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<h3>
Dylan Aïssi pushed to branch master
at <a href="https://salsa.debian.org/med-team/plink1-9">Debian Med / plink1.9</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/plink1-9/commit/c271b7120130264bec30497d86ec7780fbb88a91">c271b712</a></strong>
<div>
<span>by Dylan Aïssi</span>
<i>at 2018-04-22T00:50:05+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.90~b5.4-180410</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/plink1-9/commit/01b9b3e270418698bd66b9996dd4cd8b5aee9408">01b9b3e2</a></strong>
<div>
<span>by Dylan Aïssi</span>
<i>at 2018-04-22T00:50:09+02:00</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Merge tag 'upstream/1.90_b5.4-180410'
Upstream version 1.90~b5.4-180410
</pre>
</li>
</ul>
<h4>6 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#51f8eb620082fc9790d42dd3edff7bdbfdef0bfb">
plink.c
</a>
</li>
<li class="file-stats">
<a href="#60ba2e8c9bebd9c7595f0590d0e02b4dac6e4a69">
plink_assoc.c
</a>
</li>
<li class="file-stats">
<a href="#f101da6685d6d3284ff66b606e058f55eebde6b7">
plink_data.c
</a>
</li>
<li class="file-stats">
<a href="#2247078d3acb03afff65f7427a390c544d3a2200">
plink_family.c
</a>
</li>
<li class="file-stats">
<a href="#faf97f9bea161b0e5da5eb07694fa31a6450cec2">
plink_help.c
</a>
</li>
<li class="file-stats">
<a href="#3594a0b72388118816a0f72cc6ffb298103a82fa">
sisocks.h
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="51f8eb620082fc9790d42dd3edff7bdbfdef0bfb">
<a href="https://salsa.debian.org/med-team/plink1-9/compare/caee70d9c7dbb4182e258c36526a41ec825f742c...01b9b3e270418698bd66b9996dd4cd8b5aee9408#51f8eb620082fc9790d42dd3edff7bdbfdef0bfb"><strong>plink.c</strong></a>
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<td class="diff-line-num unfold js-unfold 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">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -93,7 +93,7 @@</td>
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<pre style="margin: 0;"> <span id="LC93" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
94
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">ver_str</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span></span>
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<td class="diff-line-num old_line" data-linenumber="95" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef STABLE_BUILD</span></span>
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96
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90b5.<span class="idiff left right">3</span>"</span></span>
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<td class="diff-line-num new old_line" data-linenumber="97" style="width: 35px; color: rgba(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="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
96
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<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC96" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90b5.<span class="idiff left right">4</span>"</span></span>
</pre>
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<td class="diff-line-num old_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">
97
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<td class="diff-line-num 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">
97
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<pre style="margin: 0;"> <span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<td class="diff-line-num old_line" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
98
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<td class="diff-line-num new_line" data-linenumber="98" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC98" class="line" lang="c"> <span class="s" style="color: #d14;">"PLINK v1.90p"</span></span>
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<td class="diff-line-num old_line" data-linenumber="99" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="99" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
99
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<pre style="margin: 0;"> <span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="105" style="width: 35px; color: rgba(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="105" style="width: 35px; color: rgba(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">@@ -105,7 +105,7 @@ static const char ver_str[] =</td>
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<pre style="margin: 0;"> <span id="LC105" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;"> <span id="LC106" class="line" lang="c"> <span class="s" style="color: #d14;">" 32-bit"</span></span>
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<pre style="margin: 0;"> <span id="LC107" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="c"> <span class="s" style="color: #d14;">" (<span class="idiff left right">21 Feb</span> 2018)"</span><span class="p">;</span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="c"> <span class="s" style="color: #d14;">" (<span class="idiff left right">10 Apr</span> 2018)"</span><span class="p">;</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;">static</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">ver_str2</span><span class="p">[]</span> <span class="o" style="font-weight: 600;">=</span></span>
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// include leading space if day < 10, so character length stays the same</span></span>
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111
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111
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="c"> <span class="s" style="color: #d14;">""</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="12801" style="width: 35px; color: rgba(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="12801" style="width: 35px; color: rgba(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">@@ -12801,7 +12801,8 @@ int32_t main(int32_t argc, char** argv) {</td>
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12801
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12801
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<pre style="margin: 0;"> <span id="LC12801" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">enforce_param_ct_range</span><span class="p">(</span><span class="n" style="color: #333;">param_ct</span><span class="p">,</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">cur_arg</span><span class="p">],</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">))</span> <span class="p">{</span></span>
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12802
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<pre style="margin: 0;"> <span id="LC12802" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">main_ret_INVALID_CMDLINE_2A</span><span class="p">;</span></span>
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12803
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12803
