arb_probe.cxx File Reference

#include <PT_com.h>
#include <arbdb.h>
#include <client.h>
#include <servercntrl.h>
#include <arb_defs.h>
#include <arb_strbuf.h>
#include <arb_diff.h>
#include <RegExpr.hxx>
#include <algorithm>
#include <string>
#include <unistd.h>

Include dependency graph for arb_probe.cxx:

Go to the source code of this file.

Classes
struct	apd_sequence
struct	Params
struct	gl_struct
class	PTserverConnection

Functions
static int	init_local_com_struct ()
static char *	AP_dump_index_event (ARB_ERROR &error)
static char *	AP_probe_iterate_event (ARB_ERROR &error)
static char *	AP_probe_design_event (ARB_ERROR &error)
static char *	AP_probe_match_event (ARB_ERROR &error)
static int	getInt (const char *param, int val, int min, int max, const char *description)
static const char *	getString (const char *param, const char *val, const char *description)
static bool	parseCommandLine (int argc, const char *const *const argv)
static char *	execute (ARB_ERROR &error)
int	ARB_main (int argc, char *argv[])

Variables
static Params	P
static gl_struct	pd_gl
static int	pargc
static const char **	pargv = NULp
static bool	showhelp
static bool	outOfRange

Function Documentation

static int init_local_com_struct ( )

static

Definition at line 84 of file arb_probe.cxx.

References aisc_create(), gl_struct::com, GB_getenvUSER(), gl_struct::link, gl_struct::locs, and NULp.

Referenced by PTserverConnection::PTserverConnection().

static char* AP_dump_index_event ( ARB_ERROR &  error )

static

Definition at line 145 of file arb_probe.cxx.

References aisc_get(), aisc_put(), ARB_strdup(), gl_struct::com, Params::DUMP, gl_struct::link, NULp, and result.

Referenced by execute().

static char* AP_probe_iterate_event ( ARB_ERROR &  error )

static

Definition at line 166 of file arb_probe.cxx.

References aisc_create(), aisc_get(), AISC_MAX_STRING_LEN, aisc_put(), GBS_strstruct::cat(), Params::ITERATE, Params::ITERATE_AMOUNT, Params::ITERATE_READABLE, Params::ITERATE_SEPARATOR, Params::ITERATE_TU, length, gl_struct::link, gl_struct::locs, min, NULp, GBS_strstruct::put(), GBS_strstruct::release(), and result.

Referenced by execute().

static char* AP_probe_design_event ( ARB_ERROR &  error )

static

Definition at line 233 of file arb_probe.cxx.

References aisc_create(), aisc_get(), aisc_put(), bytestring::data, Params::DESIGNCLIPOUTPUT, Params::DESIGNMAXPROBELEN, Params::DESIGNNAMES, Params::DESIGNPROBELEN, GBS_static_string(), gl_struct::link, gl_struct::locs, Params::MAXBOND, Params::MAXGC, Params::MAXPOS, Params::MAXTEMP, Params::MINGC, Params::MINPOS, Params::MINTARGETS, Params::MINTEMP, Params::MISHIT, NULp, s, Params::sequence, and bytestring::size.

Referenced by execute().

static char* AP_probe_match_event ( ARB_ERROR &  error )

static

Definition at line 335 of file arb_probe.cxx.

References Params::ACCEPTN, aisc_get(), aisc_nput(), Params::ALSO_REVCOMPL, bytestring::data, GBS_static_string(), Params::LIMITN, gl_struct::link, gl_struct::locs, Params::MAXRESULT, Params::MISMATCHES, NULp, Params::SEQUENCE, and Params::WEIGHTED.

Referenced by execute().

static int getInt ( const char *  param, int  val, int  min, int  max, const char *  description  )

static

Definition at line 381 of file arb_probe.cxx.

References arb_assert, NULp, outOfRange, pargc, s, and showhelp.

Referenced by parseCommandLine().

static const char* getString ( const char *  param, const char *  val, const char *  description  )

static

Definition at line 424 of file arb_probe.cxx.

References arb_assert, NULp, pargc, s, and showhelp.

Referenced by parseCommandLine().

static bool parseCommandLine ( int  argc, const char *const *const  argv  )

static

Definition at line 451 of file arb_probe.cxx.

References Params::ACCEPTN, Params::ALSO_REVCOMPL, ARB_alloc(), arb_assert, Params::DESIGNCLIPOUTPUT, Params::DESIGNMAXPROBELEN, Params::DESIGNNAMES, Params::DESIGNPROBELEN, Params::DESIGNSEQUENCE, Params::DUMP, getInt(), getString(), Params::ITERATE, Params::ITERATE_AMOUNT, Params::ITERATE_READABLE, Params::ITERATE_SEPARATOR, Params::ITERATE_TU, Params::LIMITN, Params::MAXBOND, Params::MAXGC, Params::MAXPOS, Params::MAXRESULT, Params::MAXTEMP, Params::MINGC, Params::MINPOS, Params::MINTARGETS, Params::MINTEMP, Params::MISHIT, Params::MISMATCHES, apd_sequence::next, NULp, outOfRange, pargc, s, apd_sequence::sequence, Params::SEQUENCE, Params::sequence, Params::SERVERID, showhelp, and Params::WEIGHTED.

Referenced by ARB_main().

static char* execute ( ARB_ERROR &  error )

static

Definition at line 572 of file arb_probe.cxx.

References AP_dump_index_event(), AP_probe_design_event(), AP_probe_iterate_event(), AP_probe_match_event(), Params::DESIGNNAMES, Params::DUMP, Params::ITERATE, gl_struct::locs, and Params::sequence.

Referenced by ARB_main().

int ARB_main	(	int	argc,
		char *	argv[]
	)

Definition at line 590 of file arb_probe.cxx.

References arb_assert, ARB_ERROR::deliver(), error(), execute(), EXIT_FAILURE, EXIT_SUCCESS, ARB_ERROR::expect_no_error(), fputs(), and parseCommandLine().

Variable Documentation

Params P

static

Definition at line 81 of file arb_probe.cxx.

Referenced by AW_scalar::AW_scalar(), DI_MATRIX::calculate(), initTrnsprob(), AW_scalar::set_pointer(), and uninitTrnsprob().

gl_struct pd_gl

static

Definition at line 82 of file arb_probe.cxx.

int pargc

static

Definition at line 376 of file arb_probe.cxx.

Referenced by getInt(), getString(), and parseCommandLine().

const char** pargv = NULp

static

Definition at line 377 of file arb_probe.cxx.

bool showhelp

static

Definition at line 378 of file arb_probe.cxx.

Referenced by getInt(), getString(), and parseCommandLine().

bool outOfRange

static

Definition at line 379 of file arb_probe.cxx.

Referenced by getInt(), and parseCommandLine().