Program LNKTOCRI - to convert LINKAGE format pedigree data to CRI-MAP
This program is automatically distributed with MultiMap - if
you downlioading multimap you need not obtain lnktocri separately.

(* Program LNKTOCRI - to convert LINKAGE format pedigree data to CRI-MAP *)
(* Can convert autosomal or X-linked, binary or numbered alleles.        *)
(* You will be asked to enter the number of families and number of markers *)
(* in the LINKAGE format file.  				         *)
(* THERE MUST BE NO DISEASE INFORMATION IN THE INPUT FILE!!!!!!!         *)
(* This program is freely available for research purposes.  However, we  *)
(* would like to keep track of users so please ask others to contact     *)
(* either Jillian Blaschak or Tara Matise for an original copy of code   *)
(* Jillian: jillian@chimera.hgen.pitt.edu                                *)
(* Tara   : tara@chimera.hgen.pitt.edu                                   *)
(*************************************************************************)

(* Please do not distribute this code yourself.                          *)
(* A small addition was added by Tara Cox on October 24, 1991 to accomodate   *
 * X-linked data so CRI-MAP can correctly check for inconsistencies.  In the  *
 * case of X-linked data a -1 dummy allele is added as the second allele      *
 * for all males in the file.  This dummy allele number is one greater than   *
 * maxallele,which is the maximum number of alleles at any locus.            *)
(* Another addition was made by Tara Cox on January 3, 1992 to allow for     *
 * numbered alleles. *)
(*******************************************************************************
 *  Program lnktocri was created at the University of Pittsburgh, Department of
 *  Human Genetics by Jillian E. Reefer.    (May 1989)
 *
 *  Any inquiries regarding this program may be directed to:
 *            Jillian E. Reefer
 *            Department of Human Genetics
 *            A309 Crabtree Hall, G.S.P.H.
 *            University of Pittsburgh
 *            Pittsburgh, PA  15261
 *  or call:  (412)624-4695.
 *
 *  This program is designed to convert a data file from the expected LINKAGE
 *  package format into the CRIMAP .gen file format.
 *  
 *  In order for this program to work correctly, two program constants,
 *  max and maxdata, may need to be modified to conform to your input file.
 *     max represents the max number of family members in a single pedigree + 1.
 *     maxdata is the upper bound for the converted allele data array.
 *     (See const declarations.)
 *
 *  Additional information required by CRIMAP is to be entered interactively
 *  when this program is run.  The information prompted for is:
 *       the number of families contained in the data file,
 *       the number of loci contained in the data, and the locus names.
 *     
 *  Description of input file format:
 *  Each line of the linkage data file has the form:
 *       1333 24 17 18  0  0  0  0  0   1 1   1 0 1 0   1 1   1 0 1 0   1 0
 *       ped  id fa mo  f  p  m  s  pr             ...data...
 *  where
 *    ped = pedigree#,
 *    id = individual's id,
 *    fa = father's id,
 *    mo = mother's id,
 *    f = first offspring id,
 *    p = next paternal sibling id,
 *    m = next maternal sibling id,
 *    s = 1 if male or 2 if female,
 *    pr = proband,
 *    (all read as free format integers)
 *
 *  The data is in factor union representation - two or more blanks are
 *  allowed between loci, but one blank must appear between each allele.
 *
 *
 *  Description of output file format:
 *  The constructed CRIMAP .gen file has the form:
 *       # of families
 *       # of loci
 *       locus name1  locus name2  locus name3 ...
 *       For each family:
 *          family id#
 *          # of family members
 *          For each member of the family:
 *             id#   mother's id#   father's id#   sex: 0 if female, 1 if male
 *                                                      3 if unknown
 *             locus1allele1  locus1allele2  locus2allele1  locus2allele2 ...
 *             (where the allele data is in numeric genotype representation)
 *
 ******************************************************************************)