></span>
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556
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575
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<pre style="margin: 0;"> <span id="LC575" class="line" lang="c"> <span class="n" style="color: #333;">nextclosed</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">999</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*next closest cluster*/</span></span>
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557
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<pre style="margin: 0;">-<span id="LC557" class="line" lang="c"><span class="idiff left right"> </span></span>
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576
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<pre style="margin: 0;">+<span id="LC576" class="line" lang="c"></span>
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558
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577
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<pre style="margin: 0;"> <span id="LC577" class="line" lang="c"> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*start with index 1 for first observed clst in this bin 070428*/</span></span>
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559
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578
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<pre style="margin: 0;"> <span id="LC578" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*070428*/</span></span>
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560
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579
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<pre style="margin: 0;"> <span id="LC579" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*loop over all clusters in this ith bin*/</span></span>
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561
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580
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<pre style="margin: 0;"> <span id="LC580" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">Lwannabe</span></span>
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562
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<pre style="margin: 0;">-<span id="LC562" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span><span class="cm" style="color: #998; font-style: italic;">/*match*/</span><span class="idiff left right"> </span></span>
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581
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<pre style="margin: 0;">+<span id="LC581" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span><span class="cm" style="color: #998; font-style: italic;">/*match*/</span></span>
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563
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582
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<pre style="margin: 0;"> <span id="LC582" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">nextclosed</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">!=</span> <span class="n" style="color: #333;">closestj</span><span class="p">)</span></span>
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564
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583
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<pre style="margin: 0;"> <span id="LC583" class="line" lang="c"> <span class="p">{</span></span>
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565
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584
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<pre style="margin: 0;"> <span id="LC584" class="line" lang="c"> <span class="n" style="color: #333;">nextclosed</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">j</span><span class="p">];</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="571" style="width: 35px; color: rgba(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="590" style="width: 35px; color: rgba(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">@@ -571,7 +590,7 @@ void membership(int ibin)</td>
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571
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590
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<pre style="margin: 0;"> <span id="LC590" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*end logic: find all clusters that match this conformation_______________*/</span></span>
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572
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591
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<pre style="margin: 0;"> <span id="LC591" class="line" lang="c"></span>
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573
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592
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<pre style="margin: 0;"> <span id="LC592" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*now assign suite to a particular cluster*/</span></span>
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574
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<pre style="margin: 0;">-<span id="LC574" class="line" lang="c"> <span class="n" style="color: #333;">Lassigned</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC593" class="line" lang="c"> <span class="n" style="color: #333;">Lassigned</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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575
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594
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<pre style="margin: 0;"> <span id="LC594" class="line" lang="c"></span>
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576
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<pre style="margin: 0;"> <span id="LC595" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo */</span></span>
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577
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596
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<pre style="margin: 0;"> <span id="LC596" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo IF |s_list_ci| == 1 THEN */</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">@@ -606,15 +625,15 @@ void membership(int ibin)</td>
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606
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<pre style="margin: 0;"> <span id="LC625" class="line" lang="c"></span>
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607
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<pre style="margin: 0;"> <span id="LC626" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo ASSIGN domj = dominant cj in s_list_ci */</span></span>
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608
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627
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<pre style="margin: 0;"> <span id="LC627" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo ASSIGN thej = cj in s_list_ci minimizing d for all non-dominant cj in s_list_ci */</span></span>
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609
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<pre style="margin: 0;">-<span id="LC609" class="line" lang="c"><span class="idiff left right"> </span></span>
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628
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<pre style="margin: 0;">+<span id="LC628" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC629" class="line" lang="c"> <span class="n" style="color: #333;">penmindist</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">999</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC611" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC630" class="line" lang="c"></span>
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612
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631
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<pre style="margin: 0;"> <span id="LC631" class="line" lang="c"> <span class="n" style="color: #333;">j</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span><span class="cm" style="color: #998; font-style: italic;">/*start with index 1 for first observed clst in this bin 070428*/</span></span>
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613
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632
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<pre style="margin: 0;"> <span id="LC632" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*070428*/</span></span>
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614
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633
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<pre style="margin: 0;"> <span id="LC633" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*loop over all clusters in this ith bin*/</span></span>
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615
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634
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<pre style="margin: 0;"> <span id="LC634" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">Lwannabe</span></span>
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616
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<pre style="margin: 0;">-<span id="LC616" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span><span class="idiff left right"> </span></span>
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617
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<pre style="margin: 0;">-<span id="LC617" class="line" lang="c"><span class="idiff left right"> </span></span>
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635
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<pre style="margin: 0;">+<span id="LC635" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span><span class="k" style="font-weight: 600;">continue</span><span class="p">;}</span></span>
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636
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<pre style="margin: 0;">+<span id="LC636" class="line" lang="c"></span>
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618
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637
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<pre style="margin: 0;"> <span id="LC637" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="p">(</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">].</span><span class="n" style="color: #333;">domsatness</span><span class="p">,</span><span class="s" style="color: #d14;">"dom"</span><span class="p">)</span><span class="o" style="font-weight: 600;">!=</span><span class="mi" style="color: #099;">0</span> <span class="p">)</span><span class="cm" style="color: #998; font-style: italic;">/*i.e. NOT dom*/</span></span>
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619
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638
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<pre style="margin: 0;"> <span id="LC638" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span> <span class="p">(</span><span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">penmindist</span><span class="p">))</span></span>
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620
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639
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<pre style="margin: 0;"> <span id="LC639" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*find shortest distance to non-dominant and satellite clusters*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="648" style="width: 35px; color: rgba(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="667" style="width: 35px; color: rgba(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">@@ -648,7 +667,7 @@ void membership(int ibin)</td>
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648
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667
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<pre style="margin: 0;"> <span id="LC667" class="line" lang="c"> <span class="n" style="color: #333;">vector7ab</span><span class="p">(</span><span class="n" style="color: #333;">sattodom</span><span class="p">,</span> <span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">thej</span><span class="p">].</span><span class="n" style="color: #333;">ang</span><span class="p">,</span> <span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">domj</span><span class="p">].</span><span class="n" style="color: #333;">ang</span><span class="p">);</span></span>
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649
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668
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<pre style="margin: 0;"> <span id="LC668" class="line" lang="c"></span>
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650
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669
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<pre style="margin: 0;"> <span id="LC669" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo IF si is located between the means of thej and domj THEN */</span></span>
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651
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<pre style="margin: 0;">-<span id="LC651" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="p">(</span><span class="n" style="color: #333;">dotproduct</span><span class="p">(</span><span class="n" style="color: #333;">domtopt</span><span class="p">,</span><span class="n" style="color: #333;">domtosat</span><span class="p">,</span><span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span><span class="idiff left right"> </span></span>
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670
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<pre style="margin: 0;">+<span id="LC670" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="p">(</span><span class="n" style="color: #333;">dotproduct</span><span class="p">(</span><span class="n" style="color: #333;">domtopt</span><span class="p">,</span><span class="n" style="color: #333;">domtosat</span><span class="p">,</span><span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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652
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671
