Delete unneeded directory

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

diff --git a/website/archive/binaries/mac/src/fasta34/mm_file.h b/website/archive/binaries/mac/src/fasta34/mm_file.h
deleted file mode 100644 (file)
index 94fa438..0000000
--- a/website/archive/binaries/mac/src/fasta34/mm_file.h
+++ /dev/null
@@ -1,126 +0,0 @@
-/*
-  copyright (c) 1999 William R. Pearson
-*/
-
-/* $Name: fa_34_26_5 $ - $Id: mm_file.h,v 1.26 2006/10/05 18:20:40 wrp Exp $ */
-
-/*
-  mm_file.h - defines m_file_str for mmap()ed files 
-*/
-
-#include <sys/types.h>
-
-#ifndef USE_FSEEKO
-#define FSEEK fseek
-#define FTELL ftell
-typedef long fseek_t;
-#else
-#define FSEEK fseeko
-#define FTELL ftello
-typedef off_t fseek_t;
-#endif
-#define FSEEK_T_DEF
-
-#ifdef HAS_INTTYPES
-#include <inttypes.h>
-#else
-#ifdef WIN32
-typedef __int64 int64_t;
-typedef unsigned __int64 uint64_t;
-#else
-typedef long int64_t;
-typedef unsigned long uint64_t;
-#endif
-#endif
-#ifdef BIG_LIB64
-typedef int64_t MM_OFF;
-#else
-typedef long MM_OFF;
-#endif
-
-#ifdef MYSQL_DB
-#include <mysql.h>
-#endif
-#ifdef PGSQL_DB
-#include <libpq-fe.h>
-#endif
-
-struct lmf_str {
-  FILE *libf;          /* sequence file being read */
-  FILE *hfile;         /* BLAST2.0 description file */
-  unsigned int *oid_list;      /* oid list for subsets */
-  int oid_seqs;                /* start offset for mask array */
-  int pref_db;         /* preferred database */
-  unsigned int max_oid;        /* start offset for mask array */
-
-  char lb_name[120];   /* file name */
-  int lb_type;         /* library type */
-  int *sascii;         /* ascii -> sq mapping */
-
-  /* used by flat files */
-  char *lline;         /* last line read */
-  unsigned char *cpsave;       /* position in line for lgetlib() */
-  fseek_t lpos;                        /* position in file */
-
-  /* Genbank Flat files */
-  int lfflag;          /* flag for CRLF in EMBL CDROM files */
-
-  /* stuff for GCG format files (5,6) */
-  int gcg_binary;      /* flag for binary gcg format */
-  long gcg_len;                /* length of GCG sequence */
-
-  int bl_lib_pos;        /* for ncbl2 */
-  int bl_format_ver;     /* blast formatdb version */
-  char opt_text[MAX_FN];         /* text after filename */
-
-  /* used when memory mapping */
-  int mm_flg;          /* mmap worked */
-  int mmap_fd;         /* mmap_fd */
-  char *mmap_base;     /* base */
-  char *mmap_addr;     /* current pos */
-  long st_size;                /* file size */
-
-  MM_OFF *d_pos_arr;   /* pointer to desc. offsets */
-  MM_OFF *s_pos_arr;   /* pointer to seq. offsets */
-  MM_OFF *a_pos_arr;   /* pointer to aux offsets */
-
-  /* currently available only for memory mapped files */
-  int max_cnt;         /* # database entries */
-  int64_t tot_len;     /* total residue length */
-  long max_len;                /* maximum sequence lengh */
-  int lib_aa;          /* 0 = DNA, 1 = prot */
-  char *tmp_buf;       /* temporary buffer */
-  int tmp_buf_max;     /* max size */
-
-  /* used for SQL database queries */
-  char *sql_db, *sql_query, *sql_getdesc, *sql_getseq;
-  int sql_reopen;
-  char **sql_uid_arr;  /* indexed by lpos */
-  /* used to get sequence data */
-  char *sql_seqp;
-
-#ifdef MYSQL_DB
-  /* used to open the database */
-  MYSQL *mysql_conn;
-  MYSQL_RES *mysql_res;
-  MYSQL_ROW mysql_row;
-#endif
-
-#ifdef PGSQL_DB
-  /* used to open the database */
-  PGconn *pgsql_conn;
-  PGresult *pgsql_res;
-#endif
-
-  int (*getlib)(unsigned char *seq, int maxs,
-               char *libstr, int n_libstr,
-               fseek_t *libpos,
-               int *lcont,
-               struct lmf_str *lm_fd,
-               long *l_off);
-
-  void (*ranlib)(char *str, int cnt,
-                fseek_t libpos, char *libstr,
-                struct lmf_str *lm_fd);
-};
-