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Legofit
infers population history from nucleotide site patterns.
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#include "string.h"#include "strint.h"#include "tokenizer.h"#include "misc.h"#include <math.h>#include <stdio.h>#include <stdlib.h>#include <time.h>#include <unistd.h>Data Structures | |
| struct | ModSelCrit |
| struct | ModPar |
| struct | ParNameLst |
Macros | |
| #define | LINESIZE 65536 |
| #define | MAXNAME 100 |
Enumerations | |
| enum | MscType { MSC_BEPE , MSC_CLIC , MSC_UNKNOWN } |
Functions | |
| void | usage (void) |
| ModSelCrit * | ModSelCrit_new (const char *fname) |
| Construct a new object of type ModSelCrit by parsing a file. More... | |
| void | ModSelCrit_free (ModSelCrit *self) |
| int | ModSelCrit_compare (ModSelCrit *x, ModSelCrit *y, MscType msctype) |
| int | ModSelCrit_dim (ModSelCrit *self) |
| double | ModSelCrit_badness (ModSelCrit *self, int ndx) |
| ModPar * | ModPar_new (const char *fname, ParNameLst **namelist) |
| ModPar constructor. More... | |
| void | ModPar_free (ModPar *self) |
| int | ModPar_exists (ModPar *self, const char *parname) |
| Return 1 if parname exists w/i this model; 0 otherwise. | |
| double | ModPar_value (ModPar *self, int row, const char *parname) |
| int | ModPar_nrows (ModPar *self) |
| int | ModPar_ncols (ModPar *self) |
| char * | ModPar_dataFileName (ModPar *self, int i) |
| ParNameLst * | ParNameLst_new (const char *name, ParNameLst *next) |
| ParNameLst constructor. | |
| ParNameLst * | ParNameLst_insert (ParNameLst *self, const char *name) |
| Insert a new name. Do nothing if name already exists. | |
| void | ParNameLst_free (ParNameLst *self) |
| Free linked list of ParNameLst objects. | |
| int | ParNameLst_exists (ParNameLst *self, const char *name) |
| Return 1 if name is present in list, 0 otherwise. | |
| void | ParNameLst_print (const ParNameLst *self, FILE *fp) |
| Print linked list of ParNameLst objects. | |
| unsigned | ParNameLst_size (ParNameLst *self) |
| Return number of links in list. | |
| MscType | Msc_classify (const char *s) |
| Return 1 if string ends with ".bepe", 0 otherwise. | |
| const char * | Msc_name (MscType msctype) |
| char * | clic_datafname (char *fname, char **end) |
| Parse a file name of form "abc-dataname-def.pts". More... | |
| int | cliccmp (char *xarg, char *yarg) |
| Compare two .pts file names, which must be of form "abc-name-def.pts". More... | |
| int | legofitFileMismatch (ModSelCrit *msc, ModPar *modpar) |
| int | main (int argc, char **argv) |
Variables | |
| const char * | usageMsg |
| char * clic_datafname | ( | char * | fname, |
| char ** | end | ||
| ) |
Parse a file name of form "abc-dataname-def.pts".
Function returns pointer to character after the first dash. On return *end points to the second dash. If fname doesn't have exactly two dashes, return NULL.
Referenced by cliccmp().
| int cliccmp | ( | char * | xarg, |
| char * | yarg | ||
| ) |
Compare two .pts file names, which must be of form "abc-name-def.pts".
Only the portion between the two dashes is compared. It is illegal for a name to have more or fewer than two dashes.
References clic_datafname().
| ModPar * ModPar_new | ( | const char * | fname, |
| ParNameLst ** | namelist | ||
| ) |
ModPar constructor.
First argument is the name of a file in the format produced by flatfile.py. Second argument is the address of a ParNameLst. On return, this list will contain the names of parameters in the input file.
| ModSelCrit * ModSelCrit_new | ( | const char * | fname | ) |
Construct a new object of type ModSelCrit by parsing a file.
Return NULL on failure.
| const char* usageMsg |