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/txCds/txCdsRaExceptions/txCdsRaExceptions.c src/hg/txCds/txCdsRaExceptions/txCdsRaExceptions.c
index 5946b53..5fc9a92 100644
--- src/hg/txCds/txCdsRaExceptions/txCdsRaExceptions.c
+++ src/hg/txCds/txCdsRaExceptions/txCdsRaExceptions.c
@@ -1,64 +1,64 @@
 /* txCdsRaExceptions - Mine exceptional things like selenocysteine out of ra file.. */
 
 /* Copyright (C) 2007 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"
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "txCdsRaExceptions - Mine exceptional things like selenocysteine out of genbank ra file.\n"
   "usage:\n"
   "   txCdsRaExceptions in.ra output\n"
   "The output is two column: accession exception.\n"
   "options:\n"
   "   -xxx=XXX\n"
   );
 }
 
 static struct optionSpec options[] = {
    {NULL, 0},
 };
 
 void txCdsRaExceptions(char *inRa, char *outFile)
 /* txCdsRaExceptions - Mine exceptional things like selenocysteine out of ra file.. */
 {
 struct lineFile *lf = lineFileOpen(inRa, TRUE);
 FILE *f = mustOpen(outFile, "w");
 char acc[256];
 acc[0] = 0;
 char *line;
 while (lineFileNext(lf, &line, NULL))
     {
     char *tag = nextWord(&line);
     if (tag != NULL)
 	{
 	if (sameString(tag, "acc"))
 	    {
 	    char *val = trimSpaces(line);
 	    safef(acc, sizeof(acc), "%s", val);
 	    }
 	if (sameString(tag, "selenocysteine") || sameString(tag, "translExcept")
 	    || sameString(tag, "exception"))
 	    {
 	    char *val = trimSpaces(line);
 	    fprintf(f, "%s\t%s\t%s\n", acc, tag, val);
 	    }
 	}
     }
 carefulClose(&f);
 }
 
 int main(int argc, char *argv[])
 /* Process command line. */
 {
 optionInit(&argc, argv, options);
 if (argc != 3)
     usage();
 txCdsRaExceptions(argv[1], argv[2]);
 return 0;
 }