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<pre style="margin: 0;"> <span id="LC12803" class="line" lang="c"> <span class="p">}</span></span>
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12804
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<pre style="margin: 0;">-<span id="LC12804" class="line" lang="c"> <span class="n" style="color: #333;">retval</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">alloc_fname</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">cluster</span><span class="p">.</span><span class="n" style="color: #333;">zerofname</span><span class="p">,</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">cur_arg</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">uii</span><span class="p">],</span> <span class="n" style="color: #333;">argptr</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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12804
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<pre style="margin: 0;">+<span id="LC12804" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// bugfix (9 Apr 2018): had wrong array index</span></span>
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12805
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<pre style="margin: 0;">+<span id="LC12805" class="line" lang="c"> <span class="n" style="color: #333;">retval</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">alloc_fname</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">cluster</span><span class="p">.</span><span class="n" style="color: #333;">zerofname</span><span class="p">,</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">cur_arg</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;">argptr</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">);</span></span>
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12805
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12806
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<pre style="margin: 0;"> <span id="LC12806" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">retval</span><span class="p">)</span> <span class="p">{</span></span>
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12806
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12807
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<pre style="margin: 0;"> <span id="LC12807" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">main_ret_1</span><span class="p">;</span></span>
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12807
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12808
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<pre style="margin: 0;"> <span id="LC12808" class="line" lang="c"> <span class="p">}</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/compare/caee70d9c7dbb4182e258c36526a41ec825f742c...01b9b3e270418698bd66b9996dd4cd8b5aee9408#60ba2e8c9bebd9c7595f0590d0e02b4dac6e4a69"><strong>plink_assoc.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">@@ -532,7 +532,9 @@ int32_t multcomp(char* outname, char* outname_end, uint32_t* marker_uidxs, uintp</td>
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532
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<pre style="margin: 0;"> <span id="LC532" class="line" lang="c"> <span class="n" style="color: #333;">adjust_print_log10</span><span class="p">(</span><span class="n" style="color: #333;">pv_gc</span><span class="p">[</span><span class="n" style="color: #333;">cur_idx</span><span class="p">],</span> <span class="n" style="color: #333;">output_min_p</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_str</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_strlen</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bufptr</span><span class="p">);</span></span>
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533
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<pre style="margin: 0;"> <span id="LC533" class="line" lang="c"> <span class="p">}</span></span>
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534
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534
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<pre style="margin: 0;"> <span id="LC534" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">qq_plot</span><span class="p">)</span> <span class="p">{</span></span>
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535
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<pre style="margin: 0;">-<span id="LC535" class="line" lang="c"> <span class="n" style="color: #333;">bufptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dtoa_g_wxp4x</span><span class="p">((((</span><span class="kt" style="color: #458; font-weight: 600;">double</span><span class="p">)((</span><span class="kt" style="color: #458; font-weight: 600;">int32_t</span><span class="p">)</span><span class="n" style="color: #333;">cur_idx</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="mi" style="color: #099;">5</span><span class="p">)</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dzz</span><span class="p">,</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="sc" style="color: #d14;">' '</span><span class="p">,</span> <span class="n" style="color: #333;">bufptr</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC535" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// quasi-bugfix (23 Mar 2018): this should be logscale, both for</span></span>
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536
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<pre style="margin: 0;">+<span id="LC536" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// consistency with plink 1.07 and because it makes more sense</span></span>
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<pre style="margin: 0;">+<span id="LC537" class="line" lang="c"> <span class="n" style="color: #333;">bufptr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">dtoa_g_wxp4x</span><span class="p">(</span><span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">log10</span><span class="p">((((</span><span class="kt" style="color: #458; font-weight: 600;">double</span><span class="p">)((</span><span class="kt" style="color: #458; font-weight: 600;">int32_t</span><span class="p">)</span><span class="n" style="color: #333;">cur_idx</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="mi" style="color: #099;">5</span><span class="p">)</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">dzz</span><span class="p">),</span> <span class="mi" style="color: #099;">10</span><span class="p">,</span> <span class="sc" style="color: #d14;">' '</span><span class="p">,</span> <span class="n" style="color: #333;">bufptr</span><span class="p">);</span></span>
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536
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538
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<pre style="margin: 0;"> <span id="LC538" class="line" lang="c"> <span class="p">}</span></span>
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537
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539