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<pre style="margin: 0;"> <span id="LC671" class="line" lang="c"> <span class="o" style="font-weight: 600;">&&</span><span class="p">(</span><span class="n" style="color: #333;">dotproduct</span><span class="p">(</span><span class="n" style="color: #333;">sattopt</span><span class="p">,</span><span class="n" style="color: #333;">sattodom</span><span class="p">,</span><span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">)</span></span>
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653
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672
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<pre style="margin: 0;"> <span id="LC672" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*pt between dom and sat*/</span></span>
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<pre style="margin: 0;"> <span id="LC673" class="line" lang="c"></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">@@ -658,7 +677,7 @@ void membership(int ibin)</td>
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677
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<pre style="margin: 0;"> <span id="LC677" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*recalc distances to dominant cluster and to satellite cluster*/</span></span>
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659
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678
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<pre style="margin: 0;"> <span id="LC678" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*considering different weights between special cluster pairs */</span></span>
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679
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<pre style="margin: 0;"> <span id="LC679" class="line" lang="c"> <span class="n" style="color: #333;">resetcoordw</span><span class="p">(</span><span class="n" style="color: #333;">dominantw</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">,</span><span class="n" style="color: #333;">domj</span><span class="p">,</span><span class="mi" style="color: #099;">0</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/*set to dominant widths*/</span></span>
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661
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<pre style="margin: 0;">-<span id="LC661" class="line" lang="c"> <span class="n" style="color: #333;">resetcoordw</span><span class="p">(</span><span class="n" style="color: #333;">satellitew</span><span class="p">,</span><span class="n" style="color: #333;">i</span><span class="p">,</span><span class="n" style="color: #333;">thej</span><span class="p">,</span><span class="n" style="color: #333;">Lgeneralsatw</span><span class="p">);</span><span class="idiff left right"> </span></span>
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680
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<pre style="margin: 0;">+<span id="LC680" class="line" lang="c"> <span class="n" style="color: #333;">resetcoordw</span><span class="p">(</span><span class="n" style="color: #333;">satellitew</span><span class="p">,</span><span class="n" style="color: #333;">i</span><span class="p">,</span><span class="n" style="color: #333;">thej</span><span class="p">,</span><span class="n" style="color: #333;">Lgeneralsatw</span><span class="p">);</span></span>
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662
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681
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<pre style="margin: 0;"> <span id="LC681" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*set to satellite widths, using Lgeneralsatw 070414*/</span></span>
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663
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682
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<pre style="margin: 0;"> <span id="LC682" class="line" lang="c"> <span class="n" style="color: #333;">assignweights</span><span class="p">(</span><span class="n" style="color: #333;">i</span><span class="p">,</span><span class="n" style="color: #333;">thej</span><span class="p">,</span><span class="n" style="color: #333;">dominantw</span><span class="p">,</span><span class="n" style="color: #333;">satellitew</span><span class="p">);</span></span>
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664
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683
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<pre style="margin: 0;"> <span id="LC683" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*special widths for this satellite: weight dom--sat pair*/</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">@@ -726,7 +745,7 @@ fprintf(stderr,"\n");</td>
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726
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745
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<pre style="margin: 0;"> <span id="LC745" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*thej = closestj; NOT viable to have outlier named by closest cluster*/</span></span>
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727
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746
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<pre style="margin: 0;"> <span id="LC746" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* some are very far from any cluster, */</span></span>
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<pre style="margin: 0;"> <span id="LC747" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* and even a singleton defines an extant cluster and makes a ring*/</span></span>
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<pre style="margin: 0;">-<span id="LC729" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC748" class="line" lang="c"> <span class="p">}</span></span>
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749
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<pre style="margin: 0;"> <span id="LC749" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo END IF ( |s_list_ci| == ? ) */</span></span>
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750
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<pre style="margin: 0;"> <span id="LC750" class="line" lang="c"></span>
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751
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<pre style="margin: 0;"> <span id="LC751" class="line" lang="c"> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">sour</span><span class="p">,</span><span class="s" style="color: #d14;">" %s:%s, %7.3f:%s, %7.3f: "</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="754" style="width: 35px; color: rgba(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">@@ -735,7 +754,7 @@ fprintf(stderr,"\n");</td>
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735
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754
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<pre style="margin: 0;"> <span id="LC754" class="line" lang="c"> <span class="p">,</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">nextclosej</span><span class="p">].</span><span class="n" style="color: #333;">clustername</span><span class="p">,</span><span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">nextclosej</span><span class="p">]);</span></span>
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755
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<pre style="margin: 0;"> <span id="LC755" class="line" lang="c"></span>
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737
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756
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<pre style="margin: 0;"> <span id="LC756" class="line" lang="c"> <span class="n" style="color: #333;">clusterout</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">][</span><span class="n" style="color: #333;">thej</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*this specific cluster has an entry*/</span></span>
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<pre style="margin: 0;">-<span id="LC738" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC757" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC758" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">Lwannabe</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">bin</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">].</span><span class="n" style="color: #333;">clst</span><span class="p">[</span><span class="n" style="color: #333;">thej</span><span class="p">].</span><span class="n" style="color: #333;">status</span><span class="p">,</span><span class="s" style="color: #d14;">"wannabe"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC759" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC760" class="line" lang="c"> <span class="n" style="color: #333;">Lwannabeout</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*once set, stays set*/</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">@@ -772,7 +791,7 @@ fprintf(stderr,"\n");</td>
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791
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<pre style="margin: 0;"> <span id="LC791" class="line" lang="c"> <span class="n" style="color: #333;">sprintf</span><span class="p">(</span><span class="n" style="color: #333;">commentstr</span><span class="p">,</span><span class="s" style="color: #d14;">" by 7Ddist"</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/*070628*/</span></span>
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<pre style="margin: 0;"> <span id="LC792" class="line" lang="c"> <span class="n" style="color: #333;">Lcomment</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="LC793" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC775" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC794" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC795" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC796" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo ELSE "suiteness" suiti = 0 */</span></span>
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<pre style="margin: 0;"> <span id="LC797" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*sudo ASSIGN s_clusteri = outlier */</span></span>
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<li id="d01439ff4207f240944587b9c32604bc5929010a">
<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#d01439ff4207f240944587b9c32604bc5929010a"><strong>suitename.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">@@ -3,6 +3,7 @@</td>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdio.h></span></span>
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4
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4
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <math.h></span></span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></span></span>
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6
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <ctype.h></span></span>
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7
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MAXBINS 14 </span><span class="cm" style="color: #998; font-style: italic;">/*1--12 named bins, bin 0 triaged, bin 13 incomplete*/</span></span>
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MAXCLST 16 </span><span class="cm" style="color: #998; font-style: italic;">/*practical, <observed, limit of clusters in a bin*/</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">@@ -50,7 +51,7 @@ typedef struct suitestruct {</td>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="c"><span class="p">}</span><span class="n" style="color: #333;">suitestruct</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC52" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">suitestruct</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">suiteptr</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC53" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">residuestruct</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">residuestruct</span> <span class="p">{</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;"> <span id="LC55" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="mi" style="color: #099;">10</span><span class="p">][</span><span class="mi" style="color: #099;">32</span><span class="p">];</span></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">];</span> <span class="cm" style="color: #998; font-style: italic;">/*070412*/</span></span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">alpha</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">@@ -64,7 +65,7 @@ EXTERN residuestruct* residueptr;</td>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="n" style="color: #333;">residuestruct</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">newresidueptr</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="n" style="color: #333;">residuestruct</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">oldresidueptr</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="LC67" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">MAXBINS</span><span class="p">][</span><span class="n" style="color: #333;">MAXCLST</span><span class="p">];</span><span class="idiff left right"> </span></span>
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68
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">matches</span><span class="p">[</span><span class="n" style="color: #333;">MAXBINS</span><span class="p">][</span><span class="n" style="color: #333;">MAXCLST</span><span class="p">];</span></span>
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68
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*incl 1--12 named bins, # defined clsters070429*/</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="c"><span class="n" style="color: #333;">EXTERN</span> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">coordw</span><span class="p">[</span><span class="mi" style="color: #099;">8</span><span class="p">];</span> <span class="cm" style="color: #998; font-style: italic;">/*general weightings*/</span></span>
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<li id="3dae85ed01d3c431af93670160c1205eb9cdaf8d">
