4898794edd81be5285ea6e544acbedeaeb31bf78
max
  Tue Nov 23 08:10:57 2021 -0800
Fixing pointers to README file for license in all source code files. refs #27614

diff --git src/hg/oneShot/fakeLinkage/fakeLinkage.c src/hg/oneShot/fakeLinkage/fakeLinkage.c
index 54f5208..6a3b2a7 100644
--- src/hg/oneShot/fakeLinkage/fakeLinkage.c
+++ src/hg/oneShot/fakeLinkage/fakeLinkage.c
@@ -1,89 +1,89 @@
 /* fakeLinkage - Fake some linkage data. */
 
 /* Copyright (C) 2013 The Regents of the University of California 
- * See README in this or parent directory for licensing information. */
+ * See kent/LICENSE or http://genome.ucsc.edu/license/ for licensing information. */
 #include "common.h"
 #include "linefile.h"
 #include "hash.h"
 #include "options.h"
 #include "jksql.h"
 #include "hdb.h"
 
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "fakeLinkage - Fake some linkage data\n"
   "usage:\n"
   "   fakeLinkage database output\n"
   "options:\n"
   "   -xxx=XXX\n"
   );
 }
 
 static struct optionSpec options[] = {
    {NULL, 0},
 };
 
 void fakeChromLinkage(char *database, char *chrom, FILE *f)
 /* Generate fake linkage data for one chromosome */
 {
 int size = hdbChromSize(database, chrom);
 int stepSize = 5000000;
 int pos;
 uglyf("faking %s %d\n", chrom, size);
 struct sqlConnection *conn = hAllocConn();
 for (pos=0; pos<size; pos += stepSize)
     {
     int rowOffset = 0;
     char query[512];
     sqlSafef(query, sizeof(query), "select name from stsMap where chrom='%s' and chromStart >= %d && chromStart < %d", chrom, pos, pos+stepSize);
     struct sqlResult *sr = sqlGetResult(conn, query);
     char **row = sqlNextRow(sr);
     if (row != NULL)
         {
 	double x;
 	if (rand()%250 == 0)
 	    {
 	    x = 3.5 + (double)rand()/RAND_MAX;
 	    }
 	else
 	    {
 	    x = (double)rand() / RAND_MAX + 0.001;
 	    x = log(x) + 1;
 	    if (x < -1)
 	       x = -1;
 	    }
         fprintf(f, "%s\t%f\n", row[0], x);
 	}
     sqlFreeResult(&sr);
     }
 hFreeConn(&conn);
 }
 
 
 void fakeLinkage(char *database, char *output)
 /* fakeLinkage - Fake some linkage data. */
 {
 FILE *f = mustOpen(output, "w");
 hSetDb(database);
 int i;
 for (i=1; i<=22; ++i)
     {
     char chromName[256];
     safef(chromName, sizeof(chromName), "chr%d", i);
     fakeChromLinkage(database, chromName, f);
     }
 carefulClose(&f);
 }
 
 int main(int argc, char *argv[])
 /* Process command line. */
 {
 optionInit(&argc, argv, options);
 if (argc != 3)
     usage();
 fakeLinkage(argv[1], argv[2]);
 return 0;
 }