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<h3>
Andreas Tille pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/seqtk">Debian Med / seqtk</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/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2">ba538534</a></strong>
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<span>by Andreas Tille</span>
<i>at 2018-09-20T19:34:08Z</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 1.3</pre>
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<h4>6 changed files:</h4>
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<li class="file-stats">
<a href="#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
Makefile
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<li class="file-stats">
<a href="#3b56aa1cfafe2337969985e17b515947c4caca20">
kseq.h
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<a href="#a342fa759972a1071afb8963d4c3c329f8bf4226">
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−
ksort.h
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<a href="#7ebc542c1e6a22fcae8953b075ebbda17e926950">
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−
kstring.h
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−
kvec.h
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<a href="#2ee6777bef5c31e8169bd6d7549fcd5272f232b6">
seqtk.c
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<h4>Changes:</h4>
<li id="836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c">
<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#836efb6e25a091dcb4ff8e1dbb2f0be6a5cbf14c"><strong>Makefile</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="make"><span class="nv" style="color: teal;">CC</span><span class="o" style="font-weight: 600;">=</span>gcc</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="make"><span class="nv" style="color: teal;">CFLAGS</span><span class="o" style="font-weight: 600;">=</span><span class="nt" style="color: navy;">-g</span> <span class="nt" style="color: navy;">-Wall</span> <span class="nt" style="color: navy;">-O2</span> <span class="nt" style="color: navy;">-Wno-unused-function</span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="make"><span class="nv" style="color: teal;">BINDIR</span><span class="o" style="font-weight: 600;">=</span>/usr/local/bin</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="make"><span class="nl">all</span><span class="o" style="font-weight: 600;">:</span><span class="nf" style="color: #900; font-weight: 600;">seqtk</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="make"><span class="nl">seqtk</span><span class="o" style="font-weight: 600;">:</span><span class="nf" style="color: #900; font-weight: 600;">seqtk.c khash.h kseq.h</span></span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="make"> <span class="nv" style="color: teal;">$(CC)</span> <span class="nv" style="color: teal;">$(CFLAGS)</span> seqtk.c <span class="nt" style="color: navy;">-o</span> <span class="nv" style="color: teal;">$@</span> <span class="nt" style="color: navy;">-lz</span> <span class="nt" style="color: navy;">-lm</span></span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="make"></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="make"><span class="nl">install</span><span class="o" style="font-weight: 600;">:</span><span class="nf" style="color: #900; font-weight: 600;">all</span></span>
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="make"> <span class="nb" style="color: #0086b3;">install </span>seqtk <span class="nv" style="color: teal;">$(BINDIR)</span></span>
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="make"></span>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="make"><span class="nl">clean</span><span class="o" style="font-weight: 600;">:</span></span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="make"> <span class="nb" style="color: #0086b3;">rm</span> <span class="nt" style="color: navy;">-fr</span> gmon.out <span class="k" style="font-weight: 600;">*</span>.o ext/<span class="k" style="font-weight: 600;">*</span>.o a.out seqtk trimadap <span class="k" style="font-weight: 600;">*</span>~ <span class="k" style="font-weight: 600;">*</span>.a <span class="k" style="font-weight: 600;">*</span>.dSYM session<span class="k" style="font-weight: 600;">*</span></span></pre>
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<li id="3b56aa1cfafe2337969985e17b515947c4caca20">
<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#3b56aa1cfafe2337969985e17b515947c4caca20"><strong>kseq.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">@@ -23,7 +23,7 @@</td>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> SOFTWARE.</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;">*/</span></span>
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<pre style="margin: 0;"> <span id="LC25" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* Last Modified: <span class="idiff left right">05MAR2012</span> */</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;">/* Last Modified: <span class="idiff left right">2017-02-11</span> */</span></span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef AC_KSEQ_H</span></span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define AC_KSEQ_H</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">@@ -37,42 +37,45 @@</td>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KS_SEP_LINE 2 // line separator: "\n" (Unix) or "\r\n" (Windows)</span></span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KS_SEP_MAX 2</span></span>
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<pre style="margin: 0;"> <span id="LC39" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> typedef struct __kstream_t {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> unsigned char *buf;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int begin, end, is_eof;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t f;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> typedef struct __kstream_t {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> unsigned char *buf;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int begin, end, is_eof;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC44" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t f;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } kstream_t;</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 class="cp" style="color: #999; font-weight: 600;">#define ks_err(ks) ((ks)->end < 0)</span></span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_eof(ks) ((ks)->is_eof && (ks)->begin >= (ks)->end)</span></span>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_rewind(ks) ((ks)->is_eof = (ks)->begin = (ks)->end = 0)</span></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_BASIC(type_t, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline kstream_t *ks_init(type_t f)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstream_t *ks = (kstream_t*)calloc(1, sizeof(kstream_t));<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->f = f;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->buf = (unsigned char*)malloc(__bufsize);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return ks;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline void ks_destroy(kstream_t *ks)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks) {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks->buf);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_BASIC(type_t, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline kstream_t *ks_init(type_t f)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstream_t *ks = (kstream_t*)calloc(1, sizeof(kstream_t));<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->f = f;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC56" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->buf = (unsigned char*)malloc(__bufsize);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC57" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return ks;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC59" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline void ks_destroy(kstream_t *ks)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC60" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks) {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC62" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks->buf);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC64" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }</span></span>
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_GETC(__read, __bufsize) \</span></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline int ks_getc(kstream_t *ks) \</span></span>
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->is_eof && ks->begin >= ks->end) return -1; \</span></span>
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->begin >= ks->end) { \</span></span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = 0; \</span></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->end = __read(ks->f, ks->buf, __bufsize); \</span></span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->end == 0) { ks->is_eof = 1; return -1;} \</span></span>
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return (int)ks->buf[ks->begin++]; \</span></span>
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<pre style="margin: 0;">+<span id="LC67" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_GETC(__read, __bufsize) \</span></span>
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<pre style="margin: 0;">+<span id="LC68" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline int ks_getc(kstream_t *ks) \</span></span>
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<pre style="margin: 0;">+<span id="LC69" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">+<span id="LC70" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks_err(ks)) return -3; \</span></span>
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<pre style="margin: 0;">+<span id="LC71" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks_eof(ks)) return -1; \</span></span>
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<pre style="margin: 0;">+<span id="LC72" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->begin >= ks->end) { \</span></span>
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<pre style="margin: 0;">+<span id="LC73" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = 0; \</span></span>
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<pre style="margin: 0;">+<span id="LC74" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->end = __read(ks->f, ks->buf, __bufsize); \</span></span>
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<pre style="margin: 0;">+<span id="LC75" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->end == 0) { ks->is_eof = 1; return -1; } \</span></span>
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<pre style="margin: 0;">+<span id="LC76" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> else if (ks->end < 0) { ks->is_eof = 1; return -3; } \</span></span>
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<pre style="margin: 0;">+<span id="LC77" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">+<span id="LC78" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return (int)ks->buf[ks->begin++]; \</span></span>
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<pre style="margin: 0;"> <span id="LC79" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }</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="cp" style="color: #999; font-weight: 600;">#ifndef KSTRING_T</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">@@ -87,140 +90,145 @@ typedef struct __kstring_t {</td>
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<pre style="margin: 0;"> <span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kroundup32(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, ++(x))</span></span>
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<pre style="margin: 0;"> <span id="LC91" 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="LC92" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_GETUNTIL(__read, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC93" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KS_GETUNTIL(__read, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC94" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static int ks_getuntil2(kstream_t *ks, int delimiter, kstring_t *str, int *dret, int append) \</span></span>
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int gotany = 0; \</span></span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (dret) *dret = 0; \</span></span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->l = append? str->l : 0; \</span></span>
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (;;) { \</span></span>
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<pre style="margin: 0;">-<span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int i; \</span></span>
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->begin >= ks->end) { \</span></span>
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!ks->is_eof) { \</span></span>
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = 0; \</span></span>
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<pre style="margin: 0;">-<span id="LC101" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->end = __read(ks->f, ks->buf, __bufsize); \</span></span>
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->end == 0) { ks->is_eof = 1; break; } \</span></span>
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else break; \</span></span>
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104
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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95
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<pre style="margin: 0;">+<span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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96
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<pre style="margin: 0;">+<span id="LC96" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int gotany = 0; \</span></span>
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97
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<pre style="margin: 0;">+<span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (dret) *dret = 0; \</span></span>
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98
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<pre style="margin: 0;">+<span id="LC98" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->l = append? str->l : 0; \</span></span>
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99
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<pre style="margin: 0;">+<span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (;;) { \</span></span>
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100
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<pre style="margin: 0;">+<span id="LC100" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int i; \</span></span>
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101
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<pre style="margin: 0;">+<span id="LC101" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks_err(ks)) return -3; \</span></span>
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102
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<pre style="margin: 0;">+<span id="LC102" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->begin >= ks->end) { \</span></span>
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103
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<pre style="margin: 0;">+<span id="LC103" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!ks->is_eof) { \</span></span>
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104
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<pre style="margin: 0;">+<span id="LC104" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = 0; \</span></span>
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105
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<pre style="margin: 0;">+<span id="LC105" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->end = __read(ks->f, ks->buf, __bufsize); \</span></span>
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106
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<pre style="margin: 0;">+<span id="LC106" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->end == 0) { ks->is_eof = 1; break; } \</span></span>
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107
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<pre style="margin: 0;">+<span id="LC107" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->end == -1) { ks->is_eof = 1; return -3; } \</span></span>
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108
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<pre style="margin: 0;">+<span id="LC108" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else break; \</span></span>
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109
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<pre style="margin: 0;">+<span id="LC109" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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105
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110
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<pre style="margin: 0;"> <span id="LC110" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (delimiter == KS_SEP_LINE) { \</span></span>
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106
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111
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<pre style="margin: 0;"> <span id="LC111" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i) \</span></span>
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107
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112
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<pre style="margin: 0;"> <span id="LC112" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->buf[i] == '\n') break; \</span></span>
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108
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter > KS_SEP_MAX) {<span class="idiff left right"> </span>\</span></span>
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109
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<pre style="margin: 0;">-<span id="LC109" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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110
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->buf[i] == delimiter) break;<span class="idiff left right"> </span>\</span></span>
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111
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter == KS_SEP_SPACE) {<span class="idiff left right"> </span>\</span></span>
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112
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (isspace(ks->buf[i])) break;<span class="idiff left right"> </span>\</span></span>
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114
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter == KS_SEP_TAB) {<span class="idiff left right"> </span>\</span></span>
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115
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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113
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<pre style="margin: 0;">+<span id="LC113" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter > KS_SEP_MAX) {<span class="idiff left right"> </span>\</span></span>
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114
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<pre style="margin: 0;">+<span id="LC114" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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115
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<pre style="margin: 0;">+<span id="LC115" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (ks->buf[i] == delimiter) break;<span class="idiff left right"> </span>\</span></span>
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116
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<pre style="margin: 0;">+<span id="LC116" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter == KS_SEP_SPACE) {<span class="idiff left right"> </span>\</span></span>
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117
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<pre style="margin: 0;">+<span id="LC117" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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118
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<pre style="margin: 0;">+<span id="LC118" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (isspace(ks->buf[i])) break;<span class="idiff left right"> </span>\</span></span>
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119
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<pre style="margin: 0;">+<span id="LC119" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter == KS_SEP_TAB) {<span class="idiff left right"> </span>\</span></span>
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120
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<pre style="margin: 0;">+<span id="LC120" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = ks->begin; i < ks->end; ++i)<span class="idiff left right"> </span>\</span></span>
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116
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121
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<pre style="margin: 0;"> <span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (isspace(ks->buf[i]) && ks->buf[i] != ' ') break; \</span></span>
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117
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else i = 0; </span><span class="cm" style="color: #998; font-style: italic;">/* never come to here! */</span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"> </span>\</span></span>
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118
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (str->m - str->l < (size_t)(i - ks->begin + 1)) {<span class="idiff left right"> </span>\</span></span>
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119
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->m = str->l + (i - ks->begin) + 1;<span class="idiff left right"> </span>\</span></span>
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120
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kroundup32(str->m);<span class="idiff left right"> </span>\</span></span>
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121
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->s = (char*)realloc(str->s, str->m);<span class="idiff left right"> </span>\</span></span>
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122
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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123
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> gotany = 1;<span class="idiff left right"> </span>\</span></span>
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122
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<pre style="margin: 0;">+<span id="LC122" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else i = 0; </span><span class="cm" style="color: #998; font-style: italic;">/* never come to here! */</span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"> </span>\</span></span>
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123
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<pre style="margin: 0;">+<span id="LC123" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (str->m - str->l < (size_t)(i - ks->begin + 1)) {<span class="idiff left right"> </span>\</span></span>
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124
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<pre style="margin: 0;">+<span id="LC124" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->m = str->l + (i - ks->begin) + 1;<span class="idiff left right"> </span>\</span></span>
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125
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<pre style="margin: 0;">+<span id="LC125" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kroundup32(str->m);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->s = (char*)realloc(str->s, str->m);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC127" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC128" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> gotany = 1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC129" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> memcpy(str->s + str->l, ks->buf + ks->begin, i - ks->begin); \</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->l = str->l + (i - ks->begin);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = i + 1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (i < ks->end) {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC128" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (dret) *dret = ks->buf[i];<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> break;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!gotany && ks_eof(ks)) return -1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (str->s == 0) {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->m = 1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->s = (char*)calloc(1, 1);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC130" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->l = str->l + (i - ks->begin);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC131" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks->begin = i + 1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC132" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (i < ks->end) {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC133" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (dret) *dret = ks->buf[i];<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC134" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> break;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC135" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC136" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC137" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!gotany && ks_eof(ks)) return -1;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC138" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (str->s == 0) {<span class="idiff left right"> </span>\</span></span>
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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;"> str->m = 1;<span class="idiff left right"> </span>\</span></span>
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140
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<pre style="margin: 0;">+<span id="LC140" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->s = (char*)calloc(1, 1);<span class="idiff left right"> </span>\</span></span>
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136
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141
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<pre style="margin: 0;"> <span id="LC141" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else if (delimiter == KS_SEP_LINE && str->l > 1 && str->s[str->l-1] == '\r') --str->l; \</span></span>
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<pre style="margin: 0;">-<span id="LC137" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> str->s[str->l] = '\0';<span class="idiff left right"> </span>\</span></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;"> return str->l;<span class="idiff left right"> </span>\</span></span>
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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;"> str->s[str->l] = '\0';<span class="idiff left right"> </span>\</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;"> return str->l;<span class="idiff left right"> </span>\</span></span>
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139
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144
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<pre style="margin: 0;"> <span id="LC144" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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145
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<pre style="margin: 0;"> <span id="LC145" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline int ks_getuntil(kstream_t *ks, int delimiter, kstring_t *str, int *dret) \</span></span>
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146
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<pre style="margin: 0;"> <span id="LC146" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { return ks_getuntil2(ks, delimiter, str, dret, 0); }</span></span>
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147
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<pre style="margin: 0;"> <span id="LC147" class="line" lang="c"></span>
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148
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<pre style="margin: 0;"> <span id="LC148" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSTREAM_INIT(type_t, __read, __bufsize) \</span></span>
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_BASIC(type_t, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_GETC(__read, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC149" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC150" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_BASIC(type_t, __bufsize)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC151" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_GETC(__read, __bufsize)<span class="idiff left right"> </span>\</span></span>
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147
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152
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KS_GETUNTIL(__read, __bufsize)</span></span>
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148
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153
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<pre style="margin: 0;"> <span id="LC153" class="line" lang="c"></span>
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149
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154
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kseq_rewind(ks) ((ks)->last_char = (ks)->f->is_eof = (ks)->f->begin = (ks)->f->end = 0)</span></span>
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150
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155
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC151" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KSEQ_BASIC(SCOPE, type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> SCOPE kseq_t *kseq_init(type_t fd)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kseq_t *s = (kseq_t*)calloc(1, sizeof(kseq_t));<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> s->f = ks_init(fd);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return s;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC158" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> SCOPE void kseq_destroy(kseq_t *ks)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!ks) return;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC156" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KSEQ_BASIC(SCOPE, type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC157" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> SCOPE kseq_t *kseq_init(type_t fd)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC158" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC159" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kseq_t *s = (kseq_t*)calloc(1, sizeof(kseq_t));<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC160" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> s->f = ks_init(fd);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC161" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return s;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC162" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC163" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> SCOPE void kseq_destroy(kseq_t *ks)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC164" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC165" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!ks) return;<span class="idiff left right"> </span>\</span></span>
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161
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<pre style="margin: 0;"> <span id="LC166" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks->name.s); free(ks->comment.s); free(ks->seq.s); free(ks->qual.s); \</span></span>
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<pre style="margin: 0;">-<span id="LC162" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_destroy(ks->f);<span class="idiff left right"> </span>\</span></span>
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163
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<pre style="margin: 0;">-<span id="LC163" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks);<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC167" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_destroy(ks->f);<span class="idiff left right"> </span>\</span></span>
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168
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<pre style="margin: 0;">+<span id="LC168" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(ks);<span class="idiff left right"> </span>\</span></span>
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164
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169
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<pre style="margin: 0;"> <span id="LC169" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }</span></span>
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165
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170
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<pre style="margin: 0;"> <span id="LC170" class="line" lang="c"></span>
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166
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171
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<pre style="margin: 0;"> <span id="LC171" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* Return value:</span></span>
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167
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172
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<pre style="margin: 0;"> <span id="LC172" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> >=0 length of the sequence (normal)</span></span>
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168
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173
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<pre style="margin: 0;"> <span id="LC173" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> -1 end-of-file</span></span>
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169
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174
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<pre style="margin: 0;"> <span id="LC174" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> -2 truncated quality string</span></span>
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175
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<pre style="margin: 0;">+<span id="LC175" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> -3 error reading stream</span></span>
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170
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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;"> */</span></span>
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171
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177
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<pre style="margin: 0;"> <span id="LC177" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KSEQ_READ(SCOPE) \</span></span>
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172
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178
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<pre style="margin: 0;"> <span id="LC178" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> SCOPE int kseq_read(kseq_t *seq) \</span></span>
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173
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179
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<pre style="margin: 0;"> <span id="LC179" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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174
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<pre style="margin: 0;">-<span id="LC174" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int c; \</span></span>
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180
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<pre style="margin: 0;">+<span id="LC180" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int c<span class="idiff left right">,r</span>; \</span></span>
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175
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181
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<pre style="margin: 0;"> <span id="LC181" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstream_t *ks = seq->f; \</span></span>
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176
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182
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<pre style="margin: 0;"> <span id="LC182" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (seq->last_char == 0) { </span><span class="cm" style="color: #998; font-style: italic;">/* then jump to the next header line */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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177
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<pre style="margin: 0;">-<span id="LC177" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">!= -1</span> && c != '>' && c != '@'); \</span></span>
