b9f2d3c69ed82b01ee86bf36995abe72e8926be3
hiram
  Mon Feb 8 12:33:18 2021 -0800
add to chainDest list dbs used in mm39 chainNets refs #26815

diff --git src/hg/makeDb/schema/all.joiner src/hg/makeDb/schema/all.joiner
index 516d20a..bd0c0c9 100644
--- src/hg/makeDb/schema/all.joiner
+++ src/hg/makeDb/schema/all.joiner
@@ -201,31 +201,31 @@
 set proteinDb proteins070202,proteins060115,proteins050415,proteins051015,proteins050415,proteins050315,proteins050201,proteins041115,proteins040515,proteins040315,proteins0111,proteins0305,proteins031112,proteins040115,proteins0405,proteins070403,proteins072003,proteins092903,proteins1129
 
 # Define zoo databases (currently not checked)
 set zooDb zooBaboon3,zooCat3,zooChicken3,zooChimp3,zooCow3,zooDog3,zooFugu3,zooHuman3,zooMouse3,zooPig3,zooRat3,zooTetra3,zooZebrafish3
 
 # Define ucscRetro databases
 set ucscRetroDb hg19,hg38,mm9,mm10
 
 # Set up list of databases we ignore and those we check.  Program
 # will complain about other databases.
 
 databasesChecked $gbd,$otherDb,hgFixed
 databasesIgnored mysql,lost+found,$proteinDb,$zooDb,sc1,hgcentraltest,hgcentralbeta,test,sp090821,sp080707,sp070202,sp060115,sp051015,sp050415,sp040915,sp040515,sp040315,sp040115,qapushq,mysql-save,hgcentralangie,go070111,go060330,customTracks,customTrash,10Kgenomes,BRfoo,abc,andy,bioCyc070327,bioCyc090623,bioCyc100514,bosTau3Old,ccds,ccds20080404,ccdsNew,ccds_before,ctd,ctd021508,ctdOld,dark,elegansWS176,encpipeline_aamp,encpipeline_beta,encpipeline_galt,encpipeline_kate,encpipeline_prod,encpipeline_test,entrez,euaGli13,eutHer13,fakeDataE0,fanKgTemp,fanKgTemp2,fanTest,fanTest2,gencode,germlineVar_hg18,go040501,go041115,go050521,go050726,go060211,go061219,go080130,goJill,hg15test,hg18kg11,hg18snp130,hg18test,hg19Haps,hg19Patch10,hg19Patch13,hg19Patch9,hg19Patch5,hg19Patch2,hg19Patch2i,hg38Patch2,hg38Patch3,hg38Patch5,hg38Patch6,hg38Patch7,hg38Patch9,hg38Patch11,hg19snp131,hg19snp132,hg19snp134,hg19snp135,hg19snp137,hg19snp138,hg19snp141,hg38snp141,hg19snp142,hg38snp142,hg19snp144,hg38snp144,hg19snp146,hg38snp146,hg19snp147,hg38snp147,hg19snp149,hg38snp149,hg19snp150,hg38snp150,hg19snp151,hg38snp151,mm10snp138,canFam3snp139,bosTau7snp138,bosTau8snp148,susScr3snp138,galGal4snp138,hgcentralgsid,hgcentralrhead,hgcentraltest2,hgcentraltestangie,hiv1,hivgne8,homIni13,homIni14,homIni20,homNea0,homPan20,influenza,information_schema,ismb2004,jkFoo,jorgetest,kgHg17FTemp,kgHg18ATemp,kgMm8ATemp,kgRn3DTemp,markd,markdCcds,markdMGC,membership,metaData_vsmalladi,metadata_krish,mikep,mm9Temp,mm10snp137,mmtv,nonAfr13,oldChoHof1,panTro2snp127,pathway,petMar0,pongo,proteins080707,proteins090821,qa,rah,reactome,rn4UCGenes,rn4snp130,snpCompare,snpFixed,sp100331,sp101005,t18,testMePrivl,tmpBioCychg18,tmpFoo12,tmpUcscGeneshg19,treeFam,uf,ug,vega33,vega40,visiGeneOld,visiGeneXml
 
 # Define various non-self chains
-set chainDest AilMel1,AmbMex1,AncCey1,AnoCar1,AnoCar2,AnoGam1,ApiMel1,ApiMel2,ApiMel3,ApiMel4,AplCal1,AscSuu1,BosTau1,BosTau2,BosTau3,BosTau4,BosTau6,BosTau7,BosTau8,BosTau9,BraFlo1,BraFlo2,BruMal1,BruMal2,BurXyl1,CaeAng1,CaeAng2,CaeJap1,CaeJap3,CaeJap4,CaePb1,CaePb2,CaePb3,CaeRem2,CaeRem3,CaeRem4,CaeSp111,CaeSp51,CalJac1,CalJac3,CalJac4,CalMil1,CanFam1,CanFam2,CanFam3,CanFam4,CanFam5,CanFamPoodle1,CavPor3,Cb1,Cb3,Cb4,Ce2,Ce4,Ce6,Ce9,Ce10,Ce11,ChlSab1,ChlSab2,ChoHof1,ChrPic2,Ci1,Ci2,CioSav2,ColAng1,CriGri1,CriGriChoV1,DanRer1,DanRer2,DanRer3,DanRer4,DanRer5,DanRer6,DanRer7,DanRer10,DasNov2,DasNov3,DipOrd1,DirImm1,Dm1,Dm2,Dm3,Dm6,Dp1,Dp2,Dp3,Dp4,DroAlb1,DroAna1,DroAna2,DroAna3,DroBia2,DroBip2,DroEle2,DroEre1,DroEre2,DroEug2,DroFic2,DroGri1,DroGri2,DroKik2,DroMir2,DroMoj1,DroMoj2,DroMoj3,DroPer1,DroPse3,DroRho2,DroSec1,DroSim1,DroSuz1,DroTak2,DroVir1,DroVir2,DroVir3,DroWil1,DroWil2,DroYak1,DroYak2,DroYak3,EchTel1,EnhLutNer1,EquCab1,EquCab2,EquCab3,EriEur1,EriEur2,FalPer1,FelCat3,FelCat4,FelCat5,FelCat8,FelCat9,Fr1,Fr2,Fr3,GadMor1,GalGal2,GalGal3,GalGal4,GalGal5,GalGal6,GalVar1,GasAcu1,GeoFor1,GorGor1,GorGor2,GorGor3,GorGor4,GorGor5,GorGor6,HaeCon1,HaeCon2,HetBac1,HetGla1,HetGla2,Hg16,Hg17,Hg18,