<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#3dae85ed01d3c431af93670160c1205eb9cdaf8d"><strong>suiteninit.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">@@ -182,6 +182,7 @@ int parsecommandline(int *argc, char** argv)</td>
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"pointIDfields"</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">)</span> </span>
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183
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<pre style="margin: 0;"> <span id="LC183" class="line" lang="c"> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"ptID"</span><span class="p">,</span> <span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="p">)</span></span>
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184
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<pre style="margin: 0;"> <span id="LC184" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC185" class="line" lang="c"> <span class="n" style="color: #333;">LNptIDfields</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/* flag to see if this is specified or not - S.J. 01/07/2014*/</span></span>
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185
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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;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*number of pointID fields is in the next string*/</span></span>
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186
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="c"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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187
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188
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<pre style="margin: 0;"> <span id="LC188" class="line" lang="c"> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="198" style="width: 35px; color: rgba(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="199" style="width: 35px; color: rgba(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">@@ -198,6 +199,32 @@ int parsecommandline(int *argc, char** argv)</td>
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198
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199
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<pre style="margin: 0;"> <span id="LC199" class="line" lang="c"> <span class="p">}</span></span>
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199
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200
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*strobe out number*/</span></span>
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200
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201
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="202" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
202
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<pre style="margin: 0;">+<span id="LC202" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"altIDfield"</span><span class="p">,</span> <span class="mi" style="color: #099;">10</span><span class="p">))</span> <span class="cm" style="color: #998; font-style: italic;">/* to check for altIDfield and storing it S.J. 01/07/2014*/</span></span>
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203
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<pre style="margin: 0;">+<span id="LC203" class="line" lang="c"> <span class="p">{</span></span>
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204
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<pre style="margin: 0;">+<span id="LC204" class="line" lang="c"> <span class="n" style="color: #333;">LaltIDfield</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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<td class="diff-line-num new new_line" data-linenumber="205" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
205
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<pre style="margin: 0;">+<span id="LC205" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*altID field is in the next string*/</span></span>
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206
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="c"> <span class="n" style="color: #333;">p</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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207
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="c"> <span class="n" style="color: #333;">j</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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208
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="c"> <span class="n" style="color: #333;">k</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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209
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<pre style="margin: 0;">+<span id="LC209" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><</span><span class="mi" style="color: #099;">256</span><span class="p">)</span></span>
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<td class="diff-line-num new new_line" data-linenumber="210" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
210
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<pre style="margin: 0;">+<span id="LC210" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*strobe out number*/</span></span>
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211
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<pre style="margin: 0;">+<span id="LC211" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">isdigit</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">])</span> <span class="p">)</span> <span class="p">{</span> <span class="n" style="color: #333;">numstr</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">p</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">];</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span> <span class="p">}</span></span>
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212
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*no char yet*/</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span> <span class="p">}</span></span>
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213
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span></span>
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<td class="diff-line-num new new_line" data-linenumber="214" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
214
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/*presume whole number is in*/</span></span>
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215
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="c"> <span class="n" style="color: #333;">numstr</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*end number string*/</span></span>
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216
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<pre style="margin: 0;">+<span id="LC216" class="line" lang="c"> <span class="n" style="color: #333;">sscanf</span><span class="p">(</span><span class="n" style="color: #333;">numstr</span><span class="p">,</span><span class="s" style="color: #d14;">"%d"</span><span class="p">,</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">altIDfield</span><span class="p">);</span></span>
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217
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<pre style="margin: 0;">+<span id="LC217" class="line" lang="c"> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">999</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*end the while loop*/</span></span>
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218
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<pre style="margin: 0;">+<span id="LC218" class="line" lang="c"> <span class="p">}</span></span>
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219
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<pre style="margin: 0;">+<span id="LC219" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*strobe out number*/</span></span>
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220
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<pre style="margin: 0;">+<span id="LC220" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new new_line" data-linenumber="221" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
221
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"altIDval"</span><span class="p">,</span><span class="mi" style="color: #099;">8</span><span class="p">))</span> <span class="cm" style="color: #998; font-style: italic;">/* to get the value of the altID - S.J. 01/07/2014*/</span></span>
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222
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="c"> <span class="p">{</span></span>
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223
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<pre style="margin: 0;">+<span id="LC223" class="line" lang="c"> <span class="n" style="color: #333;">LaltID</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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224
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="c"> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">i</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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225
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="c"> <span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<pre style="margin: 0;">+<span id="LC226" class="line" lang="c"> <span class="n" style="color: #333;">altID</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="n" style="color: #333;">p</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">];</span></span>
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227
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<pre style="margin: 0;">+<span id="LC227" class="line" lang="c"> <span class="p">}</span></span>
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201
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<pre style="margin: 0;"> <span id="LC228" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"angles"</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">)</span> </span>
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202
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<pre style="margin: 0;"> <span id="LC229" class="line" lang="c"> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"anglefields"</span><span class="p">,</span> <span class="mi" style="color: #099;">5</span><span class="p">)</span> </span>
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203
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<pre style="margin: 0;"> <span id="LC230" class="line" lang="c"> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">,</span><span class="s" style="color: #d14;">"nangles"</span><span class="p">,</span> <span class="mi" style="color: #099;">6</span><span class="p">)</span> <span class="p">)</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="247" style="width: 35px; color: rgba(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="274" style="width: 35px; color: rgba(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">@@ -247,7 +274,8 @@ int parsecommandline(int *argc, char** argv)</td>
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247
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274
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<pre style="margin: 0;"> <span id="LC274" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*presume an input file name*/</span></span>
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248
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275
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<pre style="margin: 0;"> <span id="LC275" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*loop over arguments*/</span></span>
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249
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276
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<pre style="margin: 0;"> <span id="LC276" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*070222 much of this not yet implemented*/</span></span>
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250
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<pre style="margin: 0;">-<span id="LC250" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">Lhelpout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Ltestout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Lchangesout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Lnewfile</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="251" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<td class="diff-line-num new new_line" data-linenumber="277" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
277
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<pre style="margin: 0;">+<span id="LC277" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LaltIDfield</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">LNptIDfields</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">Luseincorrect</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/* added to check is both altID and pointID are specified - S.J. 01/07/2014*/</span></span>
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278
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<pre style="margin: 0;">+<span id="LC278" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span> <span class="n" style="color: #333;">Lhelpout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Ltestout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Lchangesout</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Lnewfile</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">Luseincorrect</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/* added Luseincorrect check S.J. 01/07/2014*/</span></span>
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251
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279
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<pre style="margin: 0;"> <span id="LC279" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">LOK</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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252
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280