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<pre style="margin: 0;"> <span id="LC539" class="line" lang="c"> <span class="n" style="color: #333;">adjust_print_log10</span><span class="p">(</span><span class="n" style="color: #333;">bonf</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_str</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_strlen</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bufptr</span><span class="p">);</span></span>
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538
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540
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<pre style="margin: 0;"> <span id="LC540" class="line" lang="c"> <span class="n" style="color: #333;">adjust_print_log10</span><span class="p">(</span><span class="n" style="color: #333;">pv_holm</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_str</span><span class="p">,</span> <span class="n" style="color: #333;">output_min_p_strlen</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">bufptr</span><span class="p">);</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/compare/caee70d9c7dbb4182e258c36526a41ec825f742c...01b9b3e270418698bd66b9996dd4cd8b5aee9408#f101da6685d6d3284ff66b606e058f55eebde6b7"><strong>plink_data.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">@@ -4621,11 +4621,11 @@ int32_t oxford_to_bed(char* genname, char* samplename, char* outname, char* outn</td>
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4621
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<pre style="margin: 0;"> <span id="LC4621" class="line" lang="c"> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">layout</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">uii</span> <span class="o" style="font-weight: 600;">>></span> <span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&</span> <span class="mi" style="color: #099;">15</span><span class="p">;</span></span>
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4622
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4622
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<pre style="margin: 0;"> <span id="LC4622" class="line" lang="c"> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">compression_mode</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">uii</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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4623
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4623
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<pre style="margin: 0;"> <span id="LC4623" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">((</span><span class="n" style="color: #333;">layout</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="o" style="font-weight: 600;">&&</span> <span class="p">(</span><span class="n" style="color: #333;">compression_mode</span> <span class="o" style="font-weight: 600;">!=</span> <span class="mi" style="color: #099;">3</span><span class="p">))</span> <span class="p">{</span></span>
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4624
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<pre style="margin: 0;">-<span id="LC4624" class="line" lang="c"> <span class="n" style="color: #333;">LOGERRPRINTF</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: BGEN v1.%c input requires PLINK 2.0 (under development as of this</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">writing). Use <span class="idiff left">gen-convert to downcode to BGEN v1.1 if you want to process this</span></span><span class="se" style="color: #d14;"><span class="idiff right">\n</span></span><span class="s" style="color: #d14;">data with PLINK 1.9.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">compression_mode</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">2</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="sc" style="color: #d14;">'2'</span><span class="p">);</span></span>
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4624
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<pre style="margin: 0;">+<span id="LC4624" class="line" lang="c"> <span class="n" style="color: #333;">LOGERRPRINTF</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: BGEN v1.%c input requires PLINK 2.0 (under development as of this</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">writing). Use <span class="idiff left">qctool2 or bgenix to downcode to BGEN v1.1 if you want to</span></span><span class="se" style="color: #d14;"><span class="idiff">\n</span></span><span class="s" style="color: #d14;"><span class="idiff right">process this </span>data with PLINK 1.9.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">,</span> <span class="p">(</span><span class="n" style="color: #333;">compression_mode</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">2</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="sc" style="color: #d14;">'2'</span><span class="p">);</span></span>
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4625
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4625
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<pre style="margin: 0;"> <span id="LC4625" class="line" lang="c"> <span class="p">}</span> <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;">layout</span> <span class="o" style="font-weight: 600;">></span> <span class="mi" style="color: #099;">2</span><span class="p">)</span> <span class="p">{</span></span>
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4626
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<td class="diff-line-num new_line old" data-linenumber="4626" style="width: 35px; color: rgba(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="LC4626" class="line" lang="c"> <span class="n" style="color: #333;">logerrprint</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: Unrecognized BGEN version. Use <span class="idiff left">gen-convert or a similar tool to</span></span><span class="se" style="color: #d14;"><span class="idiff">\n</span></span><span class="s" style="color: #d14;"><span class="idiff right">downcode to </span>BGEN v1.1 if you want to process this data with PLINK 1.9.</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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<pre style="margin: 0;">+<span id="LC4626" class="line" lang="c"> <span class="n" style="color: #333;">logerrprint</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: Unrecognized BGEN version. Use <span class="idiff left">bgenix or a similar tool to downcode to</span></span><span class="se" style="color: #d14;"><span class="idiff right">\n</span></span><span class="s" style="color: #d14;">BGEN v1.1 if you want to process this data with PLINK 1.9.</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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4627
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<pre style="margin: 0;"> <span id="LC4627" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
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4628
