e70152e44cc66cc599ff6b699eb8adc07f3e656a
kent
  Sat May 24 21:09:34 2014 -0700
Adding Copyright NNNN Regents of the University of California to all files I believe with reasonable certainty were developed under UCSC employ or as part of Genome Browser copyright assignment.
diff --git src/hg/pslMaxMap/pslMaxMap.c src/hg/pslMaxMap/pslMaxMap.c
index 722691c..3517fa9 100644
--- src/hg/pslMaxMap/pslMaxMap.c
+++ src/hg/pslMaxMap/pslMaxMap.c
@@ -1,69 +1,72 @@
+/* Copyright (C) 2004 The Regents of the University of California 
+ * See README in this or parent directory for licensing information. */
+
 
 #include "common.h"
 #include "linefile.h"
 #include "hash.h"
 #include "options.h"
 #include "psl.h"
 
 int maxMap = 10;
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "pslMaxMap - filter out psls that map more than N times\n"
   "usage:\n"
   "   pslMaxMap inPsl outPsl\n"
   "options:\n"
   "   -maxMap=10 (default)\n"
   );
 }
 
 static struct optionSpec options[] = {
    {"maxMap", OPTION_INT},
    {NULL, 0},
 };
 
 struct name
 {
     int count;
 };
 
 void pslMaxMap(char *pslIn, char *pslOut)
 /* pslMaxMap - make clusters out of a psl file. */
 {
 FILE *out = mustOpen(pslOut, "w");
 struct psl *pslList = pslLoadAll(pslIn);
 struct hash *nameHash = newHash(0);  
 struct psl *psl;
 struct name *name;
 
 for(psl = pslList; psl ; psl = psl->next)
     {
     name = hashFindVal(nameHash, psl->qName);
     if (name == NULL)
 	{
 	AllocVar(name);
 	hashAdd(nameHash, psl->qName, name);
 	}
     name->count++;
     }
 for(psl = pslList; psl ; psl = psl->next)
     {
     name = hashFindVal(nameHash, psl->qName);
 
     if (name->count <= maxMap)
 	pslTabOut(psl, out);
     }
 }
 
 int main(int argc, char *argv[])
 /* Process command line. */
 {
 optionInit(&argc, argv, options);
 maxMap = optionInt("maxMap", maxMap);
 if (argc != 3)
     usage();
 pslMaxMap(argv[1], argv[2]);
 return 0;
 }