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<pre style="margin: 0;"> <span id="LC280" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">);</span></span>
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253
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281
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<pre style="margin: 0;"> <span id="LC281" class="line" lang="c"><span class="p">}</span></span>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#2fab2120f04e82f753d96ca847a66e6d1e917a5c"><strong>suiteninit.h</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* suiteninit.h */</span></span>
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2
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2
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* suitename.h MAXBINS 14 1--12 named bins, bin 0 triaged, bin 13 incomplete*/</span></span>
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3
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3
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* suitename.h MAXCLST 16 practical, <observed, limit of clusters in a bin*/</span></span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*clst indexed from 1: bin 33p had 10, index to 11, <span class="idiff left right">as of 070428 </span>*/</span></span>
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*clst indexed from 1: bin 33p had 10, index to 11, <span class="idiff left right">070428, +1 070919</span>*/</span></span>
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5
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define MAXSAT 12 </span><span class="cm" style="color: #998; font-style: italic;">/*maximun number of all satellite clusters, 9 as of 070429*/</span></span>
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6
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6
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef SUITENINIT</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="117" style="width: 35px; color: rgba(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">@@ -117,6 +117,8 @@ struct bindefinition bin[MAXBINS] =</td>
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117
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117
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="c"> <span class="mi" style="color: #099;">180</span><span class="p">,</span> <span class="mi" style="color: #099;">085</span><span class="p">.</span><span class="mi" style="color: #099;">295</span><span class="p">,</span> <span class="mi" style="color: #099;">244</span><span class="p">.</span><span class="mi" style="color: #099;">085</span><span class="p">,</span> <span class="mi" style="color: #099;">203</span><span class="p">.</span><span class="mi" style="color: #099;">815</span><span class="p">,</span> <span class="mo" style="color: #099;">065</span><span class="p">.</span><span class="mi" style="color: #099;">880</span><span class="p">,</span> <span class="mi" style="color: #099;">181</span><span class="p">.</span><span class="mi" style="color: #099;">130</span><span class="p">,</span> <span class="mo" style="color: #099;">054</span><span class="p">.</span><span class="mi" style="color: #099;">680</span><span class="p">,</span> <span class="mi" style="color: #099;">086</span><span class="p">.</span><span class="mo" style="color: #099;">035</span> <span class="p">,</span><span class="mi" style="color: #099;">180</span><span class="p">},</span></span>
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118
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118
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<pre style="margin: 0;"> <span id="LC118" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/* 11 */</span> <span class="s" style="color: #d14;">"5d"</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"certain"</span><span class="p">,</span> <span class="s" style="color: #d14;">"yellow "</span><span class="p">,</span> <span class="s" style="color: #d14;">"ord"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span></span>
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<td class="diff-line-num old_line" data-linenumber="119" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
119
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<td class="diff-line-num new_line" data-linenumber="119" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
119
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="c"> <span class="mi" style="color: #099;">180</span><span class="p">,</span> <span class="mo" style="color: #099;">07</span><span class="mi" style="color: #099;">9</span><span class="p">.</span><span class="mi" style="color: #099;">671</span><span class="p">,</span> <span class="mi" style="color: #099;">202</span><span class="p">.</span><span class="mi" style="color: #099;">471</span><span class="p">,</span> <span class="mo" style="color: #099;">063</span><span class="p">.</span><span class="mo" style="color: #099;">064</span><span class="p">,</span> <span class="mo" style="color: #099;">06</span><span class="mi" style="color: #099;">8</span><span class="p">.</span><span class="mi" style="color: #099;">164</span><span class="p">,</span> <span class="mi" style="color: #099;">143</span><span class="p">.</span><span class="mi" style="color: #099;">450</span><span class="p">,</span> <span class="mo" style="color: #099;">04</span><span class="mi" style="color: #099;">9</span><span class="p">.</span><span class="mi" style="color: #099;">664</span><span class="p">,</span> <span class="mi" style="color: #099;">082</span><span class="p">.</span><span class="mi" style="color: #099;">757</span> <span class="p">,</span><span class="mi" style="color: #099;">180</span><span class="p">},</span></span>
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120
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/* 12 */</span> <span class="s" style="color: #d14;">"3g"</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="s" style="color: #d14;">"wannabe"</span><span class="p">,</span> <span class="s" style="color: #d14;">"gray "</span><span class="p">,</span> <span class="s" style="color: #d14;">"ord"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span></span>
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121
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<pre style="margin: 0;">+<span id="LC121" class="line" lang="c"> <span class="mi" style="color: #099;">180</span><span class="p">,</span> <span class="mi" style="color: #099;">084</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mi" style="color: #099;">195</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mi" style="color: #099;">146</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mi" style="color: #099;">170</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mi" style="color: #099;">170</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mo" style="color: #099;">052</span><span class="p">.</span><span class="mo" style="color: #099;">000</span><span class="p">,</span> <span class="mi" style="color: #099;">084</span><span class="p">.</span><span class="mo" style="color: #099;">000</span> <span class="p">,</span><span class="mi" style="color: #099;">180</span><span class="p">},</span></span>
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120
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122
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<pre style="margin: 0;"> <span id="LC122" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/* N */</span> <span class="s" style="color: #d14;">"!!"</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="s" style="color: #d14;">"nothing"</span><span class="p">,</span> <span class="s" style="color: #d14;">"white "</span><span class="p">,</span> <span class="s" style="color: #d14;">"out"</span><span class="p">,</span> <span class="nb" style="color: #0086b3;">NULL</span><span class="p">,</span></span>
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121
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123
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<pre style="margin: 0;"> <span id="LC123" 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 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 class="mi" style="color: #099;">0</span> <span class="p">}</span> <span class="cm" style="color: #998; font-style: italic;">/*trailing cluster with LOK==0*/</span></span>
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122
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124
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<pre style="margin: 0;"> <span id="LC124" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="358" style="width: 35px; color: rgba(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">@@ -358,8 +360,8 @@ extern float zetamin , zetamax ;</td>
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358
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<pre style="margin: 0;"> <span id="LC360" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef DEFINITIONS</span></span>
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359
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361
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<pre style="margin: 0;"> <span id="LC361" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">axeslimitsversion</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span> <span class="s" style="color: #d14;">"070326"</span><span class="p">;</span> </span>
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360
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362
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<pre style="margin: 0;"> <span id="LC362" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">epsilonmin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">155</span><span class="p">,</span> <span class="n" style="color: #333;">epsilonmax</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">310</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*070130*/</span></span>
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361
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<pre style="margin: 0;">-<span id="LC361" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">delta3min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;"><span class="idiff left">55</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">delta3max</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">110</span></span><span class="p"><span class="idiff right">;</span></span></span>
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362
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<pre style="margin: 0;">-<span id="LC362" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">delta2min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">12<span class="idiff left">0</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">delta2max</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">17</span>5</span><span class="p">;</span></span>
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363
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<pre style="margin: 0;">+<span id="LC363" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">delta3min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;"><span class="idiff left">60</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">delta3max</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">105</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* changed by S.J. on 06/06/2011 */</span></span></span>
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364
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<pre style="margin: 0;">+<span id="LC364" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">delta2min</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">12<span class="idiff left">5</span></span><span class="p"><span class="idiff">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">delta2max</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff right">16</span>5</span><span class="p">;</span></span>
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363
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365
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<pre style="margin: 0;"> <span id="LC365" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">gammapmin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">20</span><span class="p">,</span> <span class="n" style="color: #333;">gammapmax</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">95</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*max 070326*/</span></span>
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364
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366
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<pre style="margin: 0;"> <span id="LC366" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">gammatmin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">140</span><span class="p">,</span> <span class="n" style="color: #333;">gammatmax</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">215</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*max 070326*/</span></span>
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365
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367
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<pre style="margin: 0;"> <span id="LC367" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">gammammin</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">260</span><span class="p">,</span> <span class="n" style="color: #333;">gammammax</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">335</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*max 070326*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="381" style="width: 35px; color: rgba(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">@@ -381,11 +383,11 @@ SUITENINIT int dominate[13], satellites[13][4];</td>
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381
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383
