f7a1de048f1e4a82213dfbce22ceddd33b095c0e
hiram
  Fri Sep 11 13:31:09 2020 -0700
adding definitions for calJac4 chainNet refs #24074

diff --git src/hg/makeDb/trackDb/human/chainNetPrimate.ra src/hg/makeDb/trackDb/human/chainNetPrimate.ra
index f7ab97a..9910a6f 100644
--- src/hg/makeDb/trackDb/human/chainNetPrimate.ra
+++ src/hg/makeDb/trackDb/human/chainNetPrimate.ra
@@ -1,21 +1,21 @@
 track primateChainNet
 compositeTrack on
 shortLabel Primate Chain/Net
 longLabel Primate Genomes, Chain and Net Alignments
 subGroup1 view Views chain=Chains net=Nets
-subGroup2 species Species s000=Human s001=Human s002=J._Craig_Venter s0025=Chimp s003=Chimp s004=Chimp s005=Chimp s006=Chimp s007a=Bonobo s007b=Bonobo s008=Bonobo s009a=Gorilla s009b=Gorilla s010=Gorilla s011=Gorilla s012=Gorilla s013a=Orangutan s013b=Orangutan s014=Gibbon s015=Gibbon s016=Proboscis_monkey s017=Black_snub-nosed_monkey s018=Golden_snub-nosed_monkey s019=Angolan_colobus s020=Crab-eating_macaque s021=Rhesus s022=Rhesus s023=Rhesus s024=Baboon s025=Baboon s026=Baboon s027=Pig-tailed_macaque s028=Sooty_mangabey s029=Green_monkey s030=Green_monkey s031=Drill s032=Squirrel_monkey s033=Ma's_night_monkey s034=Marmoset s035=Marmoset s036=White-faced_sapajou s037=Tarsier s038=Tarsier s039=Sclater's_lemur s040=Black_lemur s041=Coquerel's_sifaka s042=Mouse_lemur s043=Mouse_lemur s044=Mouse_lemur s045=Bushbaby s046=Bushbaby
+subGroup2 species Species s000=Human s001=Human s002=J._Craig_Venter s0025=Chimp s003=Chimp s004=Chimp s005=Chimp s006=Chimp s007a=Bonobo s007b=Bonobo s008=Bonobo s009a=Gorilla s009b=Gorilla s010=Gorilla s011=Gorilla s012=Gorilla s013a=Orangutan s013b=Orangutan s014=Gibbon s015=Gibbon s016=Proboscis_monkey s017=Black_snub-nosed_monkey s018=Golden_snub-nosed_monkey s019=Angolan_colobus s020=Crab-eating_macaque s021=Rhesus s022=Rhesus s023=Rhesus s024=Baboon s025=Baboon s026=Baboon s027=Pig-tailed_macaque s028=Sooty_mangabey s029=Green_monkey s030=Green_monkey s031=Drill s032=Squirrel_monkey s033=Ma's_night_monkey s034a=Marmoset s034b=Marmoset s035=Marmoset s036=White-faced_sapajou s037=Tarsier s038=Tarsier s039=Sclater's_lemur s040=Black_lemur s041=Coquerel's_sifaka s042=Mouse_lemur s043=Mouse_lemur s044=Mouse_lemur s045=Bushbaby s046=Bushbaby
 subGroup3 clade Clade c00=hominidae c01=cercopithecinae c02=haplorrhini c03=strepsirrhini
 dragAndDrop subTracks
 visibility hide
 group compGeno
 noInherit on
 color 0,0,0
 altColor 255,255,0
 type bed 3
 chainLinearGap loose
 chainMinScore 5000
 dimensions dimensionX=clade dimensionY=species
 sortOrder species=+ view=+ clade=+
 configurable on
 html primateChainNet
 priority 7
@@ -314,33 +314,41 @@
         subTrack primateChainNetViewchain off
         subGroups view=chain species=s032 clade=c02
         shortLabel $o_db Chain
         longLabel $o_Organism ($o_date) Chained Alignments
         type chain saiBol1
         otherDb saiBol1
 
         track chainAotNan1
         subTrack primateChainNetViewchain off
         subGroups view=chain species=s033 clade=c02
         shortLabel $o_db Chain
         longLabel $o_Organism ($o_date) Chained Alignments
         type chain aotNan1
         otherDb aotNan1
 
+        track chainCalJac4
+        subTrack primateChainNetViewchain off
+        subGroups view=chain species=s034a clade=c02
+        shortLabel $o_Organism Chain
+        longLabel $o_Organism ($o_date) Chained Alignments
+        type chain calJac4
+        otherDb calJac4
+
         track chainCalJac3
         subTrack primateChainNetViewchain off
-        subGroups view=chain species=s034 clade=c02
+        subGroups view=chain species=s034b clade=c02
         shortLabel $o_Organism Chain
         longLabel $o_Organism ($o_date) Chained Alignments
         type chain calJac3
         otherDb calJac3
 
         track chainCalJac1
         subTrack primateChainNetViewchain off
         subGroups view=chain species=s035 clade=c02
         shortLabel $o_db Chain
         longLabel $o_Organism ($o_date) Chained Alignments
         type chain calJac1
         otherDb calJac1
 
         track chainCebCap1
         subTrack primateChainNetViewchain off
@@ -720,33 +728,41 @@
         subTrack primateChainNetViewnet off
         subGroups view=net species=s032 clade=c02
         shortLabel $o_db Net
         longLabel $o_Organism ($o_date) Alignment Net
         type netAlign saiBol1 chainSaiBol1
         otherDb saiBol1
 
         track netAotNan1
         subTrack primateChainNetViewnet off
         subGroups view=net species=s033 clade=c02
         shortLabel $o_db Net
         longLabel $o_Organism ($o_date) Alignment Net
         type netAlign aotNan1 chainAotNan1
         otherDb aotNan1
 
+        track netCalJac4
+        subTrack primateChainNetViewnet on
+        subGroups view=net species=s034a clade=c02
+        shortLabel $o_Organism Net
+        longLabel $o_Organism ($o_date) Alignment Net
+        type netAlign calJac4 chainCalJac4
+        otherDb calJac4
+
         track netCalJac3
         subTrack primateChainNetViewnet on
-        subGroups view=net species=s034 clade=c02
+        subGroups view=net species=s034b clade=c02
         shortLabel $o_Organism Net
         longLabel $o_Organism ($o_date) Alignment Net
         type netAlign calJac3 chainCalJac3
         otherDb calJac3
 
         track netCalJac1
         subTrack primateChainNetViewnet off
         subGroups view=net species=s035 clade=c02
         shortLabel $o_db Net
         longLabel $o_Organism ($o_date) Alignment Net
         type netAlign calJac1 chainCalJac1
         otherDb calJac1
 
         track netCebCap1
         subTrack primateChainNetViewnet off