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<td class="diff-line-num new_line old" data-linenumber="4628" style="width: 35px; color: rgba(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="LC4628" class="line" lang="c"> <span class="n" style="color: #333;">logerrprint</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: Unrecognized flags in .bgen header. (PLINK 1.9 only supports</span><span class="se" style="color: #d14;"><span class="idiff left">\n</span></span><span class="s" style="color: #d14;"><span class="idiff right">BGEN v1.0 </span>and v1.1.)</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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<pre style="margin: 0;">+<span id="LC4628" class="line" lang="c"> <span class="n" style="color: #333;">logerrprint</span><span class="p">(</span><span class="s" style="color: #d14;">"Error: Unrecognized flags in .bgen header. (PLINK 1.9 only supports<span class="idiff left"> BGEN v1.0</span></span><span class="se" style="color: #d14;"><span class="idiff right">\n</span></span><span class="s" style="color: #d14;">and v1.1.)</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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<pre style="margin: 0;"> <span id="LC4629" class="line" lang="c"> <span class="p">}</span></span>
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4630
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<pre style="margin: 0;"> <span id="LC4630" class="line" lang="c"> <span class="k" style="font-weight: 600;">goto</span> <span class="n" style="color: #333;">oxford_to_bed_ret_INVALID_FORMAT</span><span class="p">;</span></span>
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4631
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<pre style="margin: 0;"> <span id="LC4631" class="line" lang="c"> <span class="p">}</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/compare/caee70d9c7dbb4182e258c36526a41ec825f742c...01b9b3e270418698bd66b9996dd4cd8b5aee9408#2247078d3acb03afff65f7427a390c544d3a2200"><strong>plink_family.c</strong></a>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="509" style="width: 35px; color: rgba(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">@@ -509,12 +509,14 @@ uint32_t erase_mendel_errors(uintptr_t unfiltered_sample_ct, uintptr_t* loadbuf,</td>
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<pre style="margin: 0;"> <span id="LC509" class="line" lang="c"> <span class="n" style="color: #333;">unn</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">uii</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC510" class="line" lang="c"> <span class="n" style="color: #333;">uoo</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ujj</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="c"> <span class="n" style="color: #333;">upp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ukk</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC512" class="line" lang="c"> <span class="n" style="color: #333;"><span class="idiff left right">uii</span></span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">uii</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC512" class="line" lang="c"> <span class="k" style="font-weight: 600;"><span class="idiff left">const</span></span><span class="idiff"> </span><span class="kt" style="color: #458; font-weight: 600;"><span class="idiff">uint32_t</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff right">uqq</span></span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">uii</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC513" class="line" lang="c"> <span class="n" style="color: #333;">ujj</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">ujj</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC514" class="line" lang="c"> <span class="n" style="color: #333;">ukk</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="p">(</span><span class="n" style="color: #333;">ukk</span> <span class="o" style="font-weight: 600;">%</span> <span class="n" style="color: #333;">BITCT2</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC515" class="line" lang="c"> <span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">u<span class="idiff left right">ii</span></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="LC515" class="line" lang="c"> <span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">u<span class="idiff left right">qq</span></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="LC516" class="line" lang="c"> <span class="n" style="color: #333;">uljj</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">((</span><span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">uoo</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">ujj</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="o" style="font-weight: 600;">|</span> <span class="p">(((</span><span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">upp</span><span class="p">]</span> <span class="o" style="font-weight: 600;">>></span> <span class="n" style="color: #333;">ukk</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="o" style="font-weight: 600;"><<</span> <span class="mi" style="color: #099;">2</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC517" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">ulii</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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<pre style="margin: 0;">+<span id="LC518" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// bugfix (10 Apr 2018): is_set(sex_male, uii) didn't work since we had</span></span>
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<pre style="margin: 0;">+<span id="LC519" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// replaced the value with twice the low-order bits</span></span>
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<pre style="margin: 0;"> <span id="LC520" 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;">is_x</span><span class="p">)</span> <span class="o" style="font-weight: 600;">||</span> <span class="p">(</span><span class="o" style="font-weight: 600;">!</span><span class="n" style="color: #333;">is_set</span><span class="p">(</span><span class="n" style="color: #333;">sex_male</span><span class="p">,</span> <span class="n" style="color: #333;">uii</span><span class="p">)))</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC521" class="line" lang="c"> <span class="n" style="color: #333;">umm</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">mendel_error_table</span><span class="p">[</span><span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">|</span> <span class="p">(</span><span class="n" style="color: #333;">uljj</span> <span class="o" style="font-weight: 600;"><<</span> <span class="mi" style="color: #099;">2</span><span class="p">)];</span></span>
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<pre style="margin: 0;"> <span id="LC522" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</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">@@ -522,7 +524,7 @@ uint32_t erase_mendel_errors(uintptr_t unfiltered_sample_ct, uintptr_t* loadbuf,</td>
