80e4316afe7c2933c62bb909f61afc3f10275bfe
hiram
  Fri May 24 11:12:04 2013 -0700
updating userApps list refs #9149
diff --git src/hg/makefile src/hg/makefile
index 38e4838..ac91a7f 100644
--- src/hg/makefile
+++ src/hg/makefile
@@ -54,38 +54,61 @@
 	checkCoverageGaps \
 	checkHgFindSpec \
 	checkTableCoords \
 	dbTrash \
 	encode3/validateFiles \
 	encode3/validateManifest \
 	estOrient \
 	featureBits \
 	genePredHisto \
 	genePredSingleCover \
 	genePredToBed \
 	genePredToFakePsl \
 	genePredToMafFrames \
 	gigAssembler/checkAgpAndFa \
 	hgsql \
+	hgsqldump \
+	maskOutFa \
 	ratStuff/mafsInRegion \
 	ratStuff/mafSpeciesSubset \
 	pslCDnaFilter \
 	genePredCheck \
 	genePredToGtf \
+	pslCat \
+	pslCheck \
+	pslDropOverlap \
+	pslFilter \
+	pslHisto \
+	pslPairs \
+	pslPartition \
 	pslPretty \
+	pslRecalcMatch \
 	pslReps \
-	pslSort
+	pslSelect \
+	pslSort \
+	pslStats \
+	pslSwap \
+	pslToBed \
+	pslxToFa \
+	qaToQac \
+	qacAgpLift \
+	qacToQa \
+	qacToWig \
+	sqlToXml \
+	trfBig \
+	xmlCat \
+	xmlToSql
 
 # List of directories to build at UCSC
 UTIL_DIRS = \
 	affyTransciptome \
 	agpCloneCheck \
 	agpCloneList \
 	agpAllToFaFile \
 	agpToFa \
 	agpToGl \
 	altSplice \
 	autoDtd \
 	autoSql \
 	autoXml \
 	bedOrBlocks \
 	bedSplitOnChrom \
@@ -107,119 +130,96 @@
 	getFeatDna \
 	getRna \
 	getRnaPred \
 	gpStats \
 	gpToGtf \
 	gpcrParser \
 	gsBig \
 	hgTablesTest \
 	hgChroms \
 	hgGetAnn \
 	hgKnownGeneList \
 	hgSelect \
 	hgSpeciesRna \
 	hgsqlLocal \
 	hgsqladmin \
-	hgsqldump \
 	hgsqldumpLocal \
 	hgsqlimport \
         hgsqlSwapTables \
         hgsqlTableDate \
 	intronEnds \
 	lib \
 	liftAcross \
 	liftAgp \
 	liftFrags \
 	lfsOverlap \
 	makeDb \
-	maskOutFa \
 	mdToNcbiLift \
 	mouseStuff \
 	mrnaToGene \
 	near/hgCeOrfToGene \
 	near/hgClusterGenes \
 	near/hgEmblProtLinks \
 	near/hgExpDistance \
 	near/hgGoAssociation \
 	near/hgKnownToSuper \
 	near/hgMapToGene \
 	near/hgMapViaSwissProt \
 	near/hgProtIdToGenePred \
 	near/hgWormLinks \
 	near/pepPredToFa \
 	near/hgNearTest \
 	near/hgNetDist \
 	near/knownToHprd \
 	nci60 \
 	orthoMap \
 	patCount \
 	perf \
-	pslCat \
-	pslCheck \
 	pslCoverage \
 	pslDiff \
-	pslDropOverlap \
-	pslFilter \
 	pslFilterPrimers \
 	pslGlue \
-	pslHisto \
 	pslHitPercent \
 	pslIntronsOnly \
-	pslPartition \
-	pslPairs \
 	pslQuickFilter \
-	pslRecalcMatch \
-	pslSelect \
 	pslSimp \
 	pslSortAcc \
 	pslSplitOnTarget \
-	pslStats \
-	pslSwap \
-	pslToBed \
 	pslUnpile \
-	pslxToFa \
 	qa \
-	qaToQac \
-	qacAgpLift \
-	qacToQa \
-	qacToWig \
 	ratStuff \
 	relPairs \
 	recycleDb \
 	reviewSanity \
 	rnaStructure \
 	sage \
 	scanRa \
 	semiNorm \
 	sim4big \
 	snpException \
 	snp \
 	spideyToPsl \
 	splitFa \
 	splitFaIntoContigs \
-	sqlToXml \
 	test \
-	trfBig \
 	txCds \
 	txGene \
 	txGraph \
 	utils \
 	uniqSize \
 	updateStsInfo \
-	visiGene/knownToVisiGene \
-	xmlCat \
-	xmlToSql
+	visiGene/knownToVisiGene
 
 APPS = $(UTIL_DIRS) $(UTILS_APPLIST)
 USE_DIRS = $(UTIL_DIRS)
 
 all::    cgi utils
 
 hgLib:
 	@./sqlEnvTest.sh
 	cd lib && ${MAKE}
 
 userApps: $(UTILS_APPLIST:%=%.userApp)
 %.userApp: hgLib
 	( cd $* && echo $* && $(MAKE) )
 
 utils: $(APPS:%=%.utils)