efd363d44327be79c6b602c165cae2bf19242461
kent
  Wed Feb 27 22:08:39 2013 -0800
Adding routine to do relatively efficient finding of multiple names in a bigBed name index,  and giving bigBedNamedItems a command line option to do this.
diff --git src/inc/bigBed.h src/inc/bigBed.h
index bec1d0f..d81408f 100644
--- src/inc/bigBed.h
+++ src/inc/bigBed.h
@@ -47,30 +47,34 @@
  * Be sure to initialize summaryValues to a default value, which will not be touched
  * for regions without data in file.  (Generally you want the default value to either
  * be 0.0 or nan("") depending on the application.)  Returns FALSE if no data
  * at that position. */
 
 boolean bigBedSummaryArrayExtended(struct bbiFile *bbi, char *chrom, bits32 start, bits32 end,
 	int summarySize, struct bbiSummaryElement *summary);
 /* Get extended summary information for summarySize evenely spaced elements into
  * the summary array. */
 
 /*** Some routines for accessing bigBed items via name. ***/
 
 struct bigBedInterval *bigBedNameQuery(struct bbiFile *bbi, char *name, struct lm *lm);
 /* Return list of intervals matching file. These intervals will be allocated out of lm. */
 
+struct bigBedInterval *bigBedMultiNameQuery(struct bbiFile *bbi, char **names, 
+    int nameCount, struct lm *lm);
+/* Fetch all records matching any of the names. Return list is allocated out of lm. */
+
 int bigBedIntervalToRowLookupChrom(struct bigBedInterval *interval, 
     struct bigBedInterval *prevInterval, struct bbiFile *bbi,
     char *chromBuf, int chromBufSize, char *startBuf, char *endBuf, char **row, int rowSize);
 /* Convert bigBedInterval to array of chars equivalend to what you'd get by parsing the
  * bed file.  If you already know what chromosome the interval is on use the simpler
  * bigBedIntervalToRow.  This one will look up the chromosome based on the chromId field
  * of the interval,  which is relatively time consuming.  To avoid doing this unnecessarily
  * pass in a non-NULL prevInterval,  and if the chromId is the same on prevInterval as this,
  * it will avoid the lookup.  The chromBufSize should be at greater or equal to 
  * bbi->chromBpt->keySize+1.  The startBuf and endBuf are used to hold the ascii representation of
  * start and end, and should be 16 bytes.  Note that the interval->rest string will have zeroes 
  * inserted as a side effect.  Returns number of fields in row.  */
 
 void bigBedIntervalListToBedFile(struct bbiFile *bbi, struct bigBedInterval *intervalList, FILE *f);
 /* Write out big bed interval list to bed file, looking up chromosome. */