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178
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<pre style="margin: 0;">-<span id="LC178" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c <span class="idiff left">== -1) return -1; </span></span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* end of file </span>*/</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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183
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<pre style="margin: 0;">+<span id="LC183" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">>= 0</span> && c != '>' && c != '@'); \</span></span>
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184
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<pre style="margin: 0;">+<span id="LC184" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c <span class="idiff left">< 0) return c; </span></span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* end of file or error</span>*/</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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179
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185
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<pre style="margin: 0;"> <span id="LC185" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->last_char = c; \</span></span>
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180
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186
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<pre style="margin: 0;"> <span id="LC186" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } </span><span class="cm" style="color: #998; font-style: italic;">/* else: the first header char has been read in the previous call */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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181
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187
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<pre style="margin: 0;"> <span id="LC187" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->comment.l = seq->seq.l = seq->qual.l = 0; </span><span class="cm" style="color: #998; font-style: italic;">/* reset all members */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<pre style="margin: 0;">-<span id="LC182" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (<span class="idiff left">ks_getuntil(ks, 0, &seq->name, &c) < 0) return -1; </span></span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* normal exit: EOF</span> */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<td class="diff-line-num new new_line" data-linenumber="188" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
188
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<pre style="margin: 0;">+<span id="LC188" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (<span class="idiff left">(r=ks_getuntil(ks, 0, &seq->name, &c)) < 0) return r; </span></span><span class="cm" style="color: #998; font-style: italic;"><span class="idiff right">/* normal exit: EOF or error</span> */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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183
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<td class="diff-line-num new_line" data-linenumber="189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
189
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<pre style="margin: 0;"> <span id="LC189" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c != '\n') ks_getuntil(ks, KS_SEP_LINE, &seq->comment, 0); </span><span class="cm" style="color: #998; font-style: italic;">/* read FASTA/Q comment */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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184
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190
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<pre style="margin: 0;"> <span id="LC190" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (seq->seq.s == 0) { </span><span class="cm" style="color: #998; font-style: italic;">/* we can do this in the loop below, but that is slower */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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185
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191
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<pre style="margin: 0;"> <span id="LC191" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.m = 256; \</span></span>
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<td class="diff-line-num old_line" data-linenumber="186" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
186
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<td class="diff-line-num new_line" data-linenumber="192" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
192
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<pre style="margin: 0;"> <span id="LC192" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.s = (char*)malloc(seq->seq.m); \</span></span>
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187
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<td class="diff-line-num new_line" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
193
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<pre style="margin: 0;"> <span id="LC193" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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188
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<td class="diff-line-num new_line old" data-linenumber="194" style="width: 35px; color: rgba(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="LC188" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">!= -1</span> && c != '>' && c != '+' && c != '@') { \</span></span>
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<td class="diff-line-num new new_line" data-linenumber="194" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
194
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<pre style="margin: 0;">+<span id="LC194" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">>= 0</span> && c != '>' && c != '+' && c != '@') { \</span></span>
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189
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<td class="diff-line-num new_line" data-linenumber="195" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
195
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<pre style="margin: 0;"> <span id="LC195" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c == '\n') continue; </span><span class="cm" style="color: #998; font-style: italic;">/* skip empty lines */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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190
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<td class="diff-line-num new_line" data-linenumber="196" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
196
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<pre style="margin: 0;"> <span id="LC196" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.s[seq->seq.l++] = c; </span><span class="cm" style="color: #998; font-style: italic;">/* this is safe: we always have enough space for 1 char */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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191
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197
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<pre style="margin: 0;"> <span id="LC197" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_getuntil2(ks, KS_SEP_LINE, &seq->seq, 0, 1); </span><span class="cm" style="color: #998; font-style: italic;">/* read the rest of the line */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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192
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198
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<pre style="margin: 0;"> <span id="LC198" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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193
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<pre style="margin: 0;">-<span id="LC193" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c == '>' || c == '@') seq->last_char = c; </span><span class="cm" style="color: #998; font-style: italic;">/* the first header char has been read */</span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"> </span>\</span></span>
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<td class="diff-line-num new new_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
199
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<pre style="margin: 0;">+<span id="LC199" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c == '>' || c == '@') seq->last_char = c; </span><span class="cm" style="color: #998; font-style: italic;">/* the first header char has been read */</span><span class="cp" style="color: #999; font-weight: 600;"><span class="idiff left right"> </span>\</span></span>
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194
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200
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<pre style="margin: 0;"> <span id="LC200" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (seq->seq.l + 1 >= seq->seq.m) { </span><span class="cm" style="color: #998; font-style: italic;">/* seq->seq.s[seq->seq.l] below may be out of boundary */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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195
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<td class="diff-line-num new_line" data-linenumber="201" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
201
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<pre style="margin: 0;"> <span id="LC201" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.m = seq->seq.l + 2; \</span></span>
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196
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<td class="diff-line-num new_line" data-linenumber="202" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
202
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<pre style="margin: 0;"> <span id="LC202" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kroundup32(seq->seq.m); </span><span class="cm" style="color: #998; font-style: italic;">/* rounded to the next closest 2^k */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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197
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203
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<pre style="margin: 0;"> <span id="LC203" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.s = (char*)realloc(seq->seq.s, seq->seq.m); \</span></span>
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198
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204
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<pre style="margin: 0;"> <span id="LC204" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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199
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<td class="diff-line-num new_line" data-linenumber="205" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
205
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<pre style="margin: 0;"> <span id="LC205" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->seq.s[seq->seq.l] = 0; </span><span class="cm" style="color: #998; font-style: italic;">/* null terminated string */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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200
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<td class="diff-line-num new_line old" data-linenumber="206" style="width: 35px; color: rgba(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="LC200" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c != '+') return seq->seq.l; </span><span class="cm" style="color: #998; font-style: italic;">/* FASTA */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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206
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<pre style="margin: 0;">+<span id="LC206" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->is_fastq = (c == '+'); \</span></span>
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207
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<pre style="margin: 0;">+<span id="LC207" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (!seq->is_fastq) return seq->seq.l; </span><span class="cm" style="color: #998; font-style: italic;">/* FASTA */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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201
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208
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<pre style="margin: 0;"> <span id="LC208" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (seq->qual.m < seq->seq.m) { </span><span class="cm" style="color: #998; font-style: italic;">/* allocate memory for qual in case insufficient */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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202
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209
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<pre style="margin: 0;"> <span id="LC209" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->qual.m = seq->seq.m; \</span></span>
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203
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210
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<pre style="margin: 0;"> <span id="LC210" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->qual.s = (char*)realloc(seq->qual.s, seq->qual.m); \</span></span>
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204
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211
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<pre style="margin: 0;"> <span id="LC211" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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205
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<pre style="margin: 0;">-<span id="LC205" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">!= -1</span> && c != '\n'); </span><span class="cm" style="color: #998; font-style: italic;">/* skip the rest of '+' line */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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212
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<pre style="margin: 0;">+<span id="LC212" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getc(ks)) <span class="idiff left right">>= 0</span> && c != '\n'); </span><span class="cm" style="color: #998; font-style: italic;">/* skip the rest of '+' line */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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206
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213
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<pre style="margin: 0;"> <span id="LC213" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c == -1) return -2; </span><span class="cm" style="color: #998; font-style: italic;">/* error: no quality string */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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207
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<pre style="margin: 0;">-<span id="LC207" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (ks_getuntil2(ks, KS_SEP_LINE, &seq->qual, 0, 1) >= 0 && seq->qual.l < seq->seq.l); \</span></span>
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214
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<pre style="margin: 0;">+<span id="LC214" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((c = ks_getuntil2(ks, KS_SEP_LINE, &seq->qual, 0, 1) >= 0 && seq->qual.l < seq->seq.l)); \</span></span>
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215
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<pre style="margin: 0;">+<span id="LC215" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (c == -3) return -3; </span><span class="cm" style="color: #998; font-style: italic;">/* stream error */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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208
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216
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<pre style="margin: 0;"> <span id="LC216" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> seq->last_char = 0; </span><span class="cm" style="color: #998; font-style: italic;">/* we have not come to the next header line */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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209
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217
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<pre style="margin: 0;"> <span id="LC217" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (seq->seq.l != seq->qual.l) return -2; </span><span class="cm" style="color: #998; font-style: italic;">/* error: qual string is of a different length */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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210
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218
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<pre style="margin: 0;"> <span id="LC218" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return seq->seq.l; \</span></span>
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211
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219
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<pre style="margin: 0;"> <span id="LC219" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }</span></span>
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212
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220
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<pre style="margin: 0;"> <span id="LC220" class="line" lang="c"></span>
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213
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KSEQ_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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214
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<pre style="margin: 0;">-<span id="LC214" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> typedef struct {<span class="idiff left right"> </span>\</span></span>
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215
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<pre style="margin: 0;">-<span id="LC215" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstring_t name, comment, seq, qual;<span class="idiff left right"> </span>\</span></span>
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216
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<pre style="margin: 0;">-<span id="LC216" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int last_char<span class="idiff left right">; </span>\</span></span>
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217
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<pre style="margin: 0;">-<span id="LC217" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstream_t *f;<span class="idiff left right"> </span>\</span></span>
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221
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<pre style="margin: 0;">+<span id="LC221" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define __KSEQ_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC222" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> typedef struct {<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC223" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstring_t name, comment, seq, qual;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC224" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int last_char<span class="idiff left right">, is_fastq; </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC225" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> kstream_t *f;<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC226" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } kseq_t;</span></span>
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<pre style="margin: 0;"> <span id="LC227" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC220" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSEQ_INIT2(SCOPE, type_t, __read)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC221" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> KSTREAM_INIT(type_t, __read, 16384)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC222" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KSEQ_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">-<span id="LC223" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KSEQ_BASIC(SCOPE, type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC228" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSEQ_INIT2(SCOPE, type_t, __read)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC229" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> KSTREAM_INIT(type_t, __read, 16384)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC230" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KSEQ_TYPE(type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;">+<span id="LC231" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KSEQ_BASIC(SCOPE, type_t)<span class="idiff left right"> </span>\</span></span>
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<pre style="margin: 0;"> <span id="LC232" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __KSEQ_READ(SCOPE)</span></span>
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<pre style="margin: 0;"> <span id="LC233" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC234" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSEQ_INIT(type_t, __read) KSEQ_INIT2(static, type_t, __read)</span></span>
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<li id="a342fa759972a1071afb8963d4c3c329f8bf4226">
<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#a342fa759972a1071afb8963d4c3c329f8bf4226"><strong>ksort.h</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* The MIT License</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="c"></span>
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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;"> Copyright (c) 2008, 2011 Attractive Chaos <attractor@live.co.uk></span></span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Permission is hereby granted, free of charge, to any person obtaining</span></span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> a copy of this software and associated documentation files (the</span></span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> "Software"), to deal in the Software without restriction, including</span></span>
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<td class="diff-line-num old old_line" data-linenumber="8" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> without limitation the rights to use, copy, modify, merge, publish,</span></span>
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<td class="diff-line-num old old_line" data-linenumber="9" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
9
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC9" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> distribute, sublicense, and/or sell copies of the Software, and to</span></span>
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<td class="diff-line-num old old_line" data-linenumber="10" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
10
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC10" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> permit persons to whom the Software is furnished to do so, subject to</span></span>
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<td class="diff-line-num old old_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> the following conditions:</span></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
13
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC13" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> The above copyright notice and this permission notice shall be</span></span>
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14
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> included in all copies or substantial portions of the Software.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
15
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="16" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
16
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<pre style="margin: 0;">-<span id="LC16" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,</span></span>
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<td class="diff-line-num old old_line" data-linenumber="17" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
17
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF</span></span>
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<td class="diff-line-num old old_line" data-linenumber="18" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
18
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC18" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND</span></span>
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19
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS</span></span>
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<td class="diff-line-num old old_line" data-linenumber="20" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
20
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<pre style="margin: 0;">-<span id="LC20" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN</span></span>
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<td class="diff-line-num old old_line" data-linenumber="21" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
21
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN</span></span>
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<td class="diff-line-num old old_line" data-linenumber="22" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
22
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE</span></span>
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<td class="diff-line-num old old_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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;"> SOFTWARE.</span></span>
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<td class="diff-line-num old old_line" data-linenumber="24" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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;">*/</span></span>
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<td class="diff-line-num old old_line" data-linenumber="25" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
25
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="26" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
26
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/*</span></span>
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<td class="diff-line-num old old_line" data-linenumber="27" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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;"> 2011-04-10 (0.1.6):</span></span>
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<td class="diff-line-num old old_line" data-linenumber="28" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
28
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="29" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
29
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC29" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Added sample</span></span>
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<td class="diff-line-num old old_line" data-linenumber="30" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
30
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="31" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
31
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC31" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2011-03 (0.1.5):</span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Added shuffle/permutation</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-11-16 (0.1.4):</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Fixed a bug in introsort() that happens in rare cases.</span></span>
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38
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="c"></span>
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39
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-11-05 (0.1.3):</span></span>
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40
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="c"></span>
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41
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Fixed a bug in introsort() for complex comparisons.</span></span>
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42
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="c"></span>
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43
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Fixed a bug in mergesort(). The previous version is not stable.</span></span>
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44
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-09-15 (0.1.2):</span></span>
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46
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="c"></span>
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47
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Accelerated introsort. On my Mac (not on another Linux machine),</span></span>
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48
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> my implementation is as fast as std::sort on random input.</span></span>
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49
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="c"></span>
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50
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Added combsort and in introsort, switch to combsort if the</span></span>
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51
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> recursion is too deep.</span></span>
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52
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="c"></span>
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53
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-09-13 (0.1.1):</span></span>
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54
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="c"></span>
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55
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Added k-small algorithm</span></span>
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56
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="c"></span>
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57
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-09-05 (0.1.0):</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * Initial version</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">*/</span></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef AC_KSORT_H</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define AC_KSORT_H</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="cp" style="color: #999; font-weight: 600;">#include <stdlib.h></span></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></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;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">left</span><span class="p">,</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">right</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">depth</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="c"><span class="p">}</span> <span class="n" style="color: #333;">ks_isort_stack_t</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSORT_SWAP(type_t, a, b) { register type_t t=(a); (a)=(b); (b)=t; }</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSORT_INIT(name, type_t, __sort_lt) \</span></span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_mergesort_##name(size_t n, type_t array[], type_t temp[]) \</span></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *a2[2], *a, *b; \</span></span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int curr, shift; \</span></span>
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<pre style="margin: 0;">-<span id="LC81" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> a2[0] = array; \</span></span>
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83
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> a2[1] = temp? temp : (type_t*)malloc(sizeof(type_t) * n); \</span></span>
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84
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (curr = 0, shift = 0; (1ul<<shift) < n; ++shift) { \</span></span>
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85
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<pre style="margin: 0;">-<span id="LC85" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> a = a2[curr]; b = a2[1-curr]; \</span></span>
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86
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (shift == 0) { \</span></span>
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87
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *p = b, *i, *eb = a + n; \</span></span>
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88
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = a; i < eb; i += 2) { \</span></span>
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89
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (i == eb - 1) *p++ = *i; \</span></span>
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90
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> else { \</span></span>
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91
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*(i+1), *i)) { \</span></span>
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92
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> *p++ = *(i+1); *p++ = *i; \</span></span>
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93
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<pre style="margin: 0;">-<span id="LC93" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else { \</span></span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> *p++ = *i; *p++ = *(i+1); \</span></span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC97" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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98
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<pre style="margin: 0;">-<span id="LC98" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else { \</span></span>
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99
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> size_t i, step = 1ul<<shift; \</span></span>
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100
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = 0; i < n; i += step<<1) { \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
101
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<pre style="margin: 0;">-<span id="LC101" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *p, *j, *k, *ea, *eb; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
102
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (n < i + step) { \</span></span>
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103
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ea = a + n; eb = a; \</span></span>
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104
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else { \</span></span>
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105
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<pre style="margin: 0;">-<span id="LC105" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ea = a + i + step; \</span></span>
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106
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<pre style="margin: 0;">-<span id="LC106" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> eb = a + (n < i + (step<<1)? n : i + (step<<1)); \</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;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> j = a + i; k = a + i + step; p = b + i; \</span></span>
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<pre style="margin: 0;">-<span id="LC109" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (j < ea && k < eb) { \</span></span>
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*k, *j)) *p++ = *k++; \</span></span>
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111
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> else *p++ = *j++; \</span></span>
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (j < ea) *p++ = *j++; \</span></span>
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (k < eb) *p++ = *k++; \</span></span>
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC116" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC117" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> curr = 1 - curr; \</span></span>
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118
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (curr == 1) { \</span></span>
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120
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *p = a2[0], *i = a2[1], *eb = array + n; \</span></span>
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (; p < eb; ++i) *p++ = *i; \</span></span>
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (temp == 0) free(a2[1]); \</span></span>
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_heapadjust_##name(size_t i, size_t n, type_t l[]) \</span></span>
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> size_t k = i; \</span></span>
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<pre style="margin: 0;">-<span id="LC128" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t tmp = l[i]; \</span></span>
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while ((k = (k << 1) + 1) < n) { \</span></span>
