b95ff3835509b242bd9007ba55c4f60c1022da47
markd
  Thu Dec 30 14:58:16 2010 -0800
moved to programs to hg/utils, fixed build of distributed utilities
diff --git src/makefile src/makefile
index 90a21b7..79516ea 100644
--- src/makefile
+++ src/makefile
@@ -52,33 +52,33 @@
 	cd utils/twoBitInfo && ${MAKE}
 	cd isPcr && ${MAKE}
 	cd blatz && ${MAKE}
 
 # all of these application makefiles have been updated to include use
 #	of DESTDIR and BINDIR
 
 UTILS_APPLIST = bedClip bedGraphToBigWig bedToBigBed \
         bigBedInfo bigBedSummary bigBedToBed \
 	bigWigInfo bigWigSummary bigWigToBedGraph bigWigToWig\
 	faCount faFrag faOneRecord faRandomize faSize faSomeRecords faToNib \
 	faToTwoBit htmlCheck nibFrag stringify \
 	textHistogram twoBitInfo twoBitToFa userApps wigCorrelate wigToBigWig
 
 HG_APPLIST = bedSort liftUp liftOver bedItemOverlapCount encode/validateFiles \
-	 gff3ToGenePred gtfToGenePred ratStuff/mafsInRegion ratStuff/mafSpeciesSubset pslCDnaFilter
+	 gtfToGenePred ratStuff/mafsInRegion ratStuff/mafSpeciesSubset pslCDnaFilter
 
-HG_UTILS_APPLIST = bedExtendRanges
+HG_UTILS_APPLIST = bedExtendRanges gff3ToGenePred overlapSelect
 
 userApps: topLibs hgLib
 	@for P in ${UTILS_APPLIST}; do \
 	    ( cd utils/$${P} && echo utils/$${P} && ${MAKE} ) ; \
 	done
 	@for P in ${HG_APPLIST}; do \
 	    ( cd hg/$${P} && echo hg/$${P} && ${MAKE} ) ; \
 	done
 	@for P in ${HG_UTILS_APPLIST}; do \
 	    ( cd hg/utils/$${P} && echo hg/utils/$${P} && ${MAKE} ) ; \
 	done
 
 clean:
 	@for D in ${DIRS} x; do \
             if test "$$D" != "x" ; then \