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<pre style="margin: 0;"> <span id="LC383" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">clusterav</span><span class="p">[</span><span class="mi" style="color: #099;">13</span><span class="p">][</span><span class="n" style="color: #333;">MAXCLST</span><span class="p">][</span><span class="mi" style="color: #099;">8</span><span class="p">];</span></span>
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382
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384
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<pre style="margin: 0;"> <span id="LC384" class="line" lang="c"></span>
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383
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385
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<pre style="margin: 0;"> <span id="LC385" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*flags*/</span></span>
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384
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<pre style="margin: 0;">-<span id="LC384" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lsuitesin</span><span class="p">,</span><span class="n" style="color: #333;">Lresiduesin</span><span class="p">,</span><span class="n" style="color: #333;">NptIDfields</span><span class="p">,</span><span class="n" style="color: #333;">Nanglefields</span><span class="p">,</span><span class="n" style="color: #333;">Lnewfile</span><span class="p"><span class="idiff left right">;</span></span></span>
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<pre style="margin: 0;">-<span id="LC385" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lstringout</span><span class="p">,</span><span class="n" style="color: #333;">Lhelpout</span><span class="p">,</span><span class="n" style="color: #333;">Lchangesout</span><span class="p">,</span><span class="n" style="color: #333;">Lkinemageout</span><span class="p"><span class="idiff left right">;</span></span></span>
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386
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<pre style="margin: 0;">+<span id="LC386" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lsuitesin</span><span class="p">,</span><span class="n" style="color: #333;">Lresiduesin</span><span class="p">,</span><span class="n" style="color: #333;">NptIDfields</span><span class="p">,</span><span class="n" style="color: #333;">Nanglefields</span><span class="p">,</span><span class="n" style="color: #333;">Lnewfile</span><span class="p"><span class="idiff left">,</span></span><span class="n" style="color: #333;"><span class="idiff">altIDfield</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* added altIDfield and altID variable - S.J. 01/07/2014*/</span></span></span>
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387
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<pre style="margin: 0;">+<span id="LC387" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lstringout</span><span class="p">,</span><span class="n" style="color: #333;">Lhelpout</span><span class="p">,</span><span class="n" style="color: #333;">Lchangesout</span><span class="p">,</span><span class="n" style="color: #333;">Lkinemageout</span><span class="p"><span class="idiff left">,</span></span><span class="n" style="color: #333;"><span class="idiff">LNptIDfields</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff">LaltIDfield</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff">Luseincorrect</span></span><span class="p"><span class="idiff">,</span></span><span class="n" style="color: #333;"><span class="idiff">LaltID</span></span><span class="p"><span class="idiff">;</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* added last four variables as flags to check for correct usage of altIDfield - S.J. 01/07/2014*/</span></span></span>
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386
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388
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<pre style="margin: 0;"> <span id="LC388" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lreportout</span><span class="p">,</span><span class="n" style="color: #333;">Ltestout</span><span class="p">;</span> </span>
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387
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<td class="diff-line-num new_line" data-linenumber="389" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
389
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<pre style="margin: 0;"> <span id="LC389" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lchart</span><span class="p">,</span><span class="n" style="color: #333;">Lsourout</span><span class="p">,</span><span class="n" style="color: #333;">Letatheta</span><span class="p">,</span><span class="n" style="color: #333;">Ldangle</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*070521,070524,070525*/</span></span>
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388
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<pre style="margin: 0;">-<span id="LC388" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">NameStr</span><span class="p">[</span><span class="mi" style="color: #099;">256</span><span class="p">]<span class="idiff left right">;</span></span></span>
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390
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<pre style="margin: 0;">+<span id="LC390" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">NameStr</span><span class="p">[</span><span class="mi" style="color: #099;">256</span><span class="p">]<span class="idiff left">,</span></span><span class="n" style="color: #333;"><span class="idiff">altID</span></span><span class="p"><span class="idiff">[</span></span><span class="mi" style="color: #099;"><span class="idiff">2</span></span><span class="p"><span class="idiff">];</span></span><span class="idiff"> </span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* last variable added by S.J. 01/07/2014*/</span></span></span>
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389
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391
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<pre style="margin: 0;"> <span id="LC391" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lsequence</span><span class="p">,</span> <span class="n" style="color: #333;">Loverlap</span><span class="p">,</span> <span class="n" style="color: #333;">Loneline</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*070409*/</span></span>
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390
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392
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<pre style="margin: 0;"> <span id="LC392" class="line" lang="c"><span class="n" style="color: #333;">SUITENINIT</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">Lwannabe</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*070429*/</span></span>
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393
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<pre style="margin: 0;"> <span id="LC393" class="line" lang="c"></span>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#817d4eb779bf402a2df872a94ae666f8ea94f06e"><strong>suiteninpt.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">@@ -7,8 +7,9 @@</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "suiteninit.h"</span></span>
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9
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9
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "suitenscrt.h"</span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include "suitenutil.h" </span></span>
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10
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11
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/****getresidue()*************************************************************/</span></span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/****getresidue()*************************************************************/</span><span class="idiff left right"> </span></span>
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12
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">getresidue</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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13
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="c"><span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">LOK</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -24,7 +25,7 @@ int getresidue(void)</td>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="c"> <span class="n" style="color: #333;">LOK</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">interpretresiduerecord</span><span class="p">();</span></span>
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27
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* ptID: : :alpha:beta:gamma:delta:epsilon:zeta */</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*loads ptID[NptIDfields], angle[6] */</span></span>
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<pre style="margin: 0;">+<span id="LC28" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*loads ptID[NptIDfields], angle[6] */</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LOK</span><span class="p">)</span></span>
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29
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30
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<pre style="margin: 0;"> <span id="LC30" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="c"> <span class="n" style="color: #333;">movenewtooldresidue</span><span class="p">();</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="63" style="width: 35px; color: rgba(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">@@ -63,7 +64,7 @@ int loadsuite(void)</td>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="c"> <span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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66
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><=</span><span class="n" style="color: #333;">NptIDfields</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><=</span><span class="n" style="color: #333;">NptIDfields</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;"> <span id="LC68" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC69" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;"><</span><span class="mi" style="color: #099;">32</span><span class="p">;</span> <span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC70" class="line" lang="c"> <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">@@ -95,7 +96,7 @@ int movenewtooldresidue(void)</td>
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<pre style="margin: 0;"> <span id="LC96" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"> <span class="n" style="color: #333;">strcpy</span><span class="p">(</span><span class="n" style="color: #333;">oldresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">],</span><span class="n" style="color: #333;">newresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]);</span></span>
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="p">}</span></span>
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98
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="c"> <span class="n" style="color: #333;">oldresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">],</span><span class="n" style="color: #333;">newresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">];</span> <span class="cm" style="color: #998; font-style: italic;">/*070412*/</span></span>
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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;"><span class="idiff left right">//</span>oldresidueptr->basechr[0],newresidueptr->basechr[0]; /*070412*/</span></span>
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99
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100
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<pre style="margin: 0;"> <span id="LC100" class="line" lang="c"> <span class="n" style="color: #333;">oldresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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100
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101
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<pre style="margin: 0;"> <span id="LC101" class="line" lang="c"> <span class="n" style="color: #333;">oldresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">alpha</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">newresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">alpha</span><span class="p">;</span></span>
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101
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102
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<pre style="margin: 0;"> <span id="LC102" class="line" lang="c"> <span class="n" style="color: #333;">oldresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">beta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">newresidueptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">beta</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="114" style="width: 35px; color: rgba(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="115" style="width: 35px; color: rgba(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">@@ -114,7 +115,7 @@ void printresidue(char* type)</td>
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114
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115
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<pre style="margin: 0;"> <span id="LC115" class="line" lang="c"> <span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">residuestruct</span><span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">theresidueptr</span><span class="p">;</span></span>
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115
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116
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<pre style="margin: 0;"> <span id="LC116" class="line" lang="c"></span>
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116
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117