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (k != n - 1 && __sort_lt(l[k], l[k+1])) ++k; \</span></span>
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(l[k], tmp)) break; \</span></span>
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> l[i] = l[k]; i = k; \</span></span>
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<pre style="margin: 0;">-<span id="LC133" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> l[i] = tmp; \</span></span>
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<pre style="margin: 0;">-<span id="LC135" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_heapmake_##name(size_t lsize, type_t l[]) \</span></span>
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<pre style="margin: 0;">-<span id="LC137" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC138" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> size_t i; \</span></span>
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = (lsize >> 1) - 1; i != (size_t)(-1); --i) \</span></span>
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<pre style="margin: 0;">-<span id="LC140" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_heapadjust_##name(i, lsize, l); \</span></span>
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC142" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_heapsort_##name(size_t lsize, type_t l[]) \</span></span>
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> size_t i; \</span></span>
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = lsize - 1; i > 0; --i) { \</span></span>
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t tmp; \</span></span>
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<pre style="margin: 0;">-<span id="LC147" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> tmp = *l; *l = l[i]; l[i] = tmp; ks_heapadjust_##name(0, i, l); \</span></span>
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<pre style="margin: 0;">-<span id="LC148" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> static inline void __ks_insertsort_##name(type_t *s, type_t *t) \</span></span>
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151
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<pre style="margin: 0;">-<span id="LC151" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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152
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *i, *j, swap_tmp; \</span></span>
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = s + 1; i < t; ++i) \</span></span>
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154
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (j = i; j > s && __sort_lt(*j, *(j-1)); --j) { \</span></span>
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> swap_tmp = *j; *j = *(j-1); *(j-1) = swap_tmp; \</span></span>
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156
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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157
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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158
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<pre style="margin: 0;">-<span id="LC158" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_combsort_##name(size_t n, type_t a[]) \</span></span>
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159
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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160
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> const double shrink_factor = 1.2473309501039786540366528676643; \</span></span>
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161
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<pre style="margin: 0;">-<span id="LC161" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int do_swap; \</span></span>
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162
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<pre style="margin: 0;">-<span id="LC162" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> size_t gap = n; \</span></span>
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163
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<pre style="margin: 0;">-<span id="LC163" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t tmp, *i, *j; \</span></span>
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164
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<pre style="margin: 0;">-<span id="LC164" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do { \</span></span>
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165
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<pre style="margin: 0;">-<span id="LC165" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (gap > 2) { \</span></span>
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166
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<pre style="margin: 0;">-<span id="LC166" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> gap = (size_t)(gap / shrink_factor); \</span></span>
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167
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (gap == 9 || gap == 10) gap = 11; \</span></span>
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168
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<pre style="margin: 0;">-<span id="LC168" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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169
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<pre style="margin: 0;">-<span id="LC169" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do_swap = 0; \</span></span>
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170
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<pre style="margin: 0;">-<span id="LC170" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = a; i < a + n - gap; ++i) { \</span></span>
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171
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<pre style="margin: 0;">-<span id="LC171" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> j = i + gap; \</span></span>
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172
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<pre style="margin: 0;">-<span id="LC172" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*j, *i)) { \</span></span>
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173
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<pre style="margin: 0;">-<span id="LC173" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> tmp = *i; *i = *j; *j = tmp; \</span></span>
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174
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<pre style="margin: 0;">-<span id="LC174" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do_swap = 1; \</span></span>
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175
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<pre style="margin: 0;">-<span id="LC175" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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176
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<pre style="margin: 0;">-<span id="LC176" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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177
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<pre style="margin: 0;">-<span id="LC177" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } while (do_swap || gap > 2); \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
178
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<pre style="margin: 0;">-<span id="LC178" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (gap != 1) __ks_insertsort_##name(a, a + n); \</span></span>
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179
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<pre style="margin: 0;">-<span id="LC179" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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180
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<pre style="margin: 0;">-<span id="LC180" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_introsort_##name(size_t n, type_t a[]) \</span></span>
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181
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<pre style="margin: 0;">-<span id="LC181" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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182
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<pre style="margin: 0;">-<span id="LC182" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int d; \</span></span>
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183
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<pre style="margin: 0;">-<span id="LC183" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_isort_stack_t *top, *stack; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
184
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<pre style="margin: 0;">-<span id="LC184" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t rp, swap_tmp; \</span></span>
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185
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<pre style="margin: 0;">-<span id="LC185" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *s, *t, *i, *j, *k; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="186" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
186
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<pre style="margin: 0;">-<span id="LC186" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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187
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<pre style="margin: 0;">-<span id="LC187" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (n < 1) return; \</span></span>
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188
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<pre style="margin: 0;">-<span id="LC188" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> else if (n == 2) { \</span></span>
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189
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<pre style="margin: 0;">-<span id="LC189" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(a[1], a[0])) { swap_tmp = a[0]; a[0] = a[1]; a[1] = swap_tmp; } \</span></span>
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190
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<pre style="margin: 0;">-<span id="LC190" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return; \</span></span>
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191
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<pre style="margin: 0;">-<span id="LC191" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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192
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<pre style="margin: 0;">-<span id="LC192" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (d = 2; 1ul<<d < n; ++d); \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="193" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
193
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<pre style="margin: 0;">-<span id="LC193" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> stack = (ks_isort_stack_t*)malloc(sizeof(ks_isort_stack_t) * ((sizeof(size_t)*d)+2)); \</span></span>
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194
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<pre style="margin: 0;">-<span id="LC194" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> top = stack; s = a; t = a + (n-1); d <<= 1; \</span></span>
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195
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<pre style="margin: 0;">-<span id="LC195" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (1) { \</span></span>
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196
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<pre style="margin: 0;">-<span id="LC196" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (s < t) { \</span></span>
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197
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<pre style="margin: 0;">-<span id="LC197" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (--d == 0) { \</span></span>
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198
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<pre style="margin: 0;">-<span id="LC198" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ks_combsort_##name(t - s + 1, s); \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="199" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
199
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<pre style="margin: 0;">-<span id="LC199" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> t = s; \</span></span>
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200
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<pre style="margin: 0;">-<span id="LC200" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> continue; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="201" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
201
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<pre style="margin: 0;">-<span id="LC201" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="202" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
202
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<pre style="margin: 0;">-<span id="LC202" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> i = s; j = t; k = i + ((j-i)>>1) + 1; \</span></span>
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203
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<pre style="margin: 0;">-<span id="LC203" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*k, *i)) { \</span></span>
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204
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<pre style="margin: 0;">-<span id="LC204" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*k, *j)) k = j; \</span></span>
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205
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<pre style="margin: 0;">-<span id="LC205" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else k = __sort_lt(*j, *i)? i : j; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="206" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
206
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<pre style="margin: 0;">-<span id="LC206" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> rp = *k; \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="207" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
207
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<pre style="margin: 0;">-<span id="LC207" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (k != t) { swap_tmp = *k; *k = *t; *t = swap_tmp; } \</span></span>
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208
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<pre style="margin: 0;">-<span id="LC208" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (;;) { \</span></span>
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209
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<pre style="margin: 0;">-<span id="LC209" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do ++i; while (__sort_lt(*i, rp)); \</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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<pre style="margin: 0;">-<span id="LC210" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do --j; while (i <= j && __sort_lt(rp, *j)); \</span></span>
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211
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<pre style="margin: 0;">-<span id="LC211" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (j <= i) break; \</span></span>
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212
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<pre style="margin: 0;">-<span id="LC212" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> swap_tmp = *i; *i = *j; *j = swap_tmp; \</span></span>
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213
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<pre style="margin: 0;">-<span id="LC213" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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214
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<pre style="margin: 0;">-<span id="LC214" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> swap_tmp = *i; *i = *t; *t = swap_tmp; \</span></span>
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215
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<pre style="margin: 0;">-<span id="LC215" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (i-s > t-i) { \</span></span>
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216
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<pre style="margin: 0;">-<span id="LC216" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (i-s > 16) { top->left = s; top->right = i-1; top->depth = d; ++top; } \</span></span>
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217
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<pre style="margin: 0;">-<span id="LC217" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> s = t-i > 16? i+1 : t; \</span></span>
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218
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<pre style="margin: 0;">-<span id="LC218" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else { \</span></span>
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219
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<pre style="margin: 0;">-<span id="LC219" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (t-i > 16) { top->left = i+1; top->right = t; top->depth = d; ++top; } \</span></span>
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220
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<pre style="margin: 0;">-<span id="LC220" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> t = i-s > 16? i-1 : s; \</span></span>
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221
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<pre style="margin: 0;">-<span id="LC221" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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222
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<pre style="margin: 0;">-<span id="LC222" 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 old_line" data-linenumber="223" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
223
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<pre style="margin: 0;">-<span id="LC223" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (top == stack) { \</span></span>
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<td class="diff-line-num old old_line" 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">
224
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<pre style="margin: 0;">-<span id="LC224" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> free(stack); \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="225" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
225
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<pre style="margin: 0;">-<span id="LC225" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> __ks_insertsort_##name(a, a+n); \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
226
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<pre style="margin: 0;">-<span id="LC226" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return; \</span></span>
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<pre style="margin: 0;">-<span id="LC227" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } else { --top; s = (type_t*)top->left; t = (type_t*)top->right; d = top->depth; } \</span></span>
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<pre style="margin: 0;">-<span id="LC228" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC229" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC230" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC231" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> </span><span class="cm" style="color: #998; font-style: italic;">/* This function is adapted from: http://ndevilla.free.fr/median/ */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<pre style="margin: 0;">-<span id="LC232" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> </span><span class="cm" style="color: #998; font-style: italic;">/* 0 <= kk < n */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<pre style="margin: 0;">-<span id="LC233" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t ks_ksmall_##name(size_t n, type_t arr[], size_t kk) \</span></span>
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<pre style="margin: 0;">-<span id="LC234" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { \</span></span>
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<pre style="margin: 0;">-<span id="LC235" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t *low, *high, *k, *ll, *hh, *mid; \</span></span>
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<pre style="margin: 0;">-<span id="LC236" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> low = arr; high = arr + n - 1; k = arr + kk; \</span></span>
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<pre style="margin: 0;">-<span id="LC237" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (;;) { \</span></span>
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<pre style="margin: 0;">-<span id="LC238" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (high <= low) return *k; \</span></span>
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<pre style="margin: 0;">-<span id="LC239" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (high == low + 1) { \</span></span>
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<pre style="margin: 0;">-<span id="LC240" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*high, *low)) KSORT_SWAP(type_t, *low, *high); \</span></span>
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<pre style="margin: 0;">-<span id="LC241" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> return *k; \</span></span>
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<pre style="margin: 0;">-<span id="LC242" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC243" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> mid = low + (high - low) / 2; \</span></span>
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<pre style="margin: 0;">-<span id="LC244" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*high, *mid)) KSORT_SWAP(type_t, *mid, *high); \</span></span>
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<pre style="margin: 0;">-<span id="LC245" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (__sort_lt(*high, *low)) KSORT_SWAP(type_t, *low, *high); \</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;"> if (__sort_lt(*low, *mid)) KSORT_SWAP(type_t, *mid, *low); \</span></span>
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<pre style="margin: 0;">-<span id="LC247" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> KSORT_SWAP(type_t, *mid, *(low+1)); \</span></span>
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<pre style="margin: 0;">-<span id="LC248" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ll = low + 1; hh = high; \</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;"> for (;;) { \</span></span>
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<pre style="margin: 0;">-<span id="LC250" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do ++ll; while (__sort_lt(*ll, *low)); \</span></span>
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251
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<pre style="margin: 0;">-<span id="LC251" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> do --hh; while (__sort_lt(*low, *hh)); \</span></span>
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252
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<pre style="margin: 0;">-<span id="LC252" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (hh < ll) break; \</span></span>
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253
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<pre style="margin: 0;">-<span id="LC253" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> KSORT_SWAP(type_t, *ll, *hh); \</span></span>
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254
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<pre style="margin: 0;">-<span id="LC254" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC255" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> KSORT_SWAP(type_t, *low, *hh); \</span></span>
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256
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<pre style="margin: 0;">-<span id="LC256" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (hh <= k) low = ll; \</span></span>
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257
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<pre style="margin: 0;">-<span id="LC257" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (hh >= k) high = hh - 1; \</span></span>
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258
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<pre style="margin: 0;">-<span id="LC258" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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259
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<pre style="margin: 0;">-<span id="LC259" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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260
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<pre style="margin: 0;">-<span id="LC260" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_shuffle_##name(size_t n, type_t a[]) \</span></span>
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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;"> { \</span></span>
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262
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<pre style="margin: 0;">-<span id="LC262" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int i, j; \</span></span>
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263
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<pre style="margin: 0;">-<span id="LC263" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = n; i > 1; --i) { \</span></span>
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264
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<pre style="margin: 0;">-<span id="LC264" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t tmp; \</span></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;"> j = (int)(drand48() * i); \</span></span>
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266
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<pre style="margin: 0;">-<span id="LC266" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> tmp = a[j]; a[j] = a[i-1]; a[i-1] = tmp; \</span></span>
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267
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<pre style="margin: 0;">-<span id="LC267" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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268
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<pre style="margin: 0;">-<span id="LC268" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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269
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<pre style="margin: 0;">-<span id="LC269" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> void ks_sample_##name(size_t n, size_t r, type_t a[]) </span><span class="cm" style="color: #998; font-style: italic;">/* FIXME: NOT TESTED!!! */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="270" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
270
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<pre style="margin: 0;">-<span id="LC270" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> { </span><span class="cm" style="color: #998; font-style: italic;">/* reference: http://code.activestate.com/recipes/272884/ */</span><span class="cp" style="color: #999; font-weight: 600;"> \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="271" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
271
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<pre style="margin: 0;">-<span id="LC271" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> int i, k, pop = n; \</span></span>
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272
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<pre style="margin: 0;">-<span id="LC272" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> for (i = (int)r, k = 0; i >= 0; --i) { \</span></span>
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<td class="diff-line-num old old_line" data-linenumber="273" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
273
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<pre style="margin: 0;">-<span id="LC273" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> double z = 1., x = drand48(); \</span></span>
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274
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<pre style="margin: 0;">-<span id="LC274" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> type_t tmp; \</span></span>
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<pre style="margin: 0;">-<span id="LC275" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> while (x < z) z -= z * i / (pop--); \</span></span>
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<pre style="margin: 0;">-<span id="LC276" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if (k != n - pop - 1) tmp = a[k], a[k] = a[n-pop-1], a[n-pop-1] = tmp; \</span></span>
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<pre style="margin: 0;">-<span id="LC277" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ++k; \</span></span>
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<pre style="margin: 0;">-<span id="LC278" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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279
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<pre style="margin: 0;">-<span id="LC279" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> }</span></span>
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<pre style="margin: 0;">-<span id="LC280" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC281" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_mergesort(name, n, a, t) ks_mergesort_##name(n, a, t)</span></span>
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282
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<pre style="margin: 0;">-<span id="LC282" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_introsort(name, n, a) ks_introsort_##name(n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC283" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_combsort(name, n, a) ks_combsort_##name(n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC284" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_heapsort(name, n, a) ks_heapsort_##name(n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC285" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_heapmake(name, n, a) ks_heapmake_##name(n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC286" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_heapadjust(name, i, n, a) ks_heapadjust_##name(i, n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC287" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_ksmall(name, n, a, k) ks_ksmall_##name(n, a, k)</span></span>
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<pre style="margin: 0;">-<span id="LC288" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_shuffle(name, n, a) ks_shuffle_##name(n, a)</span></span>
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<pre style="margin: 0;">-<span id="LC289" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC290" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_lt_generic(a, b) ((a) < (b))</span></span>
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<pre style="margin: 0;">-<span id="LC291" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define ks_lt_str(a, b) (strcmp((a), (b)) < 0)</span></span>
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<pre style="margin: 0;">-<span id="LC292" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC293" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">const</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;">ksstr_t</span><span class="p">;</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="cp" style="color: #999; font-weight: 600;">#define KSORT_INIT_GENERIC(type_t) KSORT_INIT(type_t, type_t, ks_lt_generic)</span></span>
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<pre style="margin: 0;">-<span id="LC296" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSORT_INIT_STR KSORT_INIT(str, ksstr_t, ks_lt_str)</span></span>
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<pre style="margin: 0;">-<span id="LC297" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC298" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span></pre>
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<li id="7ebc542c1e6a22fcae8953b075ebbda17e926950">
<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#7ebc542c1e6a22fcae8953b075ebbda17e926950"><strong>kstring.h</strong>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* The MIT License</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="c"></span>
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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;"> Copyright (c) by Attractive Chaos <attractor@live.co.uk> </span></span>
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Permission is hereby granted, free of charge, to any person obtaining</span></span>
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> a copy of this software and associated documentation files (the</span></span>
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> "Software"), to deal in the Software without restriction, including</span></span>
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> without limitation the rights to use, copy, modify, merge, publish,</span></span>
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> distribute, sublicense, and/or sell copies of the Software, and to</span></span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> permit persons to whom the Software is furnished to do so, subject to</span></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;"> the following conditions:</span></span>
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> The above copyright notice and this permission notice shall be</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> included in all copies or substantial portions of the Software.</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="c"></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;"> THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,</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;"> EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF</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;"> MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS</span></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;"> BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN</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;"> ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE</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;"> SOFTWARE.</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;">*/</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC26" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef KSTRING_H</span></span>
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<pre style="margin: 0;">-<span id="LC27" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSTRING_H</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC29" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdlib.h></span></span>
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<pre style="margin: 0;">-<span id="LC30" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <string.h></span></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdint.h></span></span>
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<pre style="margin: 0;">-<span id="LC32" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC33" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef kroundup32</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kroundup32(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, ++(x))</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef KSTRING_T</span></span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define KSTRING_T kstring_t</span></span>
