fastdnaml_globals.h

fastDNAml is an attempt to solve the same problem as DNAML, but to do so faster and using less memo

#ifndef FASTDNAML_GLOBALS_H
#define FASTDNAML_GLOBALS_H

#ifndef FASTDNAML_TYPES_H
#include fastDNAml_types.h
#endif

/*
 * -------------------   Global Variable Declarations   ------------------------
 */

extern xarray
    *usedxtip, *freextip;

/*
extern longer
    seed;

extern double
    rate[],
    ratvalue[],
    wgt_rate[],
    wgt_rate2[];

extern double
    xi, xv, ttratio,
    freqa, freqc, freqg, freqt,
    freqr, freqy, invfreqr, invfreqy,
    freqar, freqcy, freqgr, freqty,
    totalwrate,
    fracchange;

extern int
    alias[],
    aliasweight[],
    category[],
    catnumb[],
    weight[];

extern int
    categs,
    endsite,
    extrainfo,
    numsp,
    nkeep,
    sites,
    trout,
    weightsum;

extern boolean
    anerror,
    bootstrap,
    freqsfrom,
    interleaved,
    jumble,
    outgropt,
    printdata,
    fastadd,
    restart,
    treeprint;
*/

extern FILE
    *dbgfp;

extern char
    *y[],
    *seq_data_str,
    run_id[],
    workdir[],
    seq_file[],
    tr_ext[],
    cp_ext[],
    bt_ext[];

extern proc_data
    myproc;

extern int
    myprogtype,
    monitor_id,
    foreman_id,
    master_id,
    first_worker_id,
    seq_data_size,
    infol,
    nworkers;

extern boolean
    ship_seq_data;

extern char
    likelihood_key[],
    ntaxa_key[],
    opt_level_key[],
    smoothed_key[];


/*
 * -------------------  Definitions of (Most) Globals --------------------------
 */

#ifdef MAIN
xarray
    *usedxtip,
    *freextip;

FILE
    *dbgfp;

char
    *seq_data_str = NULL,
    run_id[40] = "",
    workdir[2048] = "",
    seq_file[2048] = "",
    tr_ext[] = ".trf",
    cp_ext[] = ".cpt",
    bt_ext[] = ".bst";


proc_data
    myproc;

int
    monitor_id = INVALID_ID,
    foreman_id = INVALID_ID,
    master_id = INVALID_ID,
    first_worker_id = INVALID_ID,
    seq_data_size = 0,
    infol = 0,
    nworkers = 0;

boolean
    ship_seq_data = FALSE;

char
    likelihood_key[] = "likelihood",
    ntaxa_key[]      = "ntaxa",
    opt_level_key[]  = "opt_level",
    smoothed_key[]   = "smoothed";

#endif  /* MAIN */


#endif  /* FASTDNAML_GLOBALS_H */