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<pre style="margin: 0;"> <span id="LC117" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">type</span><span class="p">,</span><span class="s" style="color: #d14;">"old"</span><span class="p">)</span><span class="o" style="font-weight: 600;">==</span><span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">theresidueptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">oldresidueptr</span><span class="p">;}</span></span>
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117
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">theresidueptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">newresidueptr</span><span class="p">;}</span><span class="idiff left right"> </span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">theresidueptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">newresidueptr</span><span class="p">;}</span></span>
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118
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<pre style="margin: 0;"> <span id="LC119" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"%s "</span><span class="p">,</span><span class="n" style="color: #333;">type</span><span class="p">);</span></span>
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119
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120
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<pre style="margin: 0;"> <span id="LC120" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span><span class="p">(</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;"><=</span><span class="n" style="color: #333;">NptIDfields</span><span class="p">;</span> <span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">++</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="c"> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="180" style="width: 35px; color: rgba(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="181" style="width: 35px; color: rgba(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">@@ -180,7 +181,7 @@ int loadnewresidue(void)</td>
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180
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181
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*___loadnewresidue()________________________________________________________*/</span></span>
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181
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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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183
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<pre style="margin: 0;"> <span id="LC183" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/****interpretdanglerecord()**************************************************/</span></span>
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">interpretdanglerecord</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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184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="nf" style="color: #900; font-weight: 600;">interpretdanglerecord</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">void</span><span class="p">)</span><span class="idiff left right"> </span></span>
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184
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185
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<pre style="margin: 0;"> <span id="LC185" class="line" lang="c"><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="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">j</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">n</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">ns</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">nan</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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186
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">numstr</span><span class="p">[</span><span class="mi" style="color: #099;">256</span><span class="p">];</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="204" style="width: 35px; color: rgba(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">@@ -204,12 +205,12 @@ int interpretdanglerecord(void)</td>
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204
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205
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="c"> <span class="p">{</span></span>
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205
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206
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<pre style="margin: 0;"> <span id="LC206" class="line" lang="c"> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">ns</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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206
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207
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<pre style="margin: 0;"> <span id="LC207" class="line" lang="c"> <span class="p">}</span></span>
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207
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<pre style="margin: 0;">-<span id="LC207" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">NptIDfields</span><span class="p">)</span><span class="idiff left right"> </span></span>
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208
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<pre style="margin: 0;">+<span id="LC208" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">NptIDfields</span><span class="p">)</span></span>
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208
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209
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<pre style="margin: 0;"> <span id="LC209" class="line" lang="c"> <span class="p">{</span></span>
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209
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210
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<pre style="margin: 0;"> <span id="LC210" class="line" lang="c"> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">k</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*overwrite last : character*/</span></span>
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210
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211
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<pre style="margin: 0;"> <span id="LC211" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*so last char of last field is a Base name char*/</span></span>
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211
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212
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<pre style="margin: 0;"> <span id="LC212" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*and this last field is the full 3char Base name*/</span></span>
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212
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<pre style="margin: 0;">-<span id="LC212" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span><span class="idiff left right"> </span></span>
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213
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<pre style="margin: 0;">+<span id="LC213" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span></span>
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213
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214
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<pre style="margin: 0;"> <span id="LC214" class="line" lang="c"> <span class="p">{</span> <span class="cm" style="color: #998; font-style: italic;">/*interpret as Base name --> 1char 070412 */</span></span>
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214
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215
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<pre style="margin: 0;"> <span id="LC215" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">strstr</span><span class="p">(</span><span class="n" style="color: #333;">NAListA</span><span class="p">,</span> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]))</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'A'</span><span class="p">;}</span></span>
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215
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216
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strstr</span><span class="p">(</span><span class="n" style="color: #333;">NAListG</span><span class="p">,</span> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]))</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'G'</span><span class="p">;}</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="220" style="width: 35px; color: rgba(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="221" style="width: 35px; color: rgba(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">@@ -220,7 +221,7 @@ int interpretdanglerecord(void)</td>
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220
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221
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<pre style="margin: 0;"> <span id="LC221" class="line" lang="c"> <span class="p">}</span></span>
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221
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222
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<pre style="margin: 0;"> <span id="LC222" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'Z'</span><span class="p">;}</span></span>
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222
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<pre style="margin: 0;"> <span id="LC223" class="line" lang="c"> <span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC223" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC225" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/* not overwrite : character*/</span></span>
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*reset for another field*/</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">@@ -278,12 +279,16 @@ int interpretresiduerecord(void)</td>
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<pre style="margin: 0;"> <span id="LC279" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC280" class="line" lang="c"> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">i</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">ns</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<pre style="margin: 0;"> <span id="LC281" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC281" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">NptIDfields</span><span class="p">)</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC282" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">NptIDfields</span><span class="p">)</span></span>
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<pre style="margin: 0;"> <span id="LC283" class="line" lang="c"> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC284" class="line" lang="c"> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">k</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span> <span class="cm" style="color: #998; font-style: italic;">/*overwrite last : character*/</span></span>
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<pre style="margin: 0;"> <span id="LC285" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*so last char of last field is a Base name char*/</span></span>
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<pre style="margin: 0;"> <span id="LC286" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*and this last field is the full 3char Base name*/</span></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">3</span><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;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">],</span><span class="s" style="color: #d14;">" DA"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">],</span><span class="s" style="color: #d14;">" DG"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">],</span><span class="s" style="color: #d14;">" DC"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">],</span><span class="s" style="color: #d14;">" DT"</span><span class="p">))</span> <span class="c1" style="color: #998; font-style: italic;">// SJ - 09/17/2014 to ignore DNA residues</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="k" style="font-weight: 600;">return</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="LC290" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">+<span id="LC291" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">])</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">3</span><span class="p">)</span></span>
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287
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292
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<pre style="margin: 0;"> <span id="LC292" class="line" lang="c"> <span class="p">{</span> <span class="cm" style="color: #998; font-style: italic;">/*interpret as Base name --> 1char 070412 */</span></span>
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<td class="diff-line-num old_line" data-linenumber="288" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
288
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<td class="diff-line-num new_line" data-linenumber="293" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
293
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<pre style="margin: 0;"> <span id="LC293" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">strstr</span><span class="p">(</span><span class="n" style="color: #333;">NAListA</span><span class="p">,</span> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]))</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'A'</span><span class="p">;}</span></span>
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289
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<td class="diff-line-num new_line" data-linenumber="294" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
294
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<pre style="margin: 0;"> <span id="LC294" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">strstr</span><span class="p">(</span><span class="n" style="color: #333;">NAListG</span><span class="p">,</span> <span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]))</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'G'</span><span class="p">;}</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="299" style="width: 35px; color: rgba(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">@@ -294,7 +299,7 @@ int interpretresiduerecord(void)</td>
