Delete unneeded directory

[jabaws.git] / website / archive / binaries / mac / src / fasta34 / structs.h

diff --git a/website/archive/binaries/mac/src/fasta34/structs.h b/website/archive/binaries/mac/src/fasta34/structs.h
deleted file mode 100644 (file)
index 4a48246..0000000
--- a/website/archive/binaries/mac/src/fasta34/structs.h
+++ /dev/null
@@ -1,110 +0,0 @@
-
-/* $Name: fa_34_26_5 $ - $Id: structs.h,v 1.36 2006/06/22 02:35:05 wrp Exp $ */
-
-#include "aln_structs.h"
-
-struct hist_str {
-  int histflg;
-  int *hist_a;
-  int histint, min_hist, max_hist, maxh;
-  long entries;
-  int z_calls;
-  char stat_info[MAX_STR];
-};
-
-struct db_str {
-  long entries;
-  unsigned long length;
-  int carry;
-};
-
-struct mngmsg          /* Message from host to manager */
-{
-  int n0;              /* Integer returned by hgetseq */
-  int nm0;             /* number of segments */
-  int nmoff;           /* length of fastf segment */
-  unsigned char *aa0a; /* annotation array */
-  char ann_arr[MAX_FN];        /* annotation characters */
-  int ann_flg;         /* have annotation array, characters */
-  char tname[MAX_FN];  /* Query sequence name */
-  int tnamesize;       /* Query name size */
-  int qsfnum[10];
-  int nqsfnum;
-  int qsfnum_n[10];
-  int nqsfnum_n;
-  char lname[MAX_FN];  /* Library  file  name */
-  char *lbnames[MAX_LF]; /* list of library files */
-  struct lmf_str *lb_mfd[MAX_LF];      /* list of opened file pointers */
-
-  int max_tot;         /* function defined total sequence area */
-  int maxn;            /* longest library sequence chunk */
-  int dupn;            /* overlap to use when segmenting sequence (p_comp) */
-  int qoff;            /* overlap when segmenting long query sequence */
-  int loff;            /* overlap when segmenting long library sequences */
-  int maxt3;           /* overlap for tranlated sequences */
-  int qdnaseq;         /* query is protein (0)/dna (1) */
-  int ldnaseq;         /* library is protein (0)/dna (1) */
-  int qframe;          /* number of possible query frames */
-  int nframe;          /* frame for TFASTA */
-  int nitt1;           /* nframe-1 */
-  int thr_fact;                /* fudge factor for threads */
-  int s_int;           /* sampling interval for statistics */
-  int ql_start;                /* starting query sequence */
-  int ql_stop;         /* ending query sequence */
-  int nln;             /* number of library names */
-  int pbuf_siz;                /* buffer size for sequences send in p2_complib */
-  char qtitle[MAX_FN]; /* query title */
-  char ltitle[MAX_FN]; /* library title */
-  char flstr[MAX_FN];  /* FASTLIBS string */
-  char outfile[MAX_FN];
-  char label [MAXLN];  /* Output label */
-  char f_id0[4];       /* function id for markx==10 */
-  char f_id1[4];       /* function id for markx==10 */
-  char sqnam[4];       /* "aa" or "nt" */ 
-  char sqtype[10];     /* "DNA" or "protein" */
-  int long_info;       /* long description flag*/
-  long sq0off, sq1off; /* offset into aa0, aa1 */
-  int markx;           /* alignment display type */
-  int seqnm;           /* query sequence number */
-  int nbr_seq;         /* number of library sequences */
-  int term_code;       /* add termination codes to proteins if absent */
-  int n1_high;         /* upper limit on sequence length */
-  int n1_low;          /* lower limit on sequence length */
-  double e_cut;                /* e_value for display */
-  double e_low;                /* e_value for display */
-  int e_cut_set;       /* e_value deliberately set */
-  int pamd1;           /* 1st dimension of pam matrix */
-  int pamd2;           /* 2nd dimension of pam matrix */
-  int revcomp;         /* flag to do reverse complement */
-  int quiet;           /* quiet option */
-  int nrelv;           /* number of interesting scores */
-  int srelv;           /* number of scores to show in showbest */
-  int arelv;           /* number of scores to show at alignment */
-  int z_bits;          /* z_bits==1: show bit score, ==0 show z-score */
-  char alab[3][24];    /* labels for alignment scores */
-  int nohist;          /* no histogram option */
-  int nshow;
-  int mshow;           /* number of scores to show */
-  int mshow_flg;
-  int ashow;           /* number of alignments to show */
-  int nmlen;           /* length of name label */
-  int show_code;       /* show alignment code in -m 9;  ==1 => identity only, ==2 alignment code*/
-  int self;            /* self comparison */
-  int thold;           /* threshold */
-  int last_calc_flg;   /* needs a last calculation stage */
-  int qshuffle;        /* shuffle the query and do additional comparisons */
-  int shuff_max;       /* number of shuffles to perform */
-  int shuff_node;      /* number of shuffles/worker node */
-  int shuff_wid;
-  int stages;          /* number of stages */
-  double Lambda, K, H; /* Karlin-Altschul parameters */
-  int escore_flg;      /* use escore calculated by do_work() */
-  struct hist_str hist;
-  struct db_str db;
-  void *pstat_void;
-  struct a_struct aln; /* has llen, llnctx, llnctx_flg, showall */
-  struct a_res_str a_res; /* has individual alignment coordinates */
-  char dfile [MAX_FN]; /* file for dumping scores to */
-};
-
-