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#include "piler2.h"
struct VALUE_OPT
{
const char *m_pstrName;
const char *m_pstrValue;
};
struct FLAG_OPT
{
const char *m_pstrName;
bool m_bSet;
};
static VALUE_OPT ValueOpts[] =
{
"trs", 0,
"trs2", 0,
"trs2fasta", 0,
"tanmotif2fasta", 0,
"cons", 0,
"arrays", 0,
"out", 0,
"piles", 0,
"images", 0,
"log", 0,
"loga", 0,
"seq", 0,
"path", 0,
"rep", 0,
"mincover", 0,
"maxlengthdiffpct", 0,
"maxfam", 0,
"label", 0,
"annot", 0,
"annotedge", 0,
"famsize", 0,
"prefix", 0,
"tan", 0,
"pyramid", 0,
"motif", 0,
"minhits", 0,
"maxmargin", 0,
"minratio", 0,
"tr", 0,
"cand", 0,
"mintrspacing", 0,
"maxtrspacing", 0,
"mintrlength", 0,
"minspacingratio", 0,
"minfam", 0,
"minhitratio", 0,
"mindistpairs", 0,
"crisp", 0,
};
static int ValueOptCount = sizeof(ValueOpts)/sizeof(ValueOpts[0]);
static FLAG_OPT FlagOpts[] =
{
"multihit", 0,
"quiet", 0,
"version", 0,
"help", 0,
"edge", 0,
"pilesonly", 0,
"exact", 0,
};
static int FlagOptCount = sizeof(FlagOpts)/sizeof(FlagOpts[0]);
void CommandLineError(const char *Format, ...)
{
va_list ArgList;
va_start(ArgList, Format);
char Str[4096];
vsprintf(Str, Format, ArgList);
Usage();
fprintf(stderr, "\n** Command line error** %s\n", Str);
exit(1);
}
static bool TestSetFlagOpt(const char *Arg)
{
for (int i = 0; i < FlagOptCount; ++i)
if (!stricmp(Arg, FlagOpts[i].m_pstrName))
{
FlagOpts[i].m_bSet = true;
return true;
}
return false;
}
static bool TestSetValueOpt(const char *Arg, const char *Value)
{
for (int i = 0; i < ValueOptCount; ++i)
if (!stricmp(Arg, ValueOpts[i].m_pstrName))
{
if (0 == Value)
CommandLineError("Option -%s must have value\n", Arg);
ValueOpts[i].m_pstrValue = strsave(Value);
return true;
}
return false;
}
bool FlagOpt(const char *Name)
{
for (int i = 0; i < FlagOptCount; ++i)
if (!stricmp(Name, FlagOpts[i].m_pstrName))
return FlagOpts[i].m_bSet;
Quit("FlagOpt(%s) invalid", Name);
return false;
}
const char *ValueOpt(const char *Name)
{
for (int i = 0; i < ValueOptCount; ++i)
if (!stricmp(Name, ValueOpts[i].m_pstrName))
return ValueOpts[i].m_pstrValue;
Quit("ValueOpt(%s) invalid", Name);
return 0;
}
const char *RequiredValueOpt(const char *Name)
{
const char *s = ValueOpt(Name);
if (0 == s)
CommandLineError("Required option -%s not specified\n", Name);
return s;
}
void ProcessArgVect(int argc, char *argv[])
{
for (int iArgIndex = 0; iArgIndex < argc; )
{
const char *Arg = argv[iArgIndex];
if (Arg[0] != '-')
Quit("Command-line option \"%s\" must start with '-'\n", Arg);
const char *ArgName = Arg + 1;
if (TestSetFlagOpt(ArgName))
{
++iArgIndex;
continue;
}
char *Value = 0;
if (iArgIndex < argc - 1)
Value = argv[iArgIndex+1];
if (TestSetValueOpt(ArgName, Value))
{
iArgIndex += 2;
continue;
}
CommandLineError("Invalid command line option \"%s\"\n", ArgName);
}
}
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