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<pre style="margin: 0;">-<span id="LC39" 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;">__kstring_t</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint32_t</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">m</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="c"> <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;">s</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="c"><span class="p">}</span> <span class="n" style="color: #333;">kstring_t</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="c"><span class="k" style="font-weight: 600;">typedef</span> <span class="k" style="font-weight: 600;">struct</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">uint64_t</span> <span class="n" style="color: #333;">tab</span><span class="p">[</span><span class="mi" style="color: #099;">4</span><span class="p">];</span></span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">sep</span><span class="p">,</span> <span class="n" style="color: #333;">finished</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="c"> <span class="k" style="font-weight: 600;">const</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;">p</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">// end of the current token</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="c"><span class="p">}</span> <span class="n" style="color: #333;">ks_tokaux_t</span><span class="p">;</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __cplusplus</span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="c"><span class="k" style="font-weight: 600;">extern</span> <span class="s" style="color: #d14;">"C"</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC53" 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="LC54" class="line" lang="c"></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;">int</span> <span class="n" style="color: #333;">ksprintf</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</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;">fmt</span><span class="p">,</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;">int</span> <span class="n" style="color: #333;">ksprintf_fast</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</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;">fmt</span><span class="p">,</span> <span class="p">...);</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;">int</span> <span class="n" style="color: #333;">ksplit_core</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;">s</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">delimiter</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">_max</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">**</span><span class="n" style="color: #333;">_offsets</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">kstrstr</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</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;">str</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</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;">pat</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">**</span><span class="n" style="color: #333;">_prep</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">kstrnstr</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</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;">str</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</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;">pat</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">**</span><span class="n" style="color: #333;">_prep</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">kmemmem</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">_str</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">n</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">_pat</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">m</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">**</span><span class="n" style="color: #333;">_prep</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="c"> <span class="cm" style="color: #998; font-style: italic;">/* kstrtok() is similar to strtok_r() except that str is not</span></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * modified and both str and sep can be NULL. For efficiency, it is</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * actually recommended to set both to NULL in the subsequent calls</span></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * if sep is not changed. */</span></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">kstrtok</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</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;">str</span><span class="p">,</span> <span class="k" style="font-weight: 600;">const</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;">sep</span><span class="p">,</span> <span class="n" style="color: #333;">ks_tokaux_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">aux</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="LC68" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifdef __cplusplus</span></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="c"><span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="c"></span>
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72
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">void</span> <span class="n" style="color: #333;">ks_resize</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">size_t</span> <span class="n" style="color: #333;">size</span><span class="p">)</span></span>
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73
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="c"><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="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">size</span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">size</span><span class="p">;</span></span>
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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;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="c"> <span class="p">}</span></span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="c"><span class="p">}</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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<pre style="margin: 0;">-<span id="LC81" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputsn</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</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;">p</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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82
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="c"><span class="p">{</span></span>
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83
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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84
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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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85
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<pre style="margin: 0;">-<span id="LC85" class="line" lang="c"> <span class="n" style="color: #333;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="86" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
86
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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87
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="c"> <span class="p">}</span></span>
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88
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="c"> <span class="n" style="color: #333;">memcpy</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">l</span><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 class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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90
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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91
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<pre style="margin: 0;">-<span id="LC91" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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92
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<pre style="margin: 0;">-<span id="LC92" class="line" lang="c"><span class="p">}</span></span>
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93
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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 old_line" data-linenumber="94" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputs</span><span class="p">(</span><span class="k" style="font-weight: 600;">const</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;">p</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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95
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="c"><span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="96" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
96
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<pre style="margin: 0;">-<span id="LC96" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">kputsn</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">,</span> <span class="n" style="color: #333;">strlen</span><span class="p">(</span><span class="n" style="color: #333;">p</span><span class="p">),</span> <span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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97
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<pre style="margin: 0;">-<span id="LC97" 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>
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99
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<pre style="margin: 0;">-<span id="LC99" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputc</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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100
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<pre style="margin: 0;">-<span id="LC100" class="line" lang="c"><span class="p">{</span></span>
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101
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC101" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
102
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<pre style="margin: 0;">-<span id="LC102" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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103
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<pre style="margin: 0;">-<span id="LC103" class="line" lang="c"> <span class="n" style="color: #333;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="104" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
104
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<pre style="margin: 0;">-<span id="LC104" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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105
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<pre style="margin: 0;">-<span id="LC105" class="line" lang="c"> <span class="p">}</span></span>
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106
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<pre style="margin: 0;">-<span id="LC106" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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;">c</span><span class="p">;</span></span>
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107
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<pre style="margin: 0;">-<span id="LC107" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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108
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<pre style="margin: 0;">-<span id="LC108" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">c</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="p">}</span></span>
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110
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<pre style="margin: 0;">-<span id="LC110" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="111" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
111
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<pre style="margin: 0;">-<span id="LC111" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputw</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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<td class="diff-line-num old old_line" data-linenumber="112" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
112
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<pre style="margin: 0;">-<span id="LC112" class="line" lang="c"><span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="113" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
113
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<pre style="margin: 0;">-<span id="LC113" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="mi" style="color: #099;">16</span><span class="p">];</span></span>
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<td class="diff-line-num old old_line" data-linenumber="114" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
114
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<pre style="margin: 0;">-<span id="LC114" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="115" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
115
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<pre style="margin: 0;">-<span id="LC115" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">kputc</span><span class="p">(</span><span class="sc" style="color: #d14;">'0'</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="116" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
116
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<pre style="margin: 0;">-<span id="LC116" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span><span class="n" style="color: #333;">l</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;">x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">?</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">c</span><span class="p">;</span> <span class="n" style="color: #333;">x</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;">x</span> <span class="o" style="font-weight: 600;">/=</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="n" style="color: #333;">l</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;">x</span><span class="o" style="font-weight: 600;">%</span><span class="mi" style="color: #099;">10</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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<td class="diff-line-num old old_line" data-linenumber="117" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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;">c</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;">buf</span><span class="p">[</span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">++</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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<td class="diff-line-num old old_line" data-linenumber="118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
118
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<pre style="margin: 0;">-<span id="LC118" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="119" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
119
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<pre style="margin: 0;">-<span id="LC119" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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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<td class="diff-line-num old old_line" data-linenumber="120" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
120
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<pre style="margin: 0;">-<span id="LC120" class="line" lang="c"> <span class="n" style="color: #333;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="121" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
121
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<pre style="margin: 0;">-<span id="LC121" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="122" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
122
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<pre style="margin: 0;">-<span id="LC122" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old old_line" data-linenumber="123" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
123
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<pre style="margin: 0;">-<span id="LC123" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span><span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">l</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;">x</span> <span class="o" style="font-weight: 600;">>=</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;">x</span><span class="p">)</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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;">buf</span><span class="p">[</span><span class="n" style="color: #333;">x</span><span class="p">];</span></span>
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124
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<pre style="margin: 0;">-<span id="LC124" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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125
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<pre style="margin: 0;">-<span id="LC125" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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126
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<pre style="margin: 0;">-<span id="LC126" class="line" lang="c"><span class="p">}</span></span>
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127
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<pre style="margin: 0;">-<span id="LC127" class="line" lang="c"></span>
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128
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<pre style="margin: 0;">-<span id="LC128" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputuw</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">unsigned</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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129
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<pre style="margin: 0;">-<span id="LC129" class="line" lang="c"><span class="p">{</span></span>
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130
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<pre style="margin: 0;">-<span id="LC130" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="mi" style="color: #099;">16</span><span class="p">];</span></span>
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131
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<pre style="margin: 0;">-<span id="LC131" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">i</span><span class="p">;</span></span>
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132
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<pre style="margin: 0;">-<span id="LC132" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">unsigned</span> <span class="n" style="color: #333;">x</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;">c</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">kputc</span><span class="p">(</span><span class="sc" style="color: #d14;">'0'</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="134" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
134
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<pre style="margin: 0;">-<span id="LC134" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span><span class="n" style="color: #333;">l</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;">x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">c</span><span class="p">;</span> <span class="n" style="color: #333;">x</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;">x</span> <span class="o" style="font-weight: 600;">/=</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="n" style="color: #333;">l</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;">x</span><span class="o" style="font-weight: 600;">%</span><span class="mi" style="color: #099;">10</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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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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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136
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<pre style="margin: 0;">-<span id="LC136" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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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<td class="diff-line-num old old_line" data-linenumber="137" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
137
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<pre style="margin: 0;">-<span id="LC137" class="line" lang="c"> <span class="n" style="color: #333;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="138" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
138
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<pre style="margin: 0;">-<span id="LC138" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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139
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<pre style="margin: 0;">-<span id="LC139" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old old_line" data-linenumber="140" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
140
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<pre style="margin: 0;">-<span id="LC140" 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="n" style="color: #333;">l</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;">0</span><span class="p">;</span> <span class="o" style="font-weight: 600;">--</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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;">buf</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">];</span></span>
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<td class="diff-line-num old old_line" data-linenumber="141" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
141
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<pre style="margin: 0;">-<span id="LC141" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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142
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<pre style="margin: 0;">-<span id="LC142" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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143
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="c"><span class="p">}</span></span>
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144
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<pre style="margin: 0;">-<span id="LC144" class="line" lang="c"></span>
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145
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<pre style="margin: 0;">-<span id="LC145" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">kputl</span><span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">long</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">)</span></span>
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<td class="diff-line-num old old_line" data-linenumber="146" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
146
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<pre style="margin: 0;">-<span id="LC146" class="line" lang="c"><span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
147
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<pre style="margin: 0;">-<span id="LC147" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">char</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="mi" style="color: #099;">32</span><span class="p">];</span></span>
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<td class="diff-line-num old old_line" data-linenumber="148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
148
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<pre style="margin: 0;">-<span id="LC148" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">long</span> <span class="n" style="color: #333;">l</span><span class="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="149" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
149
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<pre style="margin: 0;">-<span id="LC149" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">kputc</span><span class="p">(</span><span class="sc" style="color: #d14;">'0'</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="150" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
150
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<pre style="margin: 0;">-<span id="LC150" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span><span class="n" style="color: #333;">l</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;">x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;"><</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">?</span> <span class="o" style="font-weight: 600;">-</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">c</span><span class="p">;</span> <span class="n" style="color: #333;">x</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;">x</span> <span class="o" style="font-weight: 600;">/=</span> <span class="mi" style="color: #099;">10</span><span class="p">)</span> <span class="n" style="color: #333;">buf</span><span class="p">[</span><span class="n" style="color: #333;">l</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;">x</span><span class="o" style="font-weight: 600;">%</span><span class="mi" style="color: #099;">10</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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<td class="diff-line-num old old_line" data-linenumber="151" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
151
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<pre style="margin: 0;">-<span id="LC151" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">c</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;">buf</span><span class="p">[</span><span class="n" style="color: #333;">l</span><span class="o" style="font-weight: 600;">++</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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<td class="diff-line-num old old_line" data-linenumber="152" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
152
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<pre style="margin: 0;">-<span id="LC152" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old old_line" data-linenumber="153" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
153
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<pre style="margin: 0;">-<span id="LC153" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">l</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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<td class="diff-line-num old old_line" data-linenumber="154" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
154
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<pre style="margin: 0;">-<span id="LC154" class="line" lang="c"> <span class="n" style="color: #333;">kroundup32</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="155" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
155
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<pre style="margin: 0;">-<span id="LC155" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num old old_line" data-linenumber="156" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
156
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<pre style="margin: 0;">-<span id="LC156" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old old_line" data-linenumber="157" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
157
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<pre style="margin: 0;">-<span id="LC157" class="line" lang="c"> <span class="k" style="font-weight: 600;">for</span> <span class="p">(</span><span class="n" style="color: #333;">x</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">l</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;">x</span> <span class="o" style="font-weight: 600;">>=</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;">x</span><span class="p">)</span> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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;">buf</span><span class="p">[</span><span class="n" style="color: #333;">x</span><span class="p">];</span></span>
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<td class="diff-line-num old old_line" data-linenumber="158" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
158
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<td class="diff-line-num new_line old" data-linenumber="0" style="width: 35px; color: rgba(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="LC158" class="line" lang="c"> <span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">l</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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<td class="diff-line-num old old_line" data-linenumber="159" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
159
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<pre style="margin: 0;">-<span id="LC159" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old old_line" data-linenumber="160" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
160
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<pre style="margin: 0;">-<span id="LC160" class="line" lang="c"><span class="p">}</span></span>
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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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162
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<pre style="margin: 0;">-<span id="LC162" class="line" lang="c"><span class="k" style="font-weight: 600;">static</span> <span class="kr" style="font-weight: 600;">inline</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">ksplit</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">delimiter</span><span class="p">,</span> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">n</span><span class="p">)</span></span>
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163
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<pre style="margin: 0;">-<span id="LC163" class="line" lang="c"><span class="p">{</span></span>
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164
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<pre style="margin: 0;">-<span id="LC164" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">max</span> <span class="o" style="font-weight: 600;">=</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;">offsets</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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165
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<pre style="margin: 0;">-<span id="LC165" class="line" lang="c"> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">n</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ksplit_core</span><span class="p">(</span><span class="n" style="color: #333;">s</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">delimiter</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">max</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">offsets</span><span class="p">);</span></span>
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166
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<pre style="margin: 0;">-<span id="LC166" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">offsets</span><span class="p">;</span></span>
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167
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<pre style="margin: 0;">-<span id="LC167" class="line" lang="c"><span class="p">}</span></span>
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168
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<pre style="margin: 0;">-<span id="LC168" class="line" lang="c"></span>
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169
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<pre style="margin: 0;">-<span id="LC169" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span></pre>
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<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#e6342f81a37c07ac43907e1be188596b74324702"><strong>kvec.h</strong>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;">/* The MIT License</span></span>
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2
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<pre style="margin: 0;">-<span id="LC2" class="line" lang="c"></span>
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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;"> Copyright (c) 2008, by Attractive Chaos <attractor@live.co.uk></span></span>
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4
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<pre style="margin: 0;">-<span id="LC4" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Permission is hereby granted, free of charge, to any person obtaining</span></span>
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6
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<pre style="margin: 0;">-<span id="LC6" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> a copy of this software and associated documentation files (the</span></span>
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7
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<pre style="margin: 0;">-<span id="LC7" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> "Software"), to deal in the Software without restriction, including</span></span>
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8
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<pre style="margin: 0;">-<span id="LC8" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> without limitation the rights to use, copy, modify, merge, publish,</span></span>
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9
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<pre style="margin: 0;">-<span id="LC9" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> distribute, sublicense, and/or sell copies of the Software, and to</span></span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> permit persons to whom the Software is furnished to do so, subject to</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> the following conditions:</span></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="c"></span>
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13
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> The above copyright notice and this permission notice shall be</span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> included in all copies or substantial portions of the Software.</span></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="c"></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;"> THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,</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;"> EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF</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;"> MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND</span></span>
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<pre style="margin: 0;">-<span id="LC19" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS</span></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;"> BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN</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;"> ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN</span></span>
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<pre style="margin: 0;">-<span id="LC22" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE</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;"> SOFTWARE.</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;">*/</span></span>
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<pre style="margin: 0;">-<span id="LC25" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC26" 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="LC27" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> An example:</span></span>
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<pre style="margin: 0;">-<span id="LC28" class="line" lang="c"></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;">#include "kvec.h"</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;">int main() {</span></span>
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31
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> kvec_t(int) array;</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;"> kv_init(array);</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;"> kv_push(int, array, 10); // append</span></span>
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<pre style="margin: 0;">-<span id="LC34" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> kv_a(int, array, 20) = 5; // dynamic</span></span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> kv_A(array, 20) = 4; // static</span></span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> kv_destroy(array);</span></span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> return 0;</span></span>
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<pre style="margin: 0;">-<span id="LC38" 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="LC39" 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="LC40" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC41" 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="LC42" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> 2008-09-22 (0.1.0):</span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> * The initial version.</span></span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC46" 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="LC47" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#ifndef AC_KVEC_H</span></span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define AC_KVEC_H</span></span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#include <stdlib.h></span></span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_roundup32(x) (--(x), (x)|=(x)>>1, (x)|=(x)>>2, (x)|=(x)>>4, (x)|=(x)>>8, (x)|=(x)>>16, ++(x))</span></span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kvec_t(type) struct { size_t n, m; type *a; }</span></span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_init(v) ((v).n = (v).m = 0, (v).a = 0)</span></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_destroy(v) free((v).a)</span></span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_A(v, i) ((v).a[(i)])</span></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_pop(v) ((v).a[--(v).n])</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_size(v) ((v).n)</span></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_max(v) ((v).m)</span></span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_resize(type, v, s) ((v).m = (s), (v).a = (type*)realloc((v).a, sizeof(type) * (v).m))</span></span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_copy(type, v1, v0) do { \</span></span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if ((v1).m < (v0).n) kv_resize(type, v1, (v0).n); \</span></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v1).n = (v0).n; \</span></span>