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294
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299
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<pre style="margin: 0;"> <span id="LC299" class="line" lang="c"> <span class="p">}</span></span>
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295
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300
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<pre style="margin: 0;"> <span id="LC300" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'Z'</span><span class="p">;}</span></span>
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296
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301
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<pre style="margin: 0;"> <span id="LC301" class="line" lang="c"> <span class="n" style="color: #333;">basechr</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;</span></span>
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297
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<pre style="margin: 0;">-<span id="LC297" class="line" lang="c"> <span class="p">}</span><span class="idiff left right"> </span></span>
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302
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<pre style="margin: 0;">+<span id="LC302" class="line" lang="c"> <span class="p">}</span></span>
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298
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303
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<pre style="margin: 0;"> <span id="LC303" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">][</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/* not overwrite : character*/</span></span>
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299
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304
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<pre style="margin: 0;"> <span id="LC304" class="line" lang="c"> <span class="p">}</span></span>
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305
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<pre style="margin: 0;"> <span id="LC305" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*reset for another field*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="323" style="width: 35px; color: rgba(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="328" style="width: 35px; color: rgba(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">@@ -323,6 +328,13 @@ int interpretresiduerecord(void)</td>
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323
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328
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<pre style="margin: 0;"> <span id="LC328" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'?'</span><span class="p">)</span> <span class="p">{</span><span class="n" style="color: #333;">nan</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/*NOT a number*/</span></span>
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324
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329
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<pre style="margin: 0;"> <span id="LC329" class="line" lang="c"> <span class="p">}</span></span>
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325
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330
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<pre style="margin: 0;"> <span id="LC330" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*loop through inputed line*/</span></span>
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331
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<pre style="margin: 0;">+<span id="LC331" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">LaltIDfield</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* if the altIDfield specified - S.J. 01/07/2014*/</span></span>
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332
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<pre style="margin: 0;">+<span id="LC332" class="line" lang="c"> <span class="p">{</span> </span>
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333
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<pre style="margin: 0;">+<span id="LC333" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">LaltID</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/* if the user has not specified which alt to calculate for, calculate for altA*/</span></span>
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<pre style="margin: 0;">+<span id="LC334" class="line" lang="c"> <span class="n" style="color: #333;">altID</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span><span class="o" style="font-weight: 600;">=</span><span class="sc" style="color: #d14;">'A'</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC335" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">altIDfield</span><span class="p">],</span><span class="n" style="color: #333;">altID</span><span class="p">,</span><span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&&</span> <span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">CompArgStr</span><span class="p">(</span><span class="n" style="color: #333;">ptID</span><span class="p">[</span><span class="n" style="color: #333;">altIDfield</span><span class="p">],</span><span class="s" style="color: #d14;">" "</span><span class="p">,</span><span class="mi" style="color: #099;">1</span><span class="p">))</span> </span>
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<pre style="margin: 0;">+<span id="LC336" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="LC337" class="line" lang="c"> <span class="p">}</span></span>
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338
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<pre style="margin: 0;"> <span id="LC338" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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327
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339
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<pre style="margin: 0;"> <span id="LC339" class="line" lang="c"><span class="p">}</span></span>
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340
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<pre style="margin: 0;"> <span id="LC340" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*___interpretresiduerecord()________________________________________________*/</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="377" style="width: 35px; color: rgba(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="389" style="width: 35px; color: rgba(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">@@ -377,7 +389,7 @@ int interpretsuiterecord(void)</td>
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377
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389
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<pre style="margin: 0;"> <span id="LC389" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/* input character */</span></span>
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378
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390
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<pre style="margin: 0;"> <span id="LC390" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="sc" style="color: #d14;">' '</span><span class="p">)</span> <span class="cm" style="color: #998; font-style: italic;">/*ignore leading blanks*/</span></span>
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379
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391
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<pre style="margin: 0;"> <span id="LC391" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'_'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'?'</span> <span class="p">){</span><span class="n" style="color: #333;">nan</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;}</span> <span class="cm" style="color: #998; font-style: italic;">/*070525*/</span></span>
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380
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<pre style="margin: 0;">-<span id="LC380" class="line" lang="c"> <span class="p">{</span><span class="n" style="color: #333;">numstr</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">++</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">];}</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC392" class="line" lang="c"> <span class="p">{</span><span class="n" style="color: #333;">numstr</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">++</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">texts</span><span class="p">[</span><span class="n" style="color: #333;">j</span><span class="p">];}</span></span>
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381
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<pre style="margin: 0;"> <span id="LC393" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC394" class="line" lang="c"> <span class="p">}</span><span class="cm" style="color: #998; font-style: italic;">/*loop through inputed line*/</span></span>
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383
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395
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<pre style="margin: 0;"> <span id="LC395" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*presume suite kinemage record was intact and good...*/</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="402" style="width: 35px; color: rgba(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">@@ -390,7 +402,7 @@ int interpretsuiterecord(void)</td>
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390
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402
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<pre style="margin: 0;"> <span id="LC402" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ang</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chim</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">angle</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">];</span></span>
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391
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<pre style="margin: 0;"> <span id="LC403" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ang</span><span class="p">[</span><span class="mi" style="color: #099;">8</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chi</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">angle</span><span class="p">[</span><span class="mi" style="color: #099;">7</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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392
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<pre style="margin: 0;"> <span id="LC404" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC393" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC405" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span></span>
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<pre style="margin: 0;"> <span id="LC406" class="line" lang="c"> <span class="p">{</span></span>
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407
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<pre style="margin: 0;"> <span id="LC407" class="line" lang="c"> <span class="n" style="color: #333;">i</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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396
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408
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<pre style="margin: 0;"> <span id="LC408" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ang</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">chim</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">180</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">@@ -404,6 +416,7 @@ int interpretsuiterecord(void)</td>
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416
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<pre style="margin: 0;"> <span id="LC416" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ang</span><span class="p">[</span><span class="mi" style="color: #099;">6</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">gamma</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">angle</span><span class="p">[</span><span class="mi" style="color: #099;">5</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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405
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417
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<pre style="margin: 0;"> <span id="LC417" class="line" lang="c"> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">ang</span><span class="p">[</span><span class="mi" style="color: #099;">7</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">suiteptr</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">delta</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">angle</span><span class="p">[</span><span class="mi" style="color: #099;">6</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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406
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418
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<pre style="margin: 0;"> <span id="LC418" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/*now DO NOT need to loadsuite() */</span></span>
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419
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<pre style="margin: 0;">+<span id="LC419" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
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407
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420
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<pre style="margin: 0;"> <span id="LC420" class="line" lang="c"><span class="p">}</span></span>
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408
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421
