src/hg/makeDb/schema/all.joiner 1.729

Index: src/hg/makeDb/schema/all.joiner
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/schema/all.joiner,v
retrieving revision 1.728
retrieving revision 1.729
diff -b -B -U 4 -r1.728 -r1.729
--- src/hg/makeDb/schema/all.joiner	28 Jul 2009 23:54:53 -0000	1.728
+++ src/hg/makeDb/schema/all.joiner	5 Aug 2009 23:01:08 -0000	1.729
@@ -32,8 +32,9 @@
 set galGal galGal2,galGal3
 set gasAcu gasAcu1
 set gorGor gorGor1
 set hg hg16,hg17,hg18,hg19
+set loxAfr loxAfr3
 set mm mm6,mm7,mm8,mm9
 set monDom monDom1,monDom4,monDom5
 set ornAna ornAna1
 set oryLat oryLat2
@@ -49,9 +50,9 @@
 set tetNig tetNig1
 set xenTro xenTro1,xenTro2
 
 # Define all organism/assembly-specific databases.
-set gbd $hg,$mm,$rn,$fr,$ce,$cb,$dm,$dp,$sacCer,$panTro,$galGal,$ci,$danRer,$canFam,$droYak,$droMult,$anoGam,$apiMel,$cioSav,$tetNig,$xenTro,$monDom,$bosTau,$rheMac,$strPur,$felCat,$gasAcu,$oryLat,$equCab,$anoCar,$ornAna,$caePb,$caeRem,$caeJap,$priPac,$ponAbe,$calJac,$cavPor,$petMar,$braFlo,$taeGut,$gorGor,$aplCal
+set gbd $hg,$mm,$rn,$fr,$ce,$cb,$dm,$dp,$sacCer,$panTro,$galGal,$ci,$danRer,$canFam,$droYak,$droMult,$anoGam,$apiMel,$cioSav,$tetNig,$xenTro,$monDom,$bosTau,$rheMac,$strPur,$felCat,$gasAcu,$oryLat,$equCab,$anoCar,$ornAna,$caePb,$caeRem,$caeJap,$priPac,$ponAbe,$calJac,$cavPor,$petMar,$braFlo,$taeGut,$gorGor,$aplCal,$loxAfr
 
 # Define organism databases based on whole-genome shotgun projects
 # (Assembly based on WGS project contigs accessioned in Genbank)
 set wgs $rn,$panTro,$galGal,$canFam,$bosTau,$felCat,$monDom,$tetNig,$fr,$oryLat,$calJac,$cavPor,$taeGut
@@ -80,9 +81,9 @@
 set zooDb zooBaboon3,zooCat3,zooChicken3,zooChimp3,zooCow3,zooDog3,zooFugu3,zooHuman3,zooMouse3,zooPig3,zooRat3,zooTetra3,zooZebrafish3
 
 # Define transMap databases
 # transMapDb not public: dasNov1,echTel1,loxAfr1,oryCun1,otoGar1
-set transMapDb anoCar1,bosTau4,calJac1,canFam2,cavPor3,danRer5,equCab2,felCat3,fr2,galGal3,gasAcu1,hg18,mm9,monDom4,ornAna1,oryLat2,panTro2,petMar1,ponAbe2,rheMac2,rn4,tetNig1,xenTro2
+set transMapDb anoCar1,bosTau4,calJac1,canFam2,cavPor3,danRer5,equCab2,felCat3,fr2,galGal3,gasAcu1,hg18,loxAfr3,mm9,monDom4,ornAna1,oryLat2,panTro2,petMar1,ponAbe2,rheMac2,rn4,tetNig1,xenTro2
 
 # Set up list of databases we ignore and those we check.  Program
 # will complain about other databases.
 databasesChecked $gbd,$otherDb
@@ -3034,8 +3035,14 @@
     fbUniProt
     flyreg
     flyreg2
 
+tablesIgnored $loxAfr
+    gold
+    chainHg19
+    chainHg19Link
+    xenoRefFlat
+
 tablesIgnored $equCab
     chr%_gold
 
 tablesIgnored $fr