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<pre style="margin: 0;"> <span id="LC524" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC525" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">umm</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC526" class="line" lang="c"> <span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">loadbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">];</span></span>
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<pre style="margin: 0;">-<span id="LC525" class="line" lang="c"> <span class="n" style="color: #333;">uljj</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ONELU</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">ii</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC527" class="line" lang="c"> <span class="n" style="color: #333;">uljj</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ONELU</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">qq</span></span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC528" class="line" lang="c"> <span class="n" style="color: #333;">loadbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">&</span> <span class="p">(</span><span class="o" style="font-weight: 600;">~</span><span class="p">(</span><span class="mi" style="color: #099;">3</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">uljj</span><span class="p">)))</span> <span class="o" style="font-weight: 600;">|</span> <span class="n" style="color: #333;">uljj</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC529" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">umm</span> <span class="o" style="font-weight: 600;">&</span> <span class="mh" style="color: #099;">0x100</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC530" class="line" lang="c"> <span class="n" style="color: #333;">ulii</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">loadbuf</span><span class="p">[</span><span class="n" style="color: #333;">uoo</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">@@ -539,9 +541,9 @@ uint32_t erase_mendel_errors(uintptr_t unfiltered_sample_ct, uintptr_t* loadbuf,</td>
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<pre style="margin: 0;"> <span id="LC541" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <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;">uljj</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;"> <span id="LC542" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// both parents are homozygous for the same allele, so child genotype</span></span>
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<pre style="margin: 0;"> <span id="LC543" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// is "known" for the purpose of checking grandchild genotypes</span></span>
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<pre style="margin: 0;">-<span id="LC542" class="line" lang="c"> <span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">&=</span> <span class="o" style="font-weight: 600;">~</span><span class="p">(</span><span class="n" style="color: #333;">ONELU</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">ii</span></span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC544" class="line" lang="c"> <span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">&=</span> <span class="o" style="font-weight: 600;">~</span><span class="p">(</span><span class="n" style="color: #333;">ONELU</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">qq</span></span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC545" class="line" lang="c"> <span class="p">}</span> <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;">uljj</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">15</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC544" class="line" lang="c"> <span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">|=</span> <span class="p">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ONELU</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">ii</span></span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC546" class="line" lang="c"> <span class="n" style="color: #333;">workbuf</span><span class="p">[</span><span class="n" style="color: #333;">unn</span><span class="p">]</span> <span class="o" style="font-weight: 600;">|=</span> <span class="p">(</span><span class="mi" style="color: #099;">2</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">ONELU</span><span class="p">)</span> <span class="o" style="font-weight: 600;"><<</span> <span class="n" style="color: #333;">u<span class="idiff left right">qq</span></span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC547" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;"> <span id="LC548" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// no need to fill "known" heterozygous genotype, since that's treated</span></span>
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<pre style="margin: 0;"> <span id="LC549" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// the same way as a missing genotype</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">@@ -1485,7 +1485,8 @@ int32_t disp_help(uint32_t param_ct, char** argv) {</td>
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<pre style="margin: 0;"> <span id="LC1485" class="line" lang="c"><span class="s" style="color: #d14;">" --missing-phenotype [v] : Set missing phenotype value (normally -9).</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;"> <span id="LC1486" class="line" lang="c"><span class="s" style="color: #d14;">" --1 : Expect case/control phenotypes to be coded as</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;"> <span id="LC1487" class="line" lang="c"><span class="s" style="color: #d14;">" 0 = control, 1 = case, instead of the usual</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;">-<span id="LC1488" class="line" lang="c"><span class="s" style="color: #d14;">" 0 = missing, 1 = control, 2 = case.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;">+<span id="LC1488" class="line" lang="c"><span class="s" style="color: #d14;">" 0 = missing, 1 = control, 2 = case. This also</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;">+<span id="LC1489" class="line" lang="c"><span class="s" style="color: #d14;">" forces phenotypes to be interpreted as case/ctrl.</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<pre style="margin: 0;"> <span id="LC1490" class="line" lang="c"> <span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC1491" class="line" lang="c"> <span class="n" style="color: #333;">help_print</span><span class="p">(</span><span class="s" style="color: #d14;">"make-pheno</span><span class="se" style="color: #d14;">\t</span><span class="s" style="color: #d14;">pheno"</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">help_ctrl</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="LC1492" class="line" lang="c"><span class="s" style="color: #d14;">" --make-pheno [fn] [val] : Define a new case/control phenotype. If the val</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span></span>
