d21a851e1892724009277d5de14a3c4df6e5951a
angie
  Mon Jun 3 12:40:16 2013 -0700
oops, forgot to clean up qLm -- added now.  for #6152
diff --git src/inc/annoGrator.h src/inc/annoGrator.h
index 30058a6..a86b667 100644
--- src/inc/annoGrator.h
+++ src/inc/annoGrator.h
@@ -26,30 +26,31 @@
     struct annoStreamer streamer;	// external annoStreamer interface
 
     // Public method that makes this a 'grator:
     struct annoRow *(*integrate)(struct annoGrator *self, struct annoStreamRows *primaryData,
 				 boolean *retRJFilterFailed, struct lm *callerLm);
     /* Integrate internal source's data with single row of primary source's data */
 
     void (*setOverlapRule)(struct annoGrator *self, enum annoGratorOverlap rule);
     /* Tell annoGrator how to handle overlap of its rows with primary row. */
 
     // Private members -- callers are on the honor system to access these using only methods above.
     struct annoStreamer *mySource;	// internal source
     struct annoRow *qHead;		// head of FIFO queue of rows from internal source
     struct annoRow *qTail;		// head of FIFO queue of rows from internal source
     struct lm *qLm;			// localmem for FIFO queue
+    int qSkippedCount;			// Number of qLm-allocated rows skipped
     char *prevPChrom;			// for detection of unsorted input from primary
     uint prevPStart;			// for detection of unsorted input from primary
     boolean eof;			// stop asking internal source for rows when it's done
     boolean haveRJIncludeFilter;	// TRUE if some filter has !isExclude && rightJoin
     enum annoGratorOverlap overlapRule;	// constraint (if any) on overlap of internal & primary
     };
 
 #endif//ndef ANNOGRATOR_H
 
 // ---------------------- annoGrator default methods -----------------------
 
 struct annoRow *annoGratorIntegrate(struct annoGrator *self, struct annoStreamRows *primaryData,
 				    boolean *retRJFilterFailed, struct lm *callerLm);
 /* Given a single row from the primary source, get all overlapping rows from internal
  * source, and produce joined output rows.  Use callerLm to allocate the output rows.