adb50d413508c82ef9ae0d1607c13b855de56465
max
  Sun Sep 16 23:19:15 2012 -0700
help change for twoBitToFa.c
diff --git src/utils/twoBitToFa/twoBitToFa.c src/utils/twoBitToFa/twoBitToFa.c
index daf7925..fef0c61 100644
--- src/utils/twoBitToFa/twoBitToFa.c
+++ src/utils/twoBitToFa/twoBitToFa.c
@@ -15,31 +15,31 @@
 {
 errAbort(
   "twoBitToFa - Convert all or part of .2bit file to fasta\n"
   "usage:\n"
   "   twoBitToFa input.2bit output.fa\n"
   "options:\n"
   "   -seq=name - restrict this to just one sequence\n"
   "   -start=X  - start at given position in sequence (zero-based)\n"
   "   -end=X - end at given position in sequence (non-inclusive)\n"
   "   -seqList=file - file containing list of the desired sequence names \n"
   "                    in the format seqSpec[:start-end], e.g. chr1 or chr1:0-189\n"
   "                    where coordinates are half-open zero-based, i.e. [start,end)\n"
   "   -noMask - convert sequence to all upper case\n"
   "   -bpt=index.bpt - use bpt index instead of built in one\n"
   "   -bed=input.bed - grab sequences specified by input.bed. Will exclude introns\n"
-  "   -bedPos        - use with -bed to put chrom:start-end as the fasta ID\n"
+  "   -bedPos        - with -bed, to use chrom:start-end as the fasta ID in output.fa\n"
   "\n"
   "Sequence and range may also be specified as part of the input\n"
   "file name using the syntax:\n"
   "      /path/input.2bit:name\n"
   "   or\n"
   "      /path/input.2bit:name\n"
   "   or\n"
   "      /path/input.2bit:name:start-end\n"
   );
 }
 
 char *clSeq = NULL;	/* Command line sequence. */
 int clStart = 0;	/* Start from command line. */
 int clEnd = 0;		/* End from command line. */
 char *clSeqList = NULL; /* file containing list of seq names */