d060221305367f769d02aabc4a8e675b8cf03524
gperez2
  Tue Mar 5 23:29:13 2024 -0800
Updating help message note about converting the bigGenePred to a bigBed, #15448

diff --git src/hg/utils/genePredToBigGenePred/genePredToBigGenePred.c src/hg/utils/genePredToBigGenePred/genePredToBigGenePred.c
index ddd7fb3..1c9ed12 100644
--- src/hg/utils/genePredToBigGenePred/genePredToBigGenePred.c
+++ src/hg/utils/genePredToBigGenePred/genePredToBigGenePred.c
@@ -4,31 +4,31 @@
 #include "linefile.h"
 #include "hash.h"
 #include "options.h"
 #include "genePred.h"
 #include "bigGenePred.h"
 #include "jksql.h"
 #include "memgfx.h"
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "genePredToBigGenePred - converts genePred or genePredExt to bigGenePred input (bed format with extra fields)\n"
   "usage:\n"
   "  genePredToBigGenePred [-known] [-score=scores] [-geneNames=geneNames] [-colors=colors] file.gp stdout | sort -k1,1 -k2,2n > file.bgpInput\n"
-  "NOTE: to build bigBed:\n"
+  "NOTE: In order to visualize on Genome Browser, the bigGenePred file needs to be converted to a bigBed such as the following:\n"
   "   wget https://genome.ucsc.edu/goldenpath/help/examples/bigGenePred.as\n"
   "   bedToBigBed -type=bed12+8 -tab -as=bigGenePred.as file.bgpInput chrom.sizes output.bb\n"
   "options:\n"
   "    -known                input file is a genePred in knownGene format\n"
   "    -score=scores         scores is two column file with id's mapping to scores\n"
   "    -geneNames=geneNames  geneNames is a three column file with id's mapping to two gene names\n"
   "    -colors=colors        colors is a four column file with id's mapping to r,g,b\n"
   "    -cds=cds              cds is a five column file with id's mapping to cds status codes and exonFrames (see knownCds.as)\n"
   "    -geneType=geneType              geneType is a two column file with id's mapping to geneType\n"
   );
 }
 
 
 struct cds
 {