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> memcpy((v1).a, (v0).a, sizeof(type) * (v0).n); \</span></span>
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } while (0) \</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="cp" style="color: #999; font-weight: 600;">#define kv_push(type, v, x) do { \</span></span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> if ((v).n == (v).m) { \</span></span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v).m = (v).m? (v).m<<1 : 2; \</span></span>
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v).a = (type*)realloc((v).a, sizeof(type) * (v).m); \</span></span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } \</span></span>
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v).a[(v).n++] = (x); \</span></span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> } while (0)</span></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_pushp(type, v) (((v).n == (v).m)? \</span></span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ((v).m = ((v).m? (v).m<<1 : 2), \</span></span>
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<pre style="margin: 0;">-<span id="LC81" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v).a = (type*)realloc((v).a, sizeof(type) * (v).m), 0) \</span></span>
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<pre style="margin: 0;">-<span id="LC82" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> : 0), ((v).a + ((v).n++))</span></span>
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<pre style="margin: 0;">-<span id="LC83" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC84" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#define kv_a(type, v, i) (((v).m <= (size_t)(i)? \</span></span>
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<pre style="margin: 0;">-<span id="LC85" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> ((v).m = (v).n = (i) + 1, kv_roundup32((v).m), \</span></span>
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<pre style="margin: 0;">-<span id="LC86" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> (v).a = (type*)realloc((v).a, sizeof(type) * (v).m), 0) \</span></span>
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<pre style="margin: 0;">-<span id="LC87" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> : (v).n <= (size_t)(i)? (v).n = (i) + 1 \</span></span>
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<pre style="margin: 0;">-<span id="LC88" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;"> : 0), (v).a[(i)])</span></span>
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<pre style="margin: 0;">-<span id="LC89" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC90" class="line" lang="c"><span class="cp" style="color: #999; font-weight: 600;">#endif</span></span></pre>
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<a href="https://salsa.debian.org/med-team/seqtk/commit/ba538534001ad07ceffd5ca1157bc37df5f2ece2#2ee6777bef5c31e8169bd6d7549fcd5272f232b6"><strong>seqtk.c</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;">/* The MIT License</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="c"></span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Copyright (c) 2008<span class="idiff left right">2-2012 by Heng Li <lh3@me.com></span></span></span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Copyright (c) 2008<span class="idiff left right">-2016 Broad Institute</span></span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC5" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> Permission is hereby granted, free of charge, to any person obtaining</span></span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="c"><span class="cm" style="color: #998; font-style: italic;"> a copy of this software and associated documentation files (the</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">@@ -57,9 +57,10 @@ reghash_t *stk_reg_read(const char *fn)</td>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">dret</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC58" class="line" lang="c"> <span class="n" style="color: #333;">kstring_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">str</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC59" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// read the list</span></span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="c"> <span class="n" style="color: #333;">str</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span><span class="p">));</span></span>
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<pre style="margin: 0;"> <span id="LC60" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">fn</span><span class="p">,</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">fn</span><span class="p">,</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC61" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<pre style="margin: 0;"> <span id="LC62" class="line" lang="c"> <span class="n" style="color: #333;">ks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ks_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC63" class="line" lang="c"> <span class="n" style="color: #333;">str</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span><span class="p">));</span></span>
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<pre style="margin: 0;"> <span id="LC64" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">ks_getuntil</span><span class="p">(</span><span class="n" style="color: #333;">ks</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">str</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dret</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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<pre style="margin: 0;"> <span id="LC65" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">beg</span> <span class="o" style="font-weight: 600;">=</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;">end</span> <span class="o" style="font-weight: 600;">=</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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65
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66
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<pre style="margin: 0;"> <span id="LC66" class="line" lang="c"> <span class="n" style="color: #333;">reglist_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="298" style="width: 35px; color: rgba(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="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">@@ -298,10 +299,15 @@ int stk_trimfq(int argc, char *argv[])</td>
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298
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299
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<pre style="margin: 0;"> <span id="LC299" 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;">" -b INT trim INT bp from left (non-zero to disable -q/-l) [0]</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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299
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300
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<pre style="margin: 0;"> <span id="LC300" 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;">" -e INT trim INT bp from right (non-zero to disable -q/-l) [0]</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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300
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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;">fprintf</span><span class="p">(</span><span class="n" style="color: #333;">stderr</span><span class="p">,</span> <span class="s" style="color: #d14;">" -L INT retain at most INT bp from the 5'-end (non-zero to disable -q/-l) [0]</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="302" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
302
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<pre style="margin: 0;">+<span id="LC302" 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;">" -Q force FASTQ output</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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301
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303
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<pre style="margin: 0;"> <span id="LC303" 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;">"</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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302
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304
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<pre style="margin: 0;"> <span id="LC304" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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303
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305
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<pre style="margin: 0;"> <span id="LC305" class="line" lang="c"> <span class="p">}</span></span>
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304
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306
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<pre style="margin: 0;"> <span id="LC306" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="307" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
307
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<pre style="margin: 0;">+<span id="LC307" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="308" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
308
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<pre style="margin: 0;">+<span id="LC308" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="309" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
309
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<pre style="margin: 0;">+<span id="LC309" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="310" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
310
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<pre style="margin: 0;">+<span id="LC310" class="line" lang="c"> <span class="p">}</span></span>
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305
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<td class="diff-line-num new_line" data-linenumber="311" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
311
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<pre style="margin: 0;"> <span id="LC311" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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306
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312
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<pre style="margin: 0;"> <span id="LC312" 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;">0</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;">128</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span><span class="p">)</span></span>
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307
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<td class="diff-line-num new_line" data-linenumber="313" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
313
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<pre style="margin: 0;"> <span id="LC313" class="line" lang="c"> <span class="n" style="color: #333;">q_int2real</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;">pow</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">.,</span> <span class="o" style="font-weight: 600;">-</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;">33</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="mi" style="color: #099;">10</span><span class="p">.);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="336" style="width: 35px; color: rgba(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="342" style="width: 35px; color: rgba(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">@@ -336,12 +342,12 @@ int stk_trimfq(int argc, char *argv[])</td>
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336
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342
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<pre style="margin: 0;"> <span id="LC342" class="line" lang="c"> <span class="n" style="color: #333;">end</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">beg</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">min_len</span><span class="p">;</span></span>
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343
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<pre style="margin: 0;"> <span id="LC343" class="line" lang="c"> <span class="p">}</span></span>
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338
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344
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<pre style="margin: 0;"> <span id="LC344" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="n" style="color: #333;">beg</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;">end</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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339
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<pre style="margin: 0;">-<span id="LC339" class="line" lang="c"> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;"><span class="idiff left">qual</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">l</span></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="sc" style="color: #d14;">'>'</span><span class="p">);</span> <span class="n" style="color: #333;">fputs</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">name</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">stdout</span><span class="p">);</span> </span>
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345
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<pre style="margin: 0;">+<span id="LC345" class="line" lang="c"> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;"><span class="idiff left right">is_fastq</span></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="sc" style="color: #d14;">'>'</span><span class="p">);</span> <span class="n" style="color: #333;">fputs</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">name</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">stdout</span><span class="p">);</span> </span>
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340
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346
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<pre style="margin: 0;"> <span id="LC346" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">comment</span><span class="p">.</span><span class="n" style="color: #333;">l</span><span class="p">)</span> <span class="p">{</span></span>
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341
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347
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<pre style="margin: 0;"> <span id="LC347" class="line" lang="c"> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="sc" style="color: #d14;">' '</span><span class="p">);</span> <span class="n" style="color: #333;">puts</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">comment</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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342
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<td class="diff-line-num new_line" data-linenumber="348" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
348
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<pre style="margin: 0;"> <span id="LC348" class="line" lang="c"> <span class="p">}</span> <span class="k" style="font-weight: 600;">else</span> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="sc" style="color: #d14;">'\n'</span><span class="p">);</span></span>
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343
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349
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<pre style="margin: 0;"> <span id="LC349" class="line" lang="c"> <span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">beg</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">end</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">beg</span><span class="p">,</span> <span class="n" style="color: #333;">stdout</span><span class="p">);</span> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="sc" style="color: #d14;">'\n'</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC344" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;"><span class="idiff left">qual</span></span><span class="p"><span class="idiff">.</span></span><span class="n" style="color: #333;"><span class="idiff right">l</span></span><span class="p">)</span> <span class="p">{</span></span>
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<pre style="margin: 0;">+<span id="LC350" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;"><span class="idiff left right">is_fastq</span></span><span class="p">)</span> <span class="p">{</span></span>
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345
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<pre style="margin: 0;"> <span id="LC351" class="line" lang="c"> <span class="n" style="color: #333;">puts</span><span class="p">(</span><span class="s" style="color: #d14;">"+"</span><span class="p">);</span></span>
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346
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352
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<pre style="margin: 0;"> <span id="LC352" class="line" lang="c"> <span class="n" style="color: #333;">fwrite</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">+</span> <span class="n" style="color: #333;">beg</span><span class="p">,</span> <span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="n" style="color: #333;">end</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">beg</span><span class="p">,</span> <span class="n" style="color: #333;">stdout</span><span class="p">);</span> <span class="n" style="color: #333;">putchar</span><span class="p">(</span><span class="sc" style="color: #d14;">'\n'</span><span class="p">);</span></span>
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347
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353
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<pre style="margin: 0;"> <span id="LC353" 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="372" style="width: 35px; color: rgba(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="378" style="width: 35px; color: rgba(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">@@ -372,6 +378,10 @@ int stk_comp(int argc, char *argv[])</td>
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372
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378
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<pre style="margin: 0;"> <span id="LC378" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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373
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379
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<pre style="margin: 0;"> <span id="LC379" class="line" lang="c"> <span class="p">}</span></span>
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374
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380
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<pre style="margin: 0;"> <span id="LC380" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">optind</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">argc</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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381
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<pre style="margin: 0;">+<span id="LC381" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="382" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
382
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<pre style="margin: 0;">+<span id="LC382" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="383" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
383
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<pre style="margin: 0;">+<span id="LC383" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="384" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
384
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<pre style="margin: 0;">+<span id="LC384" class="line" lang="c"> <span class="p">}</span></span>
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375
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<td class="diff-line-num new_line" data-linenumber="385" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
385
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<pre style="margin: 0;"> <span id="LC385" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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376
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<td class="diff-line-num new_line" data-linenumber="386" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
386
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<pre style="margin: 0;"> <span id="LC386" class="line" lang="c"> <span class="n" style="color: #333;">dummy</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;">dummy</span><span class="p">.</span><span class="n" style="color: #333;">m</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;">dummy</span><span class="p">.</span><span class="n" style="color: #333;">a</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="mi" style="color: #099;">8</span><span class="p">);</span></span>
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377
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<td class="diff-line-num new_line" data-linenumber="387" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
387
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<pre style="margin: 0;"> <span id="LC387" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="437" style="width: 35px; color: rgba(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="447" style="width: 35px; color: rgba(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">@@ -437,6 +447,10 @@ int stk_randbase(int argc, char *argv[])</td>
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437
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447
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<pre style="margin: 0;"> <span id="LC447" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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438
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448
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<pre style="margin: 0;"> <span id="LC448" class="line" lang="c"> <span class="p">}</span></span>
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439
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449
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<pre style="margin: 0;"> <span id="LC449" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</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 class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="450" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
450
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<pre style="margin: 0;">+<span id="LC450" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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451
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<pre style="margin: 0;">+<span id="LC451" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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452
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<pre style="margin: 0;">+<span id="LC452" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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453
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<pre style="margin: 0;">+<span id="LC453" class="line" lang="c"> <span class="p">}</span></span>
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440
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454
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<pre style="margin: 0;"> <span id="LC454" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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441
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455
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<pre style="margin: 0;"> <span id="LC455" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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442
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456
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<pre style="margin: 0;"> <span id="LC456" 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="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="489" style="width: 35px; color: rgba(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="503" style="width: 35px; color: rgba(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">@@ -489,6 +503,10 @@ int stk_hety(int argc, char *argv[])</td>
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489
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503
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<pre style="margin: 0;"> <span id="LC503" class="line" lang="c"> <span class="p">}</span></span>
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490
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504
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<pre style="margin: 0;"> <span id="LC504" class="line" lang="c"> <span class="p">}</span></span>
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491
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505
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<pre style="margin: 0;"> <span id="LC505" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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506
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<pre style="margin: 0;">+<span id="LC506" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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507
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<pre style="margin: 0;">+<span id="LC507" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</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;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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509
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<pre style="margin: 0;">+<span id="LC509" class="line" lang="c"> <span class="p">}</span></span>
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492
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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;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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493
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511
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<pre style="margin: 0;"> <span id="LC511" class="line" lang="c"> <span class="n" style="color: #333;">win_step</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">win_size</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">n_start</span><span class="p">;</span></span>
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494
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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;">buf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="n" style="color: #333;">win_size</span><span class="p">,</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 old_line" data-linenumber="547" style="width: 35px; color: rgba(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">@@ -547,8 +565,16 @@ int stk_subseq(int argc, char *argv[])</td>
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547
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565
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<pre style="margin: 0;"> <span id="LC565" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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548
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566
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<pre style="margin: 0;"> <span id="LC566" class="line" lang="c"> <span class="p">}</span></span>
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549
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567
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<pre style="margin: 0;"> <span id="LC567" class="line" lang="c"> <span class="n" style="color: #333;">h</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">stk_reg_read</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</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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568
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<pre style="margin: 0;">+<span id="LC568" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">h</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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569
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<pre style="margin: 0;">+<span id="LC569" 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;">"[E::%s] failed to read the list of regions in file '%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;">__func__</span><span class="p">,</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</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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570
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<pre style="margin: 0;">+<span id="LC570" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<pre style="margin: 0;">+<span id="LC571" class="line" lang="c"> <span class="p">}</span></span>
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550
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572
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<pre style="margin: 0;"> <span id="LC572" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// subseq</span></span>
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551
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573
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<pre style="margin: 0;"> <span id="LC573" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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574
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<pre style="margin: 0;">+<span id="LC574" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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575
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<pre style="margin: 0;">+<span id="LC575" 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;">"[E::%s] failed to open the input file/stream</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;">__func__</span><span class="p">);</span></span>
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576
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<pre style="margin: 0;">+<span id="LC576" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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577
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<pre style="margin: 0;">+<span id="LC577" class="line" lang="c"> <span class="p">}</span></span>
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552
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<td class="diff-line-num new_line" data-linenumber="578" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
578
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<pre style="margin: 0;"> <span id="LC578" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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553
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579
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<pre style="margin: 0;"> <span id="LC579" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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554
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580
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<pre style="margin: 0;"> <span id="LC580" class="line" lang="c"> <span class="n" style="color: #333;">reglist_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="626" style="width: 35px; color: rgba(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="652" style="width: 35px; color: rgba(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">@@ -626,6 +652,10 @@ int stk_mergefa(int argc, char *argv[])</td>
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626
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652
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<pre style="margin: 0;"> <span id="LC652" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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627
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653
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<pre style="margin: 0;"> <span id="LC653" class="line" lang="c"> <span class="n" style="color: #333;">seq</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;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>
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628
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654
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<pre style="margin: 0;"> <span id="LC654" class="line" lang="c"> <span class="p">}</span></span>
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655
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<pre style="margin: 0;">+<span id="LC655" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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;">0</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">fp</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="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span></span>
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656
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<pre style="margin: 0;">+<span id="LC656" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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657
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<pre style="margin: 0;">+<span id="LC657" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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658
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<pre style="margin: 0;">+<span id="LC658" class="line" lang="c"> <span class="p">}</span></span>
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629
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<td class="diff-line-num new_line" data-linenumber="659" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
659
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<pre style="margin: 0;"> <span id="LC659" class="line" lang="c"> <span class="n" style="color: #333;">cnt</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;">cnt</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="n" style="color: #333;">cnt</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cnt</span><span class="p">[</span><span class="mi" style="color: #099;">3</span><span class="p">]</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">cnt</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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630
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660
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<pre style="margin: 0;"> <span id="LC660" class="line" lang="c"> <span class="n" style="color: #333;">srand48</span><span class="p">(</span><span class="mi" style="color: #099;">11</span><span class="p">);</span></span>
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631
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661
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<pre style="margin: 0;"> <span id="LC661" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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;">0</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="707" style="width: 35px; color: rgba(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="737" style="width: 35px; color: rgba(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">@@ -707,6 +737,10 @@ int stk_famask(int argc, char *argv[])</td>
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707
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737
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<pre style="margin: 0;"> <span id="LC737" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="o" style="font-weight: 600;">+</span><span class="n" style="color: #333;">i</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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708
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738
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<pre style="margin: 0;"> <span id="LC738" class="line" lang="c"> <span class="n" style="color: #333;">seq</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;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>
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709
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<td class="diff-line-num new_line" data-linenumber="739" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
739
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<pre style="margin: 0;"> <span id="LC739" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num new old_line" data-linenumber="710" style="width: 35px; color: rgba(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="740" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
740
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<pre style="margin: 0;">+<span id="LC740" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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;">0</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">fp</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="mi" style="color: #099;">0</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="741" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
741
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<pre style="margin: 0;">+<span id="LC741" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="742" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
742
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<pre style="margin: 0;">+<span id="LC742" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="743" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
743
