0ecf97803f8bb59bc58eac663040fb5351892899
hiram
  Mon Aug 5 07:52:39 2024 -0700
properly make chainNetGCF_003121395 and include alpha statement refs #34179

diff --git src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
index ed4dcc7..88b1d3f 100644
--- src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
+++ src/hg/makeDb/trackDb/trackDb.chainNet.asmHub.ra
@@ -992,112 +992,16 @@
         summary /gbdb/$D/chainNet/$D.GCA_018873775.2.synNet.summary.bb
         speciesOrder GCA_018873775.2
         speciesLabels GCA_018873775.2="human"
 
         track rbestNetGCA_018873775.2
         parent mafNetGCA_018873775.2Viewnet
         subGroups view=net
         shortLabel human rBestNet
         longLabel human (Sep. 2021 GCA_018873775.2_hg01243.v3.0) Reciprocal Best Net Alignment
         type bigMaf
         bigDataUrl /gbdb/$D/chainNet/$D.GCA_018873775.2.rbestNet.bb
         summary /gbdb/$D/chainNet/$D.GCA_018873775.2.rbestNet.summary.bb
         speciesOrder GCA_018873775.2
         speciesLabels GCA_018873775.2="human"
 
-##############################################################################
-# GCF_003121395.1 - water buffalo - Bubalus bubalis - taxId: 89462 - mammals
-##############################################################################
-track chainNetGCF_003121395.1
-compositeTrack on
-release alpha
-shortLabel water buffalo Chain/Net
-longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1), 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
-matrixHeader A, C, G, T
-otherDb GCF_003121395.1
-html chainNet
-
-    track chainNetGCF_003121395.1Viewchain
-    shortLabel Chain
-    view chain
-    visibility pack
-    parent chainNetGCF_003121395.1
-    spectrum on
-
-        track chainGCF_003121395.1
-        parent chainNetGCF_003121395.1Viewchain
-        subGroups view=chain
-        shortLabel water buffalo Chain
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) Chained Alignments
-        type bigChain GCF_003121395.1
-        bigDataUrl /gbdb/$D/chainNet/$D.chainGCF_003121395.1.bb
-        linkDataUrl /gbdb/$D/chainNet/$D.chainGCF_003121395.1Link.bb
-
-        track chainSynGCF_003121395.1
-        parent chainNetGCF_003121395.1Viewchain
-        subGroups view=chain
-        shortLabel water buffalo synChain
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) Syntenic Chained Alignments
-        type bigChain GCF_003121395.1
-        bigDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_003121395.1.bb
-        linkDataUrl /gbdb/$D/chainNet/$D.chainSynGCF_003121395.1Link.bb
-
-        track chainRBestGCF_003121395.1
-        parent chainNetGCF_003121395.1Viewchain
-        subGroups view=chain
-        shortLabel water buffalo rBestChain
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) Reciprocal Best Chained Alignments
-        type bigChain GCF_003121395.1
-        bigDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_003121395.1.bb
-        linkDataUrl /gbdb/$D/chainNet/$D.chainRBestGCF_003121395.1Link.bb
-
-    track mafNetGCF_003121395.1Viewnet
-    shortLabel Net
-    view net
-    visibility full
-    parent chainNetGCF_003121395.1
-
-        track netGCF_003121395.1
-        parent mafNetGCF_003121395.1Viewnet
-        subGroups view=net
-        shortLabel water buffalo mafNet
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) mafNet Alignment
-        type bigMaf
-        bigDataUrl /gbdb/$D/chainNet/$D.GCF_003121395.1.net.bb
-        summary /gbdb/$D/chainNet/$D.GCF_003121395.1.net.summary.bb
-        speciesOrder GCF_003121395.1
-        speciesLabels GCF_003121395.1="water buffalo"
-
-        track synNetGCF_003121395.1
-        parent mafNetGCF_003121395.1Viewnet
-        subGroups view=net
-        shortLabel water buffalo synNet
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) Syntenic Net Alignment
-        type bigMaf
-        bigDataUrl /gbdb/$D/chainNet/$D.GCF_003121395.1.synNet.bb
-        summary /gbdb/$D/chainNet/$D.GCF_003121395.1.synNet.summary.bb
-        speciesOrder GCF_003121395.1
-        speciesLabels GCF_003121395.1="water buffalo"
-
-        track rbestNetGCF_003121395.1
-        parent mafNetGCF_003121395.1Viewnet
-        subGroups view=net
-        shortLabel water buffalo rBestNet
-        longLabel water buffalo (May 2018 GCF_003121395.1_ASM312139v1) Reciprocal Best Net Alignment
-        type bigMaf
-        bigDataUrl /gbdb/$D/chainNet/$D.GCF_003121395.1.rbestNet.bb
-        summary /gbdb/$D/chainNet/$D.GCF_003121395.1.rbestNet.summary.bb
-        speciesOrder GCF_003121395.1
-        speciesLabels GCF_003121395.1="crab-eating macaque"
+include chainNetGCF_003121395.ra alpha