Cri-map

From BCF's Genetics Wiki

[edit] Getting cri-map to compile on os x

Edit our_allo.c as follows:

#define  NALLOC  63000
 
/*static HEADER *morecore(nu)*/
HEADER *morecore(nu)
        ALLOC nu;
{
	/*char *malloc();*/
	char *cp;
	HEADER *up;
	ALLOC rnu;
        SHORT our_free();
 
	rnu = NALLOC * ((nu + NALLOC - 1) / NALLOC);
        printf("\n%ld bytes allocated in morecore\n", rnu * sizeof(HEADER));
	cp = malloc(rnu * sizeof(HEADER));
	if (!cp) {
           printf("\n ERROR: ALLOCATION FAILED IN MORECORE\n");
           exit(0);  
        }
	up = (HEADER *)cp;
	up->s.size = rnu;
	our_free((char *)(up + 1));
	return(allocp);
}

Edit our_orde.c such that it looks like the following:

#define  NALLOC  6300
/*static HEADER *orders_morecore(nu)*/
HEADER *orders_morecore(nu)
        ALLOC nu;
{
	/*char *malloc();*/
	char *cp;
	HEADER *up;
	ALLOC rnu;
        SHORT our_orders_free();
 
	rnu = NALLOC * ((nu + NALLOC - 1) / NALLOC);
        printf("\n%ld bytes allocated in orders_morecore\n",
                                         rnu * sizeof(HEADER)); 
	cp = malloc(rnu * sizeof(HEADER));
	if (!cp) {
         printf("\nALLOC FAILED IN OUR_ORDERS_ALLOC\n");
         exit(0);
        }
	up = (HEADER *)cp;
	up->s.size = rnu;
	our_orders_free((char *)(up + 1));
	return(orders_allocp);
}

Compile with:

cc -O -o crimap *.c -lm

You can clear some of the warnings (exit) by adding...

#include <stdlib.h>

above the line:

#include "defs.h"

...in the following files:

1. e_chrom.c
2. e_crimap.c
3. e_ped.c
4. flips.c
5. merge.c
6. our_allo.c
7. our_orde.c
8. read_ord.c

You can also find and replace exit() [or exit ()] with:

exit(0)

This is what is done to the code available from the FreeBSD ports system, so thanks to the FreeBSD maintainers of this program.

To build a universal binary on OS X, the following script should do it:

#!/bin/bash
 
LDLIBS="-lm"
CFLAGS="-isysroot /Developer/SDKs/MacOSX10.4u.sdk -arch ppc -arch i386"
LDFLAGS="-g -Wl,-syslibroot,/Developer/SDKs/MacOSX10.4u.sdk -arch ppc -arch i386"
 
gcc -O2 $CFLAGS -o crimap *.c $LDLIBS