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<pre style="margin: 0;">+<span id="LC743" class="line" lang="c"> <span class="p">}</span></span>
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710
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<td class="diff-line-num new_line" data-linenumber="744" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
744
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<pre style="margin: 0;"> <span id="LC744" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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;">0</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="711" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
711
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<td class="diff-line-num new_line" data-linenumber="745" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
745
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<pre style="margin: 0;"> <span id="LC745" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">min_l</span><span class="p">,</span> <span class="n" style="color: #333;">c</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">];</span></span>
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712
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<td class="diff-line-num new_line" data-linenumber="746" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
746
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<pre style="margin: 0;"> <span id="LC746" class="line" lang="c"> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="p">[</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 old_line" data-linenumber="746" style="width: 35px; color: rgba(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="780" style="width: 35px; color: rgba(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">@@ -746,6 +780,10 @@ int stk_mutfa(int argc, char *argv[])</td>
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746
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780
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<pre style="margin: 0;"> <span id="LC780" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// read the list</span></span>
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<td class="diff-line-num old_line" data-linenumber="747" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
747
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<td class="diff-line-num new_line" data-linenumber="781" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
781
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<pre style="margin: 0;"> <span id="LC781" class="line" lang="c"> <span class="n" style="color: #333;">str</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">calloc</span><span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">kstring_t</span><span class="p">));</span></span>
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<td class="diff-line-num old_line" data-linenumber="748" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
748
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<td class="diff-line-num new_line" data-linenumber="782" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
782
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<pre style="margin: 0;"> <span id="LC782" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="783" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
783
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<pre style="margin: 0;">+<span id="LC783" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="784" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
784
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<pre style="margin: 0;">+<span id="LC784" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="785" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
785
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<pre style="margin: 0;">+<span id="LC785" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="786" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
786
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<pre style="margin: 0;">+<span id="LC786" class="line" lang="c"> <span class="p">}</span></span>
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749
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<td class="diff-line-num new_line" data-linenumber="787" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
787
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<pre style="margin: 0;"> <span id="LC787" class="line" lang="c"> <span class="n" style="color: #333;">ks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ks_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="750" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
750
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<td class="diff-line-num new_line" data-linenumber="788" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
788
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<pre style="margin: 0;"> <span id="LC788" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">ks_getuntil</span><span class="p">(</span><span class="n" style="color: #333;">ks</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="n" style="color: #333;">str</span><span class="p">,</span> <span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">dret</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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<td class="diff-line-num old_line" data-linenumber="751" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
751
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<td class="diff-line-num new_line" data-linenumber="789" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
789
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<pre style="margin: 0;"> <span id="LC789" class="line" lang="c"> <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;">s</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">strdup</span><span class="p">(</span><span class="n" style="color: #333;">str</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold new_line" data-linenumber="813" style="width: 35px; color: rgba(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">@@ -775,6 +813,10 @@ int stk_mutfa(int argc, char *argv[])</td>
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775
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813
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<pre style="margin: 0;"> <span id="LC813" class="line" lang="c"> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">str</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">s</span><span class="p">);</span> <span class="n" style="color: #333;">free</span><span class="p">(</span><span class="n" style="color: #333;">str</span><span class="p">);</span></span>
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776
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814
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<pre style="margin: 0;"> <span id="LC814" class="line" lang="c"> <span class="c1" style="color: #998; font-style: italic;">// mutfa</span></span>
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<td class="diff-line-num old_line" data-linenumber="777" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
777
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<td class="diff-line-num new_line" data-linenumber="815" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
815
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<pre style="margin: 0;"> <span id="LC815" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="816" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
816
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<pre style="margin: 0;">+<span id="LC816" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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817
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<pre style="margin: 0;">+<span id="LC817" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="818" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
818
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<pre style="margin: 0;">+<span id="LC818" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="819" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
819
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<pre style="margin: 0;">+<span id="LC819" class="line" lang="c"> <span class="p">}</span></span>
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778
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820
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<pre style="margin: 0;"> <span id="LC820" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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779
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821
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<pre style="margin: 0;"> <span id="LC821" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num old_line" data-linenumber="780" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
780
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822
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<pre style="margin: 0;"> <span id="LC822" class="line" lang="c"> <span class="n" style="color: #333;">reglist_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">p</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="817" style="width: 35px; color: rgba(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="859" style="width: 35px; color: rgba(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">@@ -817,6 +859,10 @@ int stk_listhet(int argc, char *argv[])</td>
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817
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859
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<pre style="margin: 0;"> <span id="LC859" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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818
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860
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<pre style="margin: 0;"> <span id="LC860" class="line" lang="c"> <span class="p">}</span></span>
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819
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<td class="diff-line-num new_line" data-linenumber="861" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
861
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<pre style="margin: 0;"> <span id="LC861" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</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 class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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862
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<pre style="margin: 0;">+<span id="LC862" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="863" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
863
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<pre style="margin: 0;">+<span id="LC863" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="864" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
864
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<pre style="margin: 0;">+<span id="LC864" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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865
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<pre style="margin: 0;">+<span id="LC865" class="line" lang="c"> <span class="p">}</span></span>
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820
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866
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<pre style="margin: 0;"> <span id="LC866" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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821
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<td class="diff-line-num new_line" data-linenumber="867" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
867
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<pre style="margin: 0;"> <span id="LC867" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num old_line" data-linenumber="822" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
822
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<td class="diff-line-num new_line" data-linenumber="868" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
868
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<pre style="margin: 0;"> <span id="LC868" 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;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">l</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="902" style="width: 35px; color: rgba(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="948" style="width: 35px; color: rgba(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">@@ -902,6 +948,10 @@ int stk_cutN(int argc, char *argv[])</td>
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<td class="diff-line-num old_line" data-linenumber="902" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
902
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<td class="diff-line-num new_line" data-linenumber="948" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
948
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<pre style="margin: 0;"> <span id="LC948" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="903" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
903
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<td class="diff-line-num new_line" data-linenumber="949" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
949
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<pre style="margin: 0;"> <span id="LC949" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="904" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
904
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<td class="diff-line-num new_line" data-linenumber="950" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
950
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<pre style="margin: 0;"> <span id="LC950" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="905" style="width: 35px; color: rgba(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="951" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
951
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<pre style="margin: 0;">+<span id="LC951" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new old_line" data-linenumber="905" style="width: 35px; color: rgba(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="952" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
952
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<pre style="margin: 0;">+<span id="LC952" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="953" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
953
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<pre style="margin: 0;">+<span id="LC953" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="954" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
954
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<pre style="margin: 0;">+<span id="LC954" class="line" lang="c"> <span class="p">}</span></span>
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905
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<td class="diff-line-num new_line" data-linenumber="955" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
955
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<pre style="margin: 0;"> <span id="LC955" class="line" lang="c"> <span class="n" style="color: #333;">ks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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906
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<td class="diff-line-num new_line" data-linenumber="956" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
956
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<pre style="margin: 0;"> <span id="LC956" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">ks</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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<td class="diff-line-num old_line" data-linenumber="907" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
907
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<td class="diff-line-num new_line" data-linenumber="957" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
957
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<pre style="margin: 0;"> <span id="LC957" 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;">begin</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;">end</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="930" style="width: 35px; color: rgba(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="980" style="width: 35px; color: rgba(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">@@ -930,6 +980,10 @@ int stk_hrun(int argc, char *argv[])</td>
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<td class="diff-line-num old_line" data-linenumber="930" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
930
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<td class="diff-line-num new_line" data-linenumber="980" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
980
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<pre style="margin: 0;"> <span id="LC980" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="931" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
931
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<td class="diff-line-num new_line" data-linenumber="981" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
981
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<pre style="margin: 0;"> <span id="LC981" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">argc</span> <span class="o" style="font-weight: 600;">==</span> <span class="n" style="color: #333;">optind</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;">min_len</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">atoi</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</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="932" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
932
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<td class="diff-line-num new_line" data-linenumber="982" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
982
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<pre style="margin: 0;"> <span id="LC982" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="983" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
983
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<pre style="margin: 0;">+<span id="LC983" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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984
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<pre style="margin: 0;">+<span id="LC984" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="985" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
985
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<pre style="margin: 0;">+<span id="LC985" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="986" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
986
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<pre style="margin: 0;">+<span id="LC986" class="line" lang="c"> <span class="p">}</span></span>
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933
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<td class="diff-line-num new_line" data-linenumber="987" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
987
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<pre style="margin: 0;"> <span id="LC987" class="line" lang="c"> <span class="n" style="color: #333;">ks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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934
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<td class="diff-line-num new_line" data-linenumber="988" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
988
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<pre style="margin: 0;"> <span id="LC988" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">ks</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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<td class="diff-line-num old_line" data-linenumber="935" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
935
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<td class="diff-line-num new_line" data-linenumber="989" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
989
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<pre style="margin: 0;"> <span id="LC989" class="line" lang="c"> <span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">ks</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="mi" style="color: #099;">0</span><span class="p">];</span> <span class="n" style="color: #333;">l</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;">beg</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="989" style="width: 35px; color: rgba(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="1043" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -989,7 +1043,7 @@ int stk_sample(int argc, char *argv[])</td>
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989
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1043
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<pre style="margin: 0;"> <span id="LC1043" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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990
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1044
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<pre style="margin: 0;"> <span id="LC1044" class="line" lang="c"> <span class="p">}</span></span>
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991
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1045
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<pre style="margin: 0;"> <span id="LC1045" class="line" lang="c"> <span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">atof</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</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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992
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<pre style="margin: 0;">-<span id="LC992" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">></span><span class="idiff left"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="p"><span class="idiff right">.</span>)</span> <span class="n" style="color: #333;">num</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">)(</span><span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">.</span><span class="mi" style="color: #099;">499</span><span class="p">),</span> <span class="n" style="color: #333;">frac</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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1046
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<pre style="margin: 0;">+<span id="LC1046" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">><span class="idiff left">=</span></span><span class="idiff"> </span><span class="mi" style="color: #099;"><span class="idiff">1</span></span><span class="p"><span class="idiff">.</span></span><span class="mi" style="color: #099;"><span class="idiff right">0</span></span><span class="p">)</span> <span class="n" style="color: #333;">num</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="kt" style="color: #458; font-weight: 600;">uint64_t</span><span class="p">)(</span><span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">+</span> <span class="p">.</span><span class="mi" style="color: #099;">499</span><span class="p">),</span> <span class="n" style="color: #333;">frac</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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993
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1047
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<pre style="margin: 0;"> <span id="LC1047" 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;">twopass</span><span class="p">)</span> <span class="p">{</span></span>
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994
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<td class="diff-line-num new_line" data-linenumber="1048" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1048
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<pre style="margin: 0;"> <span id="LC1048" 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;">"[W::%s] when sampling a fraction, option -2 is ignored."</span><span class="p">,</span> <span class="n" style="color: #333;">__func__</span><span class="p">);</span></span>
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995
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1049
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<pre style="margin: 0;"> <span id="LC1049" class="line" lang="c"> <span class="n" style="color: #333;">twopass</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="1006" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="1060" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -1006,6 +1060,10 @@ int stk_sample(int argc, char *argv[])</td>
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1006
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1060
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<pre style="margin: 0;"> <span id="LC1060" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1007" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1007
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<td class="diff-line-num new_line" data-linenumber="1061" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1061
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<pre style="margin: 0;"> <span id="LC1061" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1008" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1008
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<td class="diff-line-num new_line" data-linenumber="1062" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1062
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<pre style="margin: 0;"> <span id="LC1062" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1009" style="width: 35px; color: rgba(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="1063" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1063
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<pre style="margin: 0;">+<span id="LC1063" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="1064" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1064
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<pre style="margin: 0;">+<span id="LC1064" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1065" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1065
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<pre style="margin: 0;">+<span id="LC1065" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1066" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1066
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<pre style="margin: 0;">+<span id="LC1066" class="line" lang="c"> <span class="p">}</span></span>
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1009
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<td class="diff-line-num new_line" data-linenumber="1067" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1067
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<pre style="margin: 0;"> <span id="LC1067" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1010" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1010
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<td class="diff-line-num new_line" data-linenumber="1068" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1068
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<pre style="margin: 0;"> <span id="LC1068" class="line" lang="c"> <span class="n" style="color: #333;">n_seqs</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="1011" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1011
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<td class="diff-line-num new_line" data-linenumber="1069" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1069
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<pre style="margin: 0;"> <span id="LC1069" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1037" style="width: 35px; color: rgba(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="1095" style="width: 35px; color: rgba(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">@@ -1037,6 +1095,10 @@ int stk_sample(int argc, char *argv[])</td>
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1037
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<td class="diff-line-num new_line" data-linenumber="1095" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1095
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<pre style="margin: 0;"> <span id="LC1095" class="line" lang="c"> <span class="n" style="color: #333;">buf</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">malloc</span><span class="p">(</span><span class="n" style="color: #333;">num</span> <span class="o" style="font-weight: 600;">*</span> <span class="mi" style="color: #099;">8</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1038" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1038
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<td class="diff-line-num new_line" data-linenumber="1096" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1096
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<pre style="margin: 0;"> <span id="LC1096" 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;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">num</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span><span class="p">)</span> <span class="n" style="color: #333;">buf</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;">UINT64_MAX</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1039" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1039
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<td class="diff-line-num new_line" data-linenumber="1097" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1097
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<pre style="margin: 0;"> <span id="LC1097" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1098" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1098
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<pre style="margin: 0;">+<span id="LC1098" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="1099" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1099
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<pre style="margin: 0;">+<span id="LC1099" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1100" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1100
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<pre style="margin: 0;">+<span id="LC1100" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1101" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1101
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<pre style="margin: 0;">+<span id="LC1101" class="line" lang="c"> <span class="p">}</span></span>
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1040
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<td class="diff-line-num new_line" data-linenumber="1102" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1102
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<pre style="margin: 0;"> <span id="LC1102" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1041" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1041
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<td class="diff-line-num new_line" data-linenumber="1103" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1103
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<pre style="margin: 0;"> <span id="LC1103" class="line" lang="c"> <span class="n" style="color: #333;">n_seqs</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="1042" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1042
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<td class="diff-line-num new_line" data-linenumber="1104" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1104
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<pre style="margin: 0;"> <span id="LC1104" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1117" style="width: 35px; color: rgba(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="1179" style="width: 35px; color: rgba(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">@@ -1117,14 +1179,14 @@ int stk_seq(int argc, char *argv[])</td>
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1117
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<td class="diff-line-num new_line" data-linenumber="1179" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1179
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<pre style="margin: 0;"> <span id="LC1179" class="line" lang="c"><span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="1118" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1118
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<td class="diff-line-num new_line" data-linenumber="1180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1180
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<pre style="margin: 0;"> <span id="LC1180" class="line" lang="c"> <span class="n" style="color: #333;">gzFile</span> <span class="n" style="color: #333;">fp</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1119" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1119
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<td class="diff-line-num new_line" data-linenumber="1181" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1181
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<pre style="margin: 0;"> <span id="LC1181" class="line" lang="c"> <span class="n" style="color: #333;">kseq_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">seq</span><span class="p">;</span></span>
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1120
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<td class="diff-line-num new_line old" data-linenumber="1182" style="width: 35px; color: rgba(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="LC1120" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">qual_thres</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;">flag</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;">qual_shift</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">33</span><span class="p">,</span> <span class="n" style="color: #333;">mask_chr</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;">min_len</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;">max_q</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">255</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1121" style="width: 35px; color: rgba(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="1182" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1182
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<pre style="margin: 0;">+<span id="LC1182" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int</span> <span class="n" style="color: #333;">c</span><span class="p">,</span> <span class="n" style="color: #333;">qual_thres</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;">flag</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;">qual_shift</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">33</span><span class="p">,</span> <span class="n" style="color: #333;">mask_chr</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;">min_len</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;">max_q</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">255</span><span class="p"><span class="idiff left">,</span></span><span class="idiff"> </span><span class="n" style="color: #333;"><span class="idiff">fake_qual</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">=</span></span><span class="idiff"> </span><span class="o" style="font-weight: 600;"><span class="idiff">-</span></span><span class="mi" style="color: #099;"><span class="idiff right">1</span></span><span class="p">;</span></span>
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1121
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<td class="diff-line-num new_line" data-linenumber="1183" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1183
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<pre style="margin: 0;"> <span id="LC1183" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">unsigned</span> <span class="n" style="color: #333;">i</span><span class="p">,</span> <span class="n" style="color: #333;">line_len</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="1122" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1122
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<td class="diff-line-num new_line" data-linenumber="1184" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1184
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<pre style="margin: 0;"> <span id="LC1184" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">int64_t</span> <span class="n" style="color: #333;">n_seqs</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="1123" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1123
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<td class="diff-line-num new_line" data-linenumber="1185" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1185
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<pre style="margin: 0;"> <span id="LC1185" class="line" lang="c"> <span class="kt" style="color: #458; font-weight: 600;">double</span> <span class="n" style="color: #333;">frac</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="1124" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1124
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<td class="diff-line-num new_line" data-linenumber="1186" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1186
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<pre style="margin: 0;"> <span id="LC1186" class="line" lang="c"> <span class="n" style="color: #333;">khash_t</span><span class="p">(</span><span class="n" style="color: #333;">reg</span><span class="p">)</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">h</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="1125" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1125
