3f9ec7598d1179c1802de375f06d01005306b787
markd
  Tue Apr 19 20:26:43 2016 -0700
add program to convert transMap PSL to genePred. This handles cds for mappings that start out as genomic annotations (as opposed to alignments)

diff --git src/hg/utils/makefile src/hg/utils/makefile
index 03ddde8..874fb3c 100644
--- src/hg/utils/makefile
+++ src/hg/utils/makefile
@@ -30,30 +30,31 @@
 	gapToLift \
 	genePredFilter \
 	genePredToBigGenePred \
 	gff3ToGenePred \
 	gff3ToPsl \
 	gtfToGenePred \
 	hubCheck \
 	hubPublicCheck \
 	makeTableList \
 	oligoMatch \
 	overlapSelect \
 	positionalTblCheck \
 	pslToBigPsl \
 	pslMap \
 	tdbQuery \
+	transMapPslToGenePred \
 	twoBitMask
 
 SCRIPT_FILES = \
 	dbNsfpToBed.pl \
 	dumpDb.pl \
 	mergeOverlapBed4.pl \
 	mergeSortedBed3Plus.pl
 
 # List of directories to build of interest only at UCSC
 DIRS = ${buildRefresh} \
 	automation \
 	checkUrlsInTable \
 	geoMirrorNode \
 	makeTrackIndex \
 	mysqlSecurityCheck \