2322474c8ecc8f865350c14ea60a464248bd5c84
markd
  Fri Mar 8 00:02:10 2024 -0800
make pslToBigPsl help slightly more helpful

diff --git src/hg/utils/pslToBigPsl/pslToBigPsl.c src/hg/utils/pslToBigPsl/pslToBigPsl.c
index c1ed5e9..4221246 100644
--- src/hg/utils/pslToBigPsl/pslToBigPsl.c
+++ src/hg/utils/pslToBigPsl/pslToBigPsl.c
@@ -6,31 +6,31 @@
 #include "genePred.h"
 #include "psl.h"
 #include "bigPsl.h"
 #include "fa.h"
 #include "genbank.h"
 #include "net.h"
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "pslToBigPsl - converts psl to bigPsl input (bed format with extra fields)\n"
   "usage:\n"
   "  pslToBigPsl file.psl stdout | sort -k1,1 -k2,2n > file.bigPslInput\n"
   "options:\n"
-  "  -cds=file.cds\n"
+  "  -cds=file.cds - tab-separated columns with the qName and a GenBank style one-based CDS (e.g. 475..1731, <1..354)\n"
   "  -fa=file.fasta\n"
   "NOTE: to build bigBed:\n"
   "   bedToBigBed -type=bed12+13 -tab -as=bigPsl.as file.bigPslInput chrom.sizes output.bb\n"
   );
 }
 
 boolean snakeMode = FALSE;
 
 /* Command line validation table. */
 static struct optionSpec options[] = {
    {"cds", OPTION_STRING},
    {"fa", OPTION_STRING},
    {NULL, 0},
 };