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<td class="diff-line-num new_line" data-linenumber="1187" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1187
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<pre style="margin: 0;"> <span id="LC1187" class="line" lang="c"> <span class="n" style="color: #333;">krand_t</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">kr</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="1126" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1126
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<td class="diff-line-num new_line" data-linenumber="1188" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1188
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<pre style="margin: 0;"> <span id="LC1188" class="line" lang="c"></span>
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<td class="diff-line-num old old_line" data-linenumber="1127" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1127
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<td class="diff-line-num new_line old" data-linenumber="1189" style="width: 35px; color: rgba(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="LC1127" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getopt</span><span class="p">(</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 class="s" style="color: #d14;">"N12q:l:Q:aACrn:s:f:M:L:cVUX:S"</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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<td class="diff-line-num new old_line" data-linenumber="1128" style="width: 35px; color: rgba(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="1189" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1189
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<pre style="margin: 0;">+<span id="LC1189" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">((</span><span class="n" style="color: #333;">c</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">getopt</span><span class="p">(</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 class="s" style="color: #d14;">"N12q:l:Q:aACrn:s:f:M:L:cVUX:S<span class="idiff left right">F:</span>"</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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<td class="diff-line-num old_line" data-linenumber="1128" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1128
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<td class="diff-line-num new_line" data-linenumber="1190" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1190
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<pre style="margin: 0;"> <span id="LC1190" class="line" lang="c"> <span class="k" style="font-weight: 600;">switch</span> <span class="p">(</span><span class="n" style="color: #333;">c</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num old_line" data-linenumber="1129" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1129
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<td class="diff-line-num new_line" data-linenumber="1191" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1191
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<pre style="margin: 0;"> <span id="LC1191" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'a'</span><span class="p">:</span></span>
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<td class="diff-line-num old_line" data-linenumber="1130" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1130
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<td class="diff-line-num new_line" data-linenumber="1192" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1192
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<pre style="margin: 0;"> <span id="LC1192" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'A'</span><span class="p">:</span> <span class="n" style="color: #333;">flag</span> <span class="o" style="font-weight: 600;">|=</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1146" style="width: 35px; color: rgba(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="1208" style="width: 35px; color: rgba(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">@@ -1146,6 +1208,7 @@ int stk_seq(int argc, char *argv[])</td>
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1146
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<td class="diff-line-num new_line" data-linenumber="1208" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1208
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<pre style="margin: 0;"> <span id="LC1208" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'L'</span><span class="p">:</span> <span class="n" style="color: #333;">min_len</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">atoi</span><span class="p">(</span><span class="n" style="color: #333;">optarg</span><span class="p">);</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1147" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1147
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<td class="diff-line-num new_line" data-linenumber="1209" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1209
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<pre style="margin: 0;"> <span id="LC1209" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'s'</span><span class="p">:</span> <span class="n" style="color: #333;">kr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kr_srand</span><span class="p">(</span><span class="n" style="color: #333;">atol</span><span class="p">(</span><span class="n" style="color: #333;">optarg</span><span class="p">));</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1148" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1148
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<td class="diff-line-num new_line" data-linenumber="1210" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1210
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<pre style="margin: 0;"> <span id="LC1210" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'f'</span><span class="p">:</span> <span class="n" style="color: #333;">frac</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">atof</span><span class="p">(</span><span class="n" style="color: #333;">optarg</span><span class="p">);</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1211" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1211
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<pre style="margin: 0;">+<span id="LC1211" class="line" lang="c"> <span class="k" style="font-weight: 600;">case</span> <span class="sc" style="color: #d14;">'F'</span><span class="p">:</span> <span class="n" style="color: #333;">fake_qual</span> <span class="o" style="font-weight: 600;">=</span> <span class="o" style="font-weight: 600;">*</span><span class="n" style="color: #333;">optarg</span><span class="p">;</span> <span class="k" style="font-weight: 600;">break</span><span class="p">;</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1149" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1149
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<td class="diff-line-num new_line" data-linenumber="1212" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1212
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<pre style="margin: 0;"> <span id="LC1212" class="line" lang="c"> <span class="p">}</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1150" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1150
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<td class="diff-line-num new_line" data-linenumber="1213" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1213
</td>
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<pre style="margin: 0;"> <span id="LC1213" class="line" lang="c"> <span class="p">}</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1151" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1151
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<td class="diff-line-num new_line" data-linenumber="1214" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1214
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1214" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">kr</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;">kr</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kr_srand</span><span class="p">(</span><span class="mi" style="color: #099;">11</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1161" style="width: 35px; color: rgba(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="1224" style="width: 35px; color: rgba(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">@@ -1161,6 +1224,7 @@ int stk_seq(int argc, char *argv[])</td>
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<td class="diff-line-num old_line" data-linenumber="1161" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1161
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<td class="diff-line-num new_line" data-linenumber="1224" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1224
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1224" 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;">" -f FLOAT sample FLOAT fraction of sequences [1]</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1162" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1162
</td>
<td class="diff-line-num new_line" data-linenumber="1225" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1225
</td>
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<pre style="margin: 0;"> <span id="LC1225" 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;">" -M FILE mask regions in BED or name list FILE [null]</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1163" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1163
</td>
<td class="diff-line-num new_line" data-linenumber="1226" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1226
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1226" 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;">" -L INT drop sequences with length shorter than INT [0]</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1227" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1227
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<pre style="margin: 0;">+<span id="LC1227" 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;">" -F CHAR fake FASTQ quality []</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1164" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1164
</td>
<td class="diff-line-num new_line" data-linenumber="1228" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1228
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1228" 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;">" -c mask complement region (effective with -M)</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1165" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1165
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<td class="diff-line-num new_line" data-linenumber="1229" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1229
</td>
<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1229" 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;">" -r reverse complement</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1166" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1166
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<td class="diff-line-num new_line" data-linenumber="1230" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1230
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<pre style="margin: 0;"> <span id="LC1230" 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;">" -A force FASTA output (discard quality)</span><span class="se" style="color: #d14;">\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1177" style="width: 35px; color: rgba(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="1241" style="width: 35px; color: rgba(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">@@ -1177,6 +1241,10 @@ int stk_seq(int argc, char *argv[])</td>
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<td class="diff-line-num old_line" data-linenumber="1177" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1177
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<td class="diff-line-num new_line" data-linenumber="1241" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1241
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<pre style="margin: 0;"> <span id="LC1241" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1178" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1178
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<td class="diff-line-num new_line" data-linenumber="1242" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1242
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1242" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">line_len</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;">line_len</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">UINT_MAX</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1179" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1179
</td>
<td class="diff-line-num new_line" data-linenumber="1243" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1243
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<pre style="margin: 0;"> <span id="LC1243" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">optind</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">argc</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1180" style="width: 35px; color: rgba(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="1244" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1244
</td>
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<pre style="margin: 0;">+<span id="LC1244" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new old_line" data-linenumber="1180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1245" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1245
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1245" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1180" style="width: 35px; color: rgba(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="1246" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1246
</td>
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<pre style="margin: 0;">+<span id="LC1246" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1180" style="width: 35px; color: rgba(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="1247" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1247
</td>
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<pre style="margin: 0;">+<span id="LC1247" class="line" lang="c"> <span class="p">}</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1180" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1180
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1248
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<pre style="margin: 0;"> <span id="LC1248" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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1181
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1249
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<pre style="margin: 0;"> <span id="LC1249" class="line" lang="c"> <span class="n" style="color: #333;">qual_thres</span> <span class="o" style="font-weight: 600;">+=</span> <span class="n" style="color: #333;">qual_shift</span><span class="p">;</span></span>
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1182
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1250
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<pre style="margin: 0;"> <span id="LC1250" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1215" style="width: 35px; color: rgba(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="1283" style="width: 35px; color: rgba(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">@@ -1215,6 +1283,15 @@ int stk_seq(int argc, char *argv[])</td>
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1215
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1283
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<pre style="margin: 0;"> <span id="LC1283" 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;">0</span><span class="p">;</span> <span class="n" style="color: #333;">i</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">l</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">i</span><span class="p">)</span></span>
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1216
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<td class="diff-line-num new_line" data-linenumber="1284" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1284
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<pre style="margin: 0;"> <span id="LC1284" class="line" lang="c"> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">s</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;">toupper</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">i</span><span class="p">]);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1217" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1217
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<td class="diff-line-num new_line" data-linenumber="1285" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1285
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<pre style="margin: 0;"> <span id="LC1285" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">flag</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;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">// option -a: fastq -> fasta</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1218" style="width: 35px; color: rgba(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="1286" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1286
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<pre style="margin: 0;">+<span id="LC1286" 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;">fake_qual</span> <span class="o" style="font-weight: 600;">>=</span> <span class="mi" style="color: #099;">33</span> <span class="o" style="font-weight: 600;">&&</span> <span class="n" style="color: #333;">fake_qual</span> <span class="o" style="font-weight: 600;"><=</span> <span class="mi" style="color: #099;">127</span><span class="p">)</span> <span class="p">{</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1287" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1287
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<pre style="margin: 0;">+<span id="LC1287" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;"><</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">m</span><span class="p">)</span> <span class="p">{</span></span>
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1288
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<pre style="margin: 0;">+<span id="LC1288" class="line" lang="c"> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">m</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">m</span><span class="p">;</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1289" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1289
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<pre style="margin: 0;">+<span id="LC1289" class="line" lang="c"> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">s</span> <span class="o" style="font-weight: 600;">=</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="p">)</span><span class="n" style="color: #333;">realloc</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">m</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1290" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1290
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<pre style="margin: 0;">+<span id="LC1290" class="line" lang="c"> <span class="p">}</span></span>
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1291
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<pre style="margin: 0;">+<span id="LC1291" class="line" lang="c"> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">seq</span><span class="p">.</span><span class="n" style="color: #333;">l</span><span class="p">;</span></span>
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1292
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<pre style="margin: 0;">+<span id="LC1292" class="line" lang="c"> <span class="n" style="color: #333;">memset</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">,</span> <span class="n" style="color: #333;">fake_qual</span><span class="p">,</span> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">l</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1293" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1293
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<pre style="margin: 0;">+<span id="LC1293" class="line" lang="c"> <span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">s</span><span class="p">[</span><span class="n" style="color: #333;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">qual</span><span class="p">.</span><span class="n" style="color: #333;">l</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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<td class="diff-line-num new new_line" data-linenumber="1294" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1294
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<pre style="margin: 0;">+<span id="LC1294" class="line" lang="c"> <span class="p">}</span></span>
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1218
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<td class="diff-line-num new_line" data-linenumber="1295" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1295
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<pre style="margin: 0;"> <span id="LC1295" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">flag</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;">seq</span><span class="o" style="font-weight: 600;">-></span><span class="n" style="color: #333;">comment</span><span class="p">.</span><span class="n" style="color: #333;">l</span> <span class="o" style="font-weight: 600;">=</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span> <span class="c1" style="color: #998; font-style: italic;">// option -C: drop fasta/q comments</span></span>
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1219
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1296
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<pre style="margin: 0;"> <span id="LC1296" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">h</span><span class="p">)</span> <span class="n" style="color: #333;">stk_mask</span><span class="p">(</span><span class="n" style="color: #333;">seq</span><span class="p">,</span> <span class="n" style="color: #333;">h</span><span class="p">,</span> <span class="n" style="color: #333;">flag</span><span class="o" style="font-weight: 600;">&</span><span class="mi" style="color: #099;">8</span><span class="p">,</span> <span class="n" style="color: #333;">mask_chr</span><span class="p">);</span> <span class="c1" style="color: #998; font-style: italic;">// masking</span></span>
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<td class="diff-line-num old_line" data-linenumber="1220" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1220
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<td class="diff-line-num new_line" data-linenumber="1297" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1297
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<pre style="margin: 0;"> <span id="LC1297" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">flag</span> <span class="o" style="font-weight: 600;">&</span> <span class="mi" style="color: #099;">4</span><span class="p">)</span> <span class="p">{</span> <span class="c1" style="color: #998; font-style: italic;">// option -r: reverse complement</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1274" style="width: 35px; color: rgba(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="1351" style="width: 35px; color: rgba(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">@@ -1274,6 +1351,10 @@ int stk_gc(int argc, char *argv[])</td>
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1274
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1351
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<pre style="margin: 0;"> <span id="LC1351" class="line" lang="c"> <span class="n" style="color: #333;">q</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="mi" style="color: #099;">1</span><span class="p">.</span><span class="mi" style="color: #099;">0</span><span class="n" style="color: #333;">f</span> <span class="o" style="font-weight: 600;">-</span> <span class="n" style="color: #333;">frac</span><span class="p">)</span> <span class="o" style="font-weight: 600;">/</span> <span class="n" style="color: #333;">frac</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1275" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1275
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<td class="diff-line-num new_line" data-linenumber="1352" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1352
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<pre style="margin: 0;"> <span id="LC1352" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1276" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1276
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<td class="diff-line-num new_line" data-linenumber="1353" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1353
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<pre style="margin: 0;"> <span id="LC1353" class="line" lang="c"> <span class="n" style="color: #333;">fp</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;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1277" style="width: 35px; color: rgba(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="1354" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1354
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<pre style="margin: 0;">+<span id="LC1354" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new old_line" data-linenumber="1277" style="width: 35px; color: rgba(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="1355" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1355
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<pre style="margin: 0;">+<span id="LC1355" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1356" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1356
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<pre style="margin: 0;">+<span id="LC1356" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1277" style="width: 35px; color: rgba(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="1357" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1357
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<pre style="margin: 0;">+<span id="LC1357" class="line" lang="c"> <span class="p">}</span></span>
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1277
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<td class="diff-line-num new_line" data-linenumber="1358" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1358
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<pre style="margin: 0;"> <span id="LC1358" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1278" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1278
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<td class="diff-line-num new_line" data-linenumber="1359" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1359
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<pre style="margin: 0;"> <span id="LC1359" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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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<td class="diff-line-num old_line" data-linenumber="1279" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1279
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<td class="diff-line-num new_line" data-linenumber="1360" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1360
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<pre style="margin: 0;"> <span id="LC1360" 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="p">,</span> <span class="n" style="color: #333;">start</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;">max_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;">n_hits</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;">start_hits</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;">max_hits</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="1317" style="width: 35px; color: rgba(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="1398" style="width: 35px; color: rgba(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">@@ -1317,6 +1398,10 @@ int stk_mergepe(int argc, char *argv[])</td>
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1317
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<td class="diff-line-num new_line" data-linenumber="1398" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1398
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<pre style="margin: 0;"> <span id="LC1398" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1318" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1318
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<td class="diff-line-num new_line" data-linenumber="1399" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1399
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<pre style="margin: 0;"> <span id="LC1399" class="line" lang="c"> <span class="n" style="color: #333;">fp1</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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1319" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1319
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<td class="diff-line-num new_line" data-linenumber="1400" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1400
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<pre style="margin: 0;"> <span id="LC1400" class="line" lang="c"> <span class="n" style="color: #333;">fp2</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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1401" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1401
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<pre style="margin: 0;">+<span id="LC1401" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp1</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span> <span class="o" style="font-weight: 600;">||</span> <span class="n" style="color: #333;">fp2</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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<td class="diff-line-num new new_line" data-linenumber="1402" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1402
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<pre style="margin: 0;">+<span id="LC1402" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1320" style="width: 35px; color: rgba(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="1403" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1403
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<pre style="margin: 0;">+<span id="LC1403" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1404" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1404
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<pre style="margin: 0;">+<span id="LC1404" class="line" lang="c"> <span class="p">}</span></span>
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1320
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<td class="diff-line-num new_line" data-linenumber="1405" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1405
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<pre style="margin: 0;"> <span id="LC1405" class="line" lang="c"> <span class="n" style="color: #333;">seq</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;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp1</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1321" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1321
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<td class="diff-line-num new_line" data-linenumber="1406" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1406
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<pre style="margin: 0;"> <span id="LC1406" class="line" lang="c"> <span class="n" style="color: #333;">seq</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="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp2</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1322" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1322
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<td class="diff-line-num new_line" data-linenumber="1407" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1407
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<pre style="margin: 0;"> <span id="LC1407" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">seq</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;">0</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="1344" style="width: 35px; color: rgba(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="1429" style="width: 35px; color: rgba(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">@@ -1344,6 +1429,10 @@ int stk_dropse(int argc, char *argv[])</td>
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1344
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<td class="diff-line-num new_line" data-linenumber="1429" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1429
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<pre style="margin: 0;"> <span id="LC1429" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1345" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1345
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<td class="diff-line-num new_line" data-linenumber="1430" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1430
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<pre style="margin: 0;"> <span id="LC1430" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1346" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1346
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<td class="diff-line-num new_line" data-linenumber="1431" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1431
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<pre style="margin: 0;"> <span id="LC1431" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argc</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;">strcmp</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 class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1432" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1432
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<pre style="margin: 0;">+<span id="LC1432" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new old_line" data-linenumber="1347" style="width: 35px; color: rgba(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="1433" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1433
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<pre style="margin: 0;">+<span id="LC1433" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1434" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1434
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<pre style="margin: 0;">+<span id="LC1434" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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<td class="diff-line-num new old_line" data-linenumber="1347" style="width: 35px; color: rgba(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="1435" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1435
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<pre style="margin: 0;">+<span id="LC1435" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1347" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1347
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<td class="diff-line-num new_line" data-linenumber="1436" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1436
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<pre style="margin: 0;"> <span id="LC1436" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1348" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1348
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<td class="diff-line-num new_line" data-linenumber="1437" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1437
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<pre style="margin: 0;"> <span id="LC1437" class="line" lang="c"></span>
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<td class="diff-line-num old_line" data-linenumber="1349" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1349
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<td class="diff-line-num new_line" data-linenumber="1438" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1438
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<pre style="margin: 0;"> <span id="LC1438" class="line" lang="c"> <span class="n" style="color: #333;">memset</span><span class="p">(</span><span class="o" style="font-weight: 600;">&</span><span class="n" style="color: #333;">last</span><span class="p">,</span> <span class="mi" style="color: #099;">0</span><span class="p">,</span> <span class="k" style="font-weight: 600;">sizeof</span><span class="p">(</span><span class="n" style="color: #333;">kseq_t</span><span class="p">));</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1381" style="width: 35px; color: rgba(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="1470" style="width: 35px; color: rgba(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">@@ -1381,6 +1470,10 @@ int stk_rename(int argc, char *argv[])</td>
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1381
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<td class="diff-line-num new_line" data-linenumber="1470" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1470
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<pre style="margin: 0;"> <span id="LC1470" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1382" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1382
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<td class="diff-line-num new_line" data-linenumber="1471" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1471
