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/findContigsWithClones/findContigsWithClones.c src/hg/oneShot/findContigsWithClones/findContigsWithClones.c
index 9f354fe..1fdc2b1 100644
--- src/hg/oneShot/findContigsWithClones/findContigsWithClones.c
+++ src/hg/oneShot/findContigsWithClones/findContigsWithClones.c
@@ -1,81 +1,81 @@
 /* findContigsWithClones - find contigs that contain clones. */
 
 /* Copyright (C) 2011 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 "cheapcgi.h"
 #include "ooUtils.h"
 #include "obscure.h"
 
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "findContigsWithClones - find contigs that contain clones\n"
   "usage:\n"
   "   findContigsWithClones cloneList ooDir fileName\n"
   "example:\n"
   "   findContigsWithClones chr22.lst oo.29 gold.99\n"
   );
 }
 
 boolean snoopInFile(char *fileName, struct slName *wordList)
 /* Return TRUE if any word in list occurs in file. */
 {
 struct lineFile *lf = lineFileOpen(fileName, TRUE);
 char *line;
 struct slName *el;
 boolean foundIt = FALSE;
 
 while (lineFileNext(lf, &line, NULL))
     {
     for (el = wordList; el != NULL; el = el->next)
 	{
 	if (strstr(line, el->name))
 	    {
 	    foundIt = TRUE;
 	    break;
 	    }
 	}
     if (foundIt)
         break;
     }
 lineFileClose(&lf);
 return foundIt;
 }
 
 struct slName *cloneList;
 char *snoopFileName;
 
 void doContig(char *dir, char *chrom, char *contig)
 /* Report contigs that have clone in them. */
 {
 char fileName[512];
 sprintf(fileName, "%s/%s", dir, snoopFileName);
 if (snoopInFile(fileName, cloneList))
     printf("%s/%s\n", chrom, contig);
 }
 
 void findContigsWithClones(char *cloneFile, char *ooDir, char *snoopIn)
 /* findContigsWithClones - find contigs that contain clones. */
 {
 struct slName *el;
 cloneList = readAllLines(cloneFile);
 for (el = cloneList; el != NULL; el = el->next)
     chopSuffix(el->name);
 snoopFileName = snoopIn;
 ooToAllContigs(ooDir, doContig);
 }
 
 int main(int argc, char *argv[])
 /* Process command line. */
 {
 cgiSpoof(&argc, argv);
 if (argc != 4)
     usage();
 findContigsWithClones(argv[1], argv[2], argv[3]);
 return 0;
 }