be4311c07e14feb728abc6425ee606ffaa611a58
markd
  Fri Jan 22 06:46:58 2021 -0800
merge with master

diff --git src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
index 997e96c..e916765 100644
--- src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
+++ src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
@@ -1,18 +1,18 @@
-################################################################
+##############################################################################
 # GCA_901343595v1_MONAX5 - woodchuck - Marmota monax - mammal
-################################################################
+##############################################################################
 track chainNetGCA_901343595v1
 compositeTrack on
 shortLabel $o_Organism Chain/Net
 longLabel $o_Organism ($o_date), Chain and Net Alignments
 subGroup1 view Views chain=Chain net=Net
 dragAndDrop subTracks
 visibility hide
 group compGeno
 noInherit on
 priority 200.3
 color 0,0,0
 altColor 255,255,0
 type bed 3
 sortOrder view=+
 matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91
@@ -40,72 +40,131 @@
 
     track chainNetGCA_901343595v1Viewnet
     shortLabel Net
     view net
     visibility dense
     parent chainNetGCA_901343595v1
 
         track netGCA_901343595v1_MONAX5
         parent chainNetGCA_901343595v1Viewnet
         subGroups view=net
         shortLabel $o_Organism Net
         longLabel $o_Organism ($o_date) Alignment Net
         type netAlign GCA_901343595v1 chainGCA_901343595v1_MONAX5
         html chainNet
 
-################################################################
-# GCF_009829145.1_bChiLan1.pri - lance-tailed manakin - Chiroxiphia lanceolata - birds
-################################################################
-track chainNetGCF_009829145.1
+##############################################################################
+# GCF_003668045.3 - Chinese hamster - Cricetulus griseus - taxId: 10029 - mammal
+##############################################################################
+track chainNetGCF_003668045.3
 compositeTrack on
-shortLabel $o_Organism Chain/Net
-longLabel $o_Organism ($o_date), Chain and Net Alignments
+shortLabel Chinese hamster Chain/Net
+longLabel Chinese hamster (Jun. 2020 GCF_003668045.3_CriGri-PICRH-1.0), Chain and Net Alignments
 subGroup1 view Views chain=Chain net=Net
 dragAndDrop subTracks
 visibility hide
 group compGeno
 noInherit on
-priority 200.3
+priority 100.1
 color 0,0,0
-altColor 255,255,0
+altColor 100,50,0
 type bed 3
 sortOrder view=+
 matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91
+chainLinearGap medium
+chainMinScore 3000
 matrixHeader A, C, G, T
-otherDb GCF_009829145.1
+otherDb GCF_003668045.3
+html chainNet
+
+    track chainNetGCF_003668045.3Viewchain
+    shortLabel Chain
+    view chain
+    visibility pack
+    parent chainNetGCF_003668045.3
+    spectrum on
+
+        track chainGCF_003668045.3
+        parent chainNetGCF_003668045.3Viewchain
+        subGroups view=chain
+        shortLabel Chinese hamster Chain
+        longLabel Chinese hamster (Jun. 2020 GCF_003668045.3_CriGri-PICRH-1.0) Chained Alignments
+        type bigChain GCF_003668045.3
+        bigDataUrl /gbdb/mm39/bbi/chainNet/chainGCF_003668045.3.bb
+        linkDataUrl /gbdb/mm39/bbi/chainNet/chainGCF_003668045.3Link.bb
+        html chainNet
+
+    track mafNetGCF_003668045.3Viewnet
+    shortLabel Net
+    view net
+    visibility full
+    parent chainNetGCF_003668045.3
+
+        track netGCF_003668045.3
+        parent mafNetGCF_003668045.3Viewnet
+        subGroups view=net
+        shortLabel Chinese hamster mafNet
+        longLabel Chinese hamster (Jun. 2020 GCF_003668045.3_CriGri-PICRH-1.0) mafNet Alignment
+        type bigMaf
+        bigDataUrl /gbdb/mm39/bbi/chainNet/mm39.GCF_003668045.3.net.bb
+        summary /gbdb/mm39/bbi/chainNet/mm39.GCF_003668045.3.net.summary.bb
+        speciesOrder GCF_003668045.3
+        html chainNet
+
+##############################################################################
+# GCF_009829145.1 - lance-tailed manakin - Chiroxiphia lanceolata - taxId: 296741 - birds
+##############################################################################
+track chainNetGCF_009829145.1
+compositeTrack on
+shortLabel lance-tailed manakin Chain/Net
+longLabel lance-tailed manakin (Jan. 2020 GCF_009829145.1_bChiLan1.pri), Chain and Net Alignments
+subGroup1 view Views chain=Chain net=Net
+dragAndDrop subTracks
+visibility hide
+group compGeno
+noInherit on
+priority 100.1
+color 0,0,0
+altColor 100,50,0
+type bed 3
+sortOrder view=+
+matrix 16 91,-114,-31,-123,-114,100,-125,-31,-31,-125,100,-114,-123,-31,-114,91
 chainMinScore 3000
 chainLinearGap medium
-spectrum on
+matrixHeader A, C, G, T
+otherDb GCF_009829145.1
 html chainNet
 
     track chainNetGCF_009829145.1Viewchain
     shortLabel Chain
     view chain
     visibility pack
     parent chainNetGCF_009829145.1
     spectrum on
 
-        track chainGCF_009829145.1_bChiLan1.pri
+        track chainGCF_009829145.1
         parent chainNetGCF_009829145.1Viewchain
         subGroups view=chain
-        shortLabel $o_Organism Chain
-        longLabel $o_Organism ($o_date) Chained Alignments
+        shortLabel lance-tailed manakin Chain
+        longLabel lance-tailed manakin (Jan. 2020 GCF_009829145.1_bChiLan1.pri) Chained Alignments
         type bigChain GCF_009829145.1
         bigDataUrl /gbdb/mm39/bbi/chainNet/chainGCF_009829145.1.bb
         linkDataUrl /gbdb/mm39/bbi/chainNet/chainGCF_009829145.1Link.bb
         html chainNet
 
-    track chainNetGCF_009829145.1Viewnet
+    track mafNetGCF_009829145.1Viewnet
     shortLabel Net
     view net
-    visibility dense
+    visibility full
     parent chainNetGCF_009829145.1
 
-        track netGCF_009829145.1_bChiLan1.pri
-        parent chainNetGCF_009829145.1Viewnet
+        track netGCF_009829145.1
+        parent mafNetGCF_009829145.1Viewnet
         subGroups view=net
-        shortLabel $o_Organism Net
-        longLabel $o_Organism ($o_date) Alignment Net
-        type netAlign GCF_009829145.1 chainGCF_009829145.1_bChiLan1.pri
+        shortLabel lance-tailed manakin mafNet
+        longLabel lance-tailed manakin (Jan. 2020 GCF_009829145.1_bChiLan1.pri) mafNet Alignment
+        type bigMaf
+        bigDataUrl /gbdb/mm39/bbi/chainNet/mm39.GCF_009829145.1.net.bb
+        summary /gbdb/mm39/bbi/chainNet/mm39.GCF_009829145.1.net.summary.bb
+        speciesOrder GCF_009829145.1
         html chainNet
 
-################################################################