57d12692815c7c7eca4915efd3be0b6c21358702
braney
  Thu Sep 25 18:17:32 2014 -0700
add a mode to mafGene that let's it put out a unique character for eachcodon.

diff --git src/hg/inc/mafGene.h src/hg/inc/mafGene.h
index 8905878..164f0b2 100644
--- src/hg/inc/mafGene.h
+++ src/hg/inc/mafGene.h
@@ -1,17 +1,18 @@
 /* Copyright (C) 2012 The Regents of the University of California 
  * See README in this or parent directory for licensing information. */
 
 
 /* options */
 #define MAFGENE_EXONS		(1 << 0)
 #define MAFGENE_NOTRANS		(1 << 1)
 #define MAFGENE_OUTBLANK	(1 << 2)
 #define MAFGENE_OUTTABLE	(1 << 3)
 #define MAFGENE_INCLUDEUTR	(1 << 4)
+#define MAFGENE_UNIQUEAA	(1 << 5)
 
 /* output a FASTA alignment from the given mafTable
  * for a given genePred
  */
 void mafGeneOutPred(FILE *f, struct genePred *pred, char *dbName, 
     char *mafTable,  struct slName *speciesNameList, unsigned options,
     int numCols);