a44421a79fb36cc2036fe116b97ea3bc9590cd0c
braney
  Fri Dec 2 09:34:39 2011 -0800
removed rcsid (#295)
diff --git src/oneShot/onePassBedToBigBed/onePassBedToBigBed.c src/oneShot/onePassBedToBigBed/onePassBedToBigBed.c
index 9842e14..bb1d265 100644
--- src/oneShot/onePassBedToBigBed/onePassBedToBigBed.c
+++ src/oneShot/onePassBedToBigBed/onePassBedToBigBed.c
@@ -1,69 +1,68 @@
 /* bedToBigBed - Convert bed file to bigBed.. */
 #include "common.h"
 #include "linefile.h"
 #include "hash.h"
 #include "options.h"
 #include "bigBed.h"
 
-static char const rcsid[] = "$Id: onePassBedToBigBed.c,v 1.1 2009/08/18 21:29:46 kent Exp $";
 
 int blockSize = 1024;
 int itemsPerSlot = 256;
 int bedFields = 0;
 char *as = NULL;
 
 void usage()
 /* Explain usage and exit. */
 {
 errAbort(
   "bedToBigBed - Convert bed file to bigBed.\n"
   "usage:\n"
   "   bedToBigBed in.bed chrom.sizes out.bb\n"
   "Where in.bed is in one of the ascii bed formats, but not including track lines\n"
   "and chrom.sizes is two column: <chromosome name> <size in bases>\n"
   "and out.bb is the output indexed big bed file.\n"
   "If the input file is not sorted then this will sort the file in memory,\n"
   "so it will run slightly faster if the input file is already sorted.\n"
   "\n"
   "options:\n"
   "   -blockSize=N - Number of items to bundle in r-tree.  Default %d\n"
   "   -itemsPerSlot=N - Number of data points bundled at lowest level. Default %d\n"
   "   -bedFields=N - Number of fields that fit standard bed definition.  If undefined\n"
   "                  assumes all fields in bed are defined.\n"
   "   -as=fields.as - If have non-standard fields, it's great to put a definition of\n"
   "                   each field in a row in AutoSql format here.\n"
   "   -clip - If set just issue warning messages rather than dying if wig\n"
   "                  file contains items off end of chromosome."
   , blockSize, itemsPerSlot
   );
 }
 
 static struct optionSpec options[] = {
    {"blockSize", OPTION_INT},
    {"itemsPerSlot", OPTION_INT},
    {"bedFields", OPTION_INT},
    {"as", OPTION_STRING},
    {"clip", OPTION_BOOLEAN},
    {NULL, 0},
 };
 
 void bedToBigBed(char *inName, char *chromSizes, char *outName)
 /* bedToBigBed - Convert bed file to bigBed.. */
 {
 bigBedFileCreate(inName, chromSizes, blockSize, itemsPerSlot, bedFields, as, 
 	optionExists("clip"), outName);
 }
 
 int main(int argc, char *argv[])
 /* Process command line. */
 {
 optionInit(&argc, argv, options);
 blockSize = optionInt("blockSize", blockSize);
 itemsPerSlot = optionInt("itemsPerSlot", itemsPerSlot);
 bedFields = optionInt("bedFields", bedFields);
 as = optionVal("as", as);
 if (argc != 4)
     usage();
 bedToBigBed(argv[1], argv[2], argv[3]);
 return 0;
 }