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<pre style="margin: 0;"> <span id="LC1471" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old_line" data-linenumber="1383" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1383
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<td class="diff-line-num new_line" data-linenumber="1472" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1472
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<pre style="margin: 0;"> <span id="LC1472" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argc</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;">strcmp</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 class="s" style="color: #d14;">"-"</span><span class="p">)</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzopen</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 class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1473" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1473
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<pre style="margin: 0;">+<span id="LC1473" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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1474
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<pre style="margin: 0;">+<span id="LC1474" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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<td class="diff-line-num new new_line" data-linenumber="1475" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1475
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<pre style="margin: 0;">+<span id="LC1475" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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1476
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<pre style="margin: 0;">+<span id="LC1476" class="line" lang="c"> <span class="p">}</span></span>
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1384
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<td class="diff-line-num new_line" data-linenumber="1477" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1477
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<pre style="margin: 0;"> <span id="LC1477" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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1385
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1478
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<pre style="margin: 0;"> <span id="LC1478" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">argc</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;">prefix</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">];</span></span>
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<td class="diff-line-num old_line" data-linenumber="1386" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1386
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1479
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<pre style="margin: 0;"> <span id="LC1479" class="line" lang="c"></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1444" style="width: 35px; color: rgba(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="1537" style="width: 35px; color: rgba(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">@@ -1444,6 +1537,10 @@ int stk_kfreq(int argc, char *argv[])</td>
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1444
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1537
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<pre style="margin: 0;"> <span id="LC1537" class="line" lang="c"> <span class="p">}</span></span>
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1445
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1538
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<pre style="margin: 0;"> <span id="LC1538" class="line" lang="c"></span>
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1446
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<td class="diff-line-num new_line" data-linenumber="1539" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1539
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<pre style="margin: 0;"> <span id="LC1539" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">argc</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="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">0</span><span class="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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1540
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<pre style="margin: 0;">+<span id="LC1540" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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<td class="diff-line-num new new_line" data-linenumber="1541" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1541
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<pre style="margin: 0;">+<span id="LC1541" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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1542
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<pre style="margin: 0;">+<span id="LC1542" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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1543
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<pre style="margin: 0;">+<span id="LC1543" class="line" lang="c"> <span class="p">}</span></span>
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1447
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<td class="diff-line-num new_line" data-linenumber="1544" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1544
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<pre style="margin: 0;"> <span id="LC1544" class="line" lang="c"> <span class="n" style="color: #333;">ks</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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<td class="diff-line-num old_line" data-linenumber="1448" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1448
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<td class="diff-line-num new_line" data-linenumber="1545" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1545
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<pre style="margin: 0;"> <span id="LC1545" class="line" lang="c"> <span class="k" style="font-weight: 600;">while</span> <span class="p">(</span><span class="n" style="color: #333;">kseq_read</span><span class="p">(</span><span class="n" style="color: #333;">ks</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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<td class="diff-line-num old_line" data-linenumber="1449" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1449
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<td class="diff-line-num new_line" data-linenumber="1546" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1546
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<pre style="margin: 0;"> <span id="LC1546" 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="p">,</span> <span class="n" style="color: #333;">x</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">cnt</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">cnt_nei</span><span class="p">[</span><span class="mi" style="color: #099;">2</span><span class="p">],</span> <span class="n" style="color: #333;">which</span><span class="p">;</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1517" style="width: 35px; color: rgba(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="1614" style="width: 35px; color: rgba(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">@@ -1517,6 +1614,10 @@ int stk_fqchk(int argc, char *argv[])</td>
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1517
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<td class="diff-line-num new_line" data-linenumber="1614" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1614
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<pre style="margin: 0;"> <span id="LC1614" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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1518
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<td class="diff-line-num new_line" data-linenumber="1615" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1615
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<pre style="margin: 0;"> <span id="LC1615" class="line" lang="c"> <span class="p">}</span></span>
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1519
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<td class="diff-line-num new_line" data-linenumber="1616" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1616
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<pre style="margin: 0;"> <span id="LC1616" class="line" lang="c"> <span class="n" style="color: #333;">fp</span> <span class="o" style="font-weight: 600;">=</span> <span class="p">(</span><span class="n" style="color: #333;">strcmp</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"-"</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="o" style="font-weight: 600;">?</span> <span class="n" style="color: #333;">gzdopen</span><span class="p">(</span><span class="n" style="color: #333;">fileno</span><span class="p">(</span><span class="n" style="color: #333;">stdin</span><span class="p">),</span> <span class="s" style="color: #d14;">"r"</span><span class="p">)</span> <span class="o" style="font-weight: 600;">:</span> <span class="n" style="color: #333;">gzopen</span><span class="p">(</span><span class="n" style="color: #333;">argv</span><span class="p">[</span><span class="n" style="color: #333;">optind</span><span class="p">],</span> <span class="s" style="color: #d14;">"r"</span><span class="p">);</span></span>
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1617
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<pre style="margin: 0;">+<span id="LC1617" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">fp</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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1618
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<pre style="margin: 0;">+<span id="LC1618" 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;">"[E::%s] failed to open the input file/stream.</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;">__func__</span><span class="p">);</span></span>
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1619
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<pre style="margin: 0;">+<span id="LC1619" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">1</span><span class="p">;</span></span>
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1620
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<pre style="margin: 0;">+<span id="LC1620" class="line" lang="c"> <span class="p">}</span></span>
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1520
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<td class="diff-line-num new_line" data-linenumber="1621" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1621
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<pre style="margin: 0;"> <span id="LC1621" class="line" lang="c"> <span class="n" style="color: #333;">seq</span> <span class="o" style="font-weight: 600;">=</span> <span class="n" style="color: #333;">kseq_init</span><span class="p">(</span><span class="n" style="color: #333;">fp</span><span class="p">);</span></span>
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1521
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1622
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<pre style="margin: 0;"> <span id="LC1622" 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;">93</span><span class="p">;</span> <span class="o" style="font-weight: 600;">++</span><span class="n" style="color: #333;">k</span><span class="p">)</span></span>
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1522
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1623
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<pre style="margin: 0;"> <span id="LC1623" class="line" lang="c"> <span class="n" style="color: #333;">perr</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;">pow</span><span class="p">(</span><span class="mi" style="color: #099;">10</span><span class="p">.,</span> <span class="o" style="font-weight: 600;">-</span><span class="p">.</span><span class="mi" style="color: #099;">1</span> <span class="o" style="font-weight: 600;">*</span> <span class="n" style="color: #333;">k</span><span class="p">);</span></span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="1574" style="width: 35px; color: rgba(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">@@ -1574,7 +1675,7 @@ static int usage()</td>
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1574
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1675
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<pre style="margin: 0;"> <span id="LC1675" class="line" lang="c"><span class="p">{</span></span>
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1575
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1676
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<pre style="margin: 0;"> <span id="LC1676" 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;">"</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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1576
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1677
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<pre style="margin: 0;"> <span id="LC1677" 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;">"Usage: seqtk <command> <arguments></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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1577
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<pre style="margin: 0;">-<span id="LC1577" 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: 1.<span class="idiff left right">2-r94</span></span><span class="se" style="color: #d14;">\n\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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1678
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<pre style="margin: 0;">+<span id="LC1678" 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: 1.<span class="idiff left right">3-r106</span></span><span class="se" style="color: #d14;">\n\n</span><span class="s" style="color: #d14;">"</span><span class="p">);</span></span>
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1578
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<td class="diff-line-num new_line" data-linenumber="1679" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1679
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<pre style="margin: 0;"> <span id="LC1679" 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;">"Command: seq common transformation of FASTA/Q</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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1579
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1680
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<pre style="margin: 0;"> <span id="LC1680" 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;">" comp get the nucleotide composition of FASTA/Q</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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1580
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1681
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<pre style="margin: 0;"> <span id="LC1681" 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;">" sample subsample sequences</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 unfold js-unfold new_line" data-linenumber="1700" style="width: 35px; color: rgba(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">@@ -1599,28 +1700,27 @@ static int usage()</td>
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1599
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1700
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<pre style="margin: 0;"> <span id="LC1700" class="line" lang="c"><span class="kt" style="color: #458; font-weight: 600;">int</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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<td class="diff-line-num old_line" data-linenumber="1600" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1600
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<td class="diff-line-num new_line" data-linenumber="1701" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1701
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<pre style="margin: 0;"> <span id="LC1701" class="line" lang="c"><span class="p">{</span></span>
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1601
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<td class="diff-line-num new_line" data-linenumber="1702" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1702
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<pre style="margin: 0;"> <span id="LC1702" class="line" lang="c"> <span class="k" style="font-weight: 600;">if</span> <span class="p">(</span><span class="n" style="color: #333;">argc</span> <span class="o" style="font-weight: 600;">==</span> <span class="mi" style="color: #099;">1</span><span class="p">)</span> <span class="k" style="font-weight: 600;">return</span> <span class="n" style="color: #333;">usage</span><span class="p">();</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1602" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1602
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1602" 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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span> <span class="s" style="color: #d14;">"comp"</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="n" style="color: #333;">stk_comp</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1603" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1603
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1603" 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;">strcmp</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 class="s" style="color: #d14;">"fqchk"</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="n" style="color: #333;">stk_fqchk</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1604" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1604
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1604" 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;">strcmp</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 class="s" style="color: #d14;">"hety"</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="n" style="color: #333;">stk_hety</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1605" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1605
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1605" 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;">strcmp</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 class="s" style="color: #d14;">"gc"</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="n" style="color: #333;">stk_gc</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1606" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1606
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1606" 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;">strcmp</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 class="s" style="color: #d14;">"subseq"</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="n" style="color: #333;">stk_subseq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1607" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1607
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1607" 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;">strcmp</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 class="s" style="color: #d14;">"mutfa"</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="n" style="color: #333;">stk_mutfa</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1608" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1608
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1608" 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;">strcmp</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 class="s" style="color: #d14;">"mergefa"</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="n" style="color: #333;">stk_mergefa</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1609" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1609
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1609" 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;">strcmp</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 class="s" style="color: #d14;">"mergepe"</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="n" style="color: #333;">stk_mergepe</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1610" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1610
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1610" 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;">strcmp</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 class="s" style="color: #d14;">"dropse"</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="n" style="color: #333;">stk_dropse</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1611" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1611
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1611" 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;">strcmp</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 class="s" style="color: #d14;">"randbase"</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="n" style="color: #333;">stk_randbase</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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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1612
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<pre style="margin: 0;">-<span id="LC1612" 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;">strcmp</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 class="s" style="color: #d14;">"cutN"</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="n" style="color: #333;">stk_cutN</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1613" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1613
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1613" 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;">strcmp</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 class="s" style="color: #d14;">"listhet"</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="n" style="color: #333;">stk_listhet</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1614" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1614
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(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="LC1614" 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;">strcmp</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 class="s" style="color: #d14;">"famask"</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="n" style="color: #333;">stk_famask</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1615" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1615
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1615" 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;">strcmp</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 class="s" style="color: #d14;">"trimfq"</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="n" style="color: #333;">stk_trimfq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1616" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1616
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1616" 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;">strcmp</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 class="s" style="color: #d14;">"hrun"</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="n" style="color: #333;">stk_hrun</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1617" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1617
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1617" 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;">strcmp</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 class="s" style="color: #d14;">"sample"</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="n" style="color: #333;">stk_sample</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1618" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1618
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1618" 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;">strcmp</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 class="s" style="color: #d14;">"seq"</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="n" style="color: #333;">stk_seq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num old old_line" data-linenumber="1619" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1619
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1619" 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;">strcmp</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 class="s" style="color: #d14;">"kfreq"</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="n" style="color: #333;">stk_kfreq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1620" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1620
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<td class="diff-line-num new_line old" data-linenumber="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<td class="line_content noteable_line old" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#fbe9eb">
<pre style="margin: 0;">-<span id="LC1620" 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;">strcmp</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 class="s" style="color: #d14;">"rename"</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="n" style="color: #333;">stk_rename</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(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="1703" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1703
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1703" 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;">argv</span><span class="p">[</span><span class="mi" style="color: #099;">1</span><span class="p">],</span> <span class="s" style="color: #d14;">"comp"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_comp</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1704" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1704
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1704" 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;">strcmp</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 class="s" style="color: #d14;">"fqchk"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_fqchk</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1621" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1705" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1705
</td>
<td class="line_content new noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;" bgcolor="#ecfdf0">
<pre style="margin: 0;">+<span id="LC1705" 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;">strcmp</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 class="s" style="color: #d14;">"hety"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_hety</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</span><span class="o" style="font-weight: 600;">+</span><span class="mi" style="color: #099;">1</span><span class="p">);</span></span>
</pre>
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<td class="diff-line-num new old_line" data-linenumber="1621" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
</td>
<td class="diff-line-num new new_line" data-linenumber="1706" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1706
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<pre style="margin: 0;">+<span id="LC1706" 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;">strcmp</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 class="s" style="color: #d14;">"gc"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_gc</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1707" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1707
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<pre style="margin: 0;">+<span id="LC1707" 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;">strcmp</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 class="s" style="color: #d14;">"subseq"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_subseq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1708" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1708
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<pre style="margin: 0;">+<span id="LC1708" 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;">strcmp</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 class="s" style="color: #d14;">"mutfa"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_mutfa</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1709" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1709
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<pre style="margin: 0;">+<span id="LC1709" 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;">strcmp</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 class="s" style="color: #d14;">"mergefa"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_mergefa</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1710" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1710
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<pre style="margin: 0;">+<span id="LC1710" 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;">strcmp</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 class="s" style="color: #d14;">"mergepe"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_mergepe</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1711" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1711
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<pre style="margin: 0;">+<span id="LC1711" 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;">strcmp</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 class="s" style="color: #d14;">"dropse"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_dropse</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1712" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1712
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<pre style="margin: 0;">+<span id="LC1712" 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;">strcmp</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 class="s" style="color: #d14;">"randbase"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_randbase</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1713" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1713
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<pre style="margin: 0;">+<span id="LC1713" 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;">strcmp</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 class="s" style="color: #d14;">"cutN"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_cutN</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1714" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1714
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<pre style="margin: 0;">+<span id="LC1714" 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;">strcmp</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 class="s" style="color: #d14;">"listhet"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_listhet</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1715" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1715
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<pre style="margin: 0;">+<span id="LC1715" 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;">strcmp</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 class="s" style="color: #d14;">"famask"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_famask</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1716" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1716
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<pre style="margin: 0;">+<span id="LC1716" 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;">strcmp</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 class="s" style="color: #d14;">"trimfq"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_trimfq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1717" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1717
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<pre style="margin: 0;">+<span id="LC1717" 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;">strcmp</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 class="s" style="color: #d14;">"hrun"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_hrun</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(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="1718" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1718
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<pre style="margin: 0;">+<span id="LC1718" 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;">strcmp</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 class="s" style="color: #d14;">"sample"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_sample</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(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="1719" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1719
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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="LC1719" 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;">strcmp</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 class="s" style="color: #d14;">"seq"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_seq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(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="1720" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1720
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<pre style="margin: 0;">+<span id="LC1720" 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;">strcmp</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 class="s" style="color: #d14;">"kfreq"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_kfreq</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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 old_line" data-linenumber="1621" style="width: 35px; color: rgba(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="1721" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
1721
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<pre style="margin: 0;">+<span id="LC1721" 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;">strcmp</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 class="s" style="color: #d14;">"rename"</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="k" style="font-weight: 600;"><span class="idiff left">return</span></span><span class="idiff right"> </span><span class="n" style="color: #333;">stk_rename</span><span class="p">(</span><span class="n" style="color: #333;">argc</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;">argv</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="1621" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1621
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<td class="diff-line-num new_line" data-linenumber="1722" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1722
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<pre style="margin: 0;"> <span id="LC1722" class="line" lang="c"> <span class="k" style="font-weight: 600;">else</span> <span class="p">{</span></span>
</pre>
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<td class="diff-line-num old_line" data-linenumber="1622" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1622
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<td class="diff-line-num new_line" data-linenumber="1723" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1723
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<pre style="margin: 0;"> <span id="LC1723" 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;">"[main] unrecognized command '%s'. Abort!</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;">argv</span><span class="p">[</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="1623" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1623
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<td class="diff-line-num new_line" data-linenumber="1724" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1724
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<pre style="margin: 0;"> <span id="LC1724" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</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="1624" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1624
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<td class="diff-line-num new_line" data-linenumber="1725" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1725
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<td class="line_content noteable_line" style="padding-left: 0.5em; padding-right: 0.5em;">
<pre style="margin: 0;"> <span id="LC1725" class="line" lang="c"> <span class="p">}</span></span>
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<td class="diff-line-num old old_line" data-linenumber="1625" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
1625
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<td class="diff-line-num new_line old" data-linenumber="1726" style="width: 35px; color: rgba(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="LC1625" class="line" lang="c"> <span class="k" style="font-weight: 600;">return</span> <span class="mi" style="color: #099;">0</span><span class="p">;</span></span>
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<td class="diff-line-num old_line" data-linenumber="1626" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1626
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<td class="diff-line-num new_line" data-linenumber="1726" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
1726
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<pre style="margin: 0;"> <span id="LC1726" class="line" lang="c"><span class="p">}</span></span></pre>
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