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<a href="https://salsa.debian.org/med-team/plink1-9/compare/caee70d9c7dbb4182e258c36526a41ec825f742c...01b9b3e270418698bd66b9996dd4cd8b5aee9408#3594a0b72388118816a0f72cc6ffb298103a82fa"><strong>sisocks.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">@@ -14,13 +14,13 @@</td>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * along with this program; if not, write to the Free Software</span></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA</span></span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> *</span></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"><span class="idiff left right"> </span></span></span>
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<pre style="margin: 0;">-<span id="LC18" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> conditional defines:<span class="idiff left right"> </span></span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="c"></span>
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<pre style="margin: 0;">+<span id="LC18" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> conditional defines:</span></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC20" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> MAIN</span></span>
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<pre style="margin: 0;"> <span id="LC21" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> should be defined in just one file that will contain the fn definitions and variables</span></span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC23" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> USE_SNPRINTF<span class="idiff left right"> </span></span></span>
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<pre style="margin: 0;">+<span id="LC23" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> USE_SNPRINTF</span></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;"> emulate snprintf on Win platforms (you will</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;"> lose the security which is provided under unix of course)</span></span>
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<pre style="margin: 0;"> <span id="LC26" 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">@@ -137,7 +137,7 @@ extern int initsocks(void);</td>
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<pre style="margin: 0;"> <span id="LC137" class="line" lang="c"></span>
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138
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<pre style="margin: 0;"> <span id="LC138" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define donesocks() WSACleanup()</span></span>
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139
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139
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<pre style="margin: 0;"> <span id="LC139" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</span></span>
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="c"></span>
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141
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* no stupid stuff necessary for unix */</span></span>
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142
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142
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<pre style="margin: 0;"> <span id="LC142" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define initsocks()</span></span>
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143
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<pre style="margin: 0;"> <span id="LC143" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define donesocks()</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="244" style="width: 35px; color: rgba(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">@@ -244,7 +244,7 @@ extern FILE *sockerrlog;</td>
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244
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<pre style="margin: 0;"> <span id="LC244" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">sockerrorchecks</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;">buf</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">blen</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">res</span><span class="p">);</span></span>
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245
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<pre style="margin: 0;"> <span id="LC245" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">sockerrorcheck</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;">sn</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">rtb</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">res</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC246" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC247" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC247" class="line" lang="c"></span>
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248
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<pre style="margin: 0;"> <span id="LC248" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define FCF(X,F) sockerrorcheck(X,1,F)</span></span>
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<pre style="margin: 0;"> <span id="LC249" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define CF(X,F) sockerrorcheck(X,0,F)</span></span>
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<pre style="margin: 0;"> <span id="LC250" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="261" style="width: 35px; color: rgba(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="261" style="width: 35px; color: rgba(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">@@ -261,5 +261,5 @@ struct sockaddr *build_sin(struct sockaddr_in *sa,char *ip,int port) {</td>
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261
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<pre style="margin: 0;"> <span id="LC261" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#else</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;">struct</span> <span class="n" style="color: #333;">sockaddr</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">build_sin</span><span class="p">(</span><span class="k" style="font-weight: 600;">struct</span> <span class="n" style="color: #333;">sockaddr_in</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">sa</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;">ip</span><span class="p">,</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">port</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC263" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC264" class="line" lang="c"><span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC264" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC265" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif </span><span class="cm" style="color: #998; font-style: italic;">/* __SISOCKS_H__ */</span></span></pre>
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