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<pre style="margin: 0;"> <span id="LC421" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*___interpretsuiterecord()________________________________________________*/</span></span>
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409
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422
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<pre style="margin: 0;"> <span id="LC422" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="482" style="width: 35px; color: rgba(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">@@ -482,9 +495,9 @@ float floatfromstr(char ins[256])</td>
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495
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<pre style="margin: 0;"> <span id="LC495" class="line" lang="c"></span>
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483
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<pre style="margin: 0;"> <span id="LC496" class="line" lang="c"> <span class="n" style="color: #333;">freturn</span> <span class="o" style="font-weight: 600;">=</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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484
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497
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<pre style="margin: 0;"> <span id="LC497" class="line" lang="c"> <span class="n" style="color: #333;">Lstart</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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485
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<pre style="margin: 0;">-<span id="LC485" class="line" lang="c"> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span><span class="idiff left right"> </span></span>
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498
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<pre style="margin: 0;">+<span id="LC498" class="line" lang="c"> <span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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486
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499
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<pre style="margin: 0;"> <span id="LC499" class="line" lang="c"> <span class="n" style="color: #333;">m</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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487
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<pre style="margin: 0;">-<span id="LC487" class="line" lang="c"> <span class="n" style="color: #333;">OK</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC500" class="line" lang="c"> <span class="n" style="color: #333;">OK</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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488
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501
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<pre style="margin: 0;"> <span id="LC501" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">]</span> <span class="o" style="font-weight: 600;">!=</span> <span class="sc" style="color: #d14;">'\0'</span><span class="p">)</span></span>
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489
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502
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<pre style="margin: 0;"> <span id="LC502" class="line" lang="c"> <span class="p">{</span><span class="cm" style="color: #998; font-style: italic;">/* not zero length C string */</span></span>
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490
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503
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span><span class="p">(</span><span class="n" style="color: #333;">OK</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">@@ -495,7 +508,7 @@ float floatfromstr(char ins[256])</td>
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508
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<pre style="margin: 0;"> <span id="LC508" class="line" lang="c"> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'3'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'4'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'5'</span> <span class="o" style="font-weight: 600;">||</span></span>
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496
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509
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<pre style="margin: 0;"> <span id="LC509" class="line" lang="c"> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'6'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'7'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'8'</span> <span class="o" style="font-weight: 600;">||</span></span>
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497
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510
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<pre style="margin: 0;"> <span id="LC510" class="line" lang="c"> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'9'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'.'</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">]</span> <span class="o" style="font-weight: 600;">==</span> <span class="sc" style="color: #d14;">'-'</span> <span class="p">)</span></span>
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498
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<pre style="margin: 0;">-<span id="LC498" class="line" lang="c"> <span class="p">{</span><span class="idiff left right"> </span></span>
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511
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<pre style="margin: 0;">+<span id="LC511" class="line" lang="c"> <span class="p">{</span></span>
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499
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512
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<pre style="margin: 0;"> <span id="LC512" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">m</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ins</span><span class="p">[</span><span class="n" style="color: #333;">n</span><span class="p">];</span></span>
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500
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513
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<pre style="margin: 0;"> <span id="LC513" class="line" lang="c"> <span class="n" style="color: #333;">m</span><span class="o" style="font-weight: 600;">++</span><span class="p">;</span></span>
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501
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514
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="c"> <span class="n" style="color: #333;">Lstart</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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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#c9e4637ab5159005b43a30b5a79ded7e1d2838f5"><strong>suitenout.c</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="559" style="width: 35px; color: rgba(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="559" style="width: 35px; color: rgba(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">@@ -559,6 +559,8 @@ void usageout(void) /* -h -help */</td>
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559
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559
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<pre style="margin: 0;"> <span id="LC559" class="line" lang="c"> <span class="s" style="color: #d14;">"dangle </span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;">alpha, beta, gamma, delta, epsilon, zeta</span><span class="se" style="color: #d14;">\"</span><span class="s" style="color: #d14;"> in.pdb >out.dngl</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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560
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560
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<pre style="margin: 0;"> <span id="LC560" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span></span>
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561
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561
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<pre style="margin: 0;"> <span id="LC561" class="line" lang="c"> <span class="s" style="color: #d14;">"label:model:chain:number:ins:type:alpha:beta:gamma:delta:epsilon:zeta</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="562" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
562
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<pre style="margin: 0;">+<span id="LC562" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"if the file has alternate conformations, then use both -pointIDfields # -altIDfield # to specify the number of pointID fields and which field contains the altID</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span> <span class="cm" style="color: #998; font-style: italic;">/* S.J. 01/07/2014*/</span></span>
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563
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<pre style="margin: 0;">+<span id="LC563" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"use -altIDval <altID> to specify which alternate conformation to calculate suite for. By default calculated for alt A</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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562
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<td class="diff-line-num new_line" data-linenumber="564" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
564
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<pre style="margin: 0;"> <span id="LC564" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"-suitein presumes point records from a kinemage</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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563
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565
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<pre style="margin: 0;"> <span id="LC565" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span><span class="s" style="color: #d14;">"{pointID} 7 or 9 anglefields </span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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564
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566
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<pre style="margin: 0;"> <span id="LC566" class="line" lang="c"> <span class="n" style="color: #333;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span></span>
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<a href="https://salsa.debian.org/med-team/suitename/-/commit/dd932622929d6adfd716acbd5f4e6ddaaad75683#c64cb2a6b6e86d55eb0a237e27e0e3e7b101f7e9"><strong>suitenutil.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">@@ -66,7 +66,8 @@ float dotproduct(float* first, float* secnd, int nang)</td>
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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="n" style="color: #333;">k</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">kmin</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">0</span><span class="p">,</span><span class="n" style="color: #333;">kmax</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="LC67" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">float</span> <span class="n" style="color: #333;">answer</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="LC68" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">nang</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">4</span><span class="p">){</span><span class="n" style="color: #333;">kmin</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">;</span> <span class="n" style="color: #333;">kmax</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">;}</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">//if(nang = 4){kmin=2; kmax=5;}</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span><span class="p">(</span><span class="n" style="color: #333;">nang</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">4</span><span class="p">){</span><span class="n" style="color: #333;">kmin</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">2</span><span class="p">;</span> <span class="n" style="color: #333;">kmax</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">5</span><span class="p">;}</span></span>
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<pre style="margin: 0;"> <span id="LC71" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span><span class="n" style="color: #333;">kmin</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="n" style="color: #333;">kmax</span><span class="o" style="font-weight: 600;">=</span><span class="mi" style="color: #099;">7</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="n" style="color: #333;">answer</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -76,7 +77,7 @@ float dotproduct(float* first, float* secnd, int nang)</td>
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<pre style="margin: 0;"> <span id="LC77" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* deltam epsilon zeta alpha beta gamma delta */</span></span>
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<pre style="margin: 0;"> <span id="LC78" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* X X X */</span></span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* X not used in 4 angle calc*/</span></span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC80" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC81" class="line" lang="c"> <span class="n" style="color: #333;">answer</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">answer</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">(</span><span class="n" style="color: #333;">first</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">secnd</span><span class="p">[</span><span class="n" style="color: #333;">k</span><span class="p">]);</span></span>
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<pre style="margin: 0;"> <span id="LC82" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC83" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span><span class="p">(</span><span class="n" style="color: #333;">answer</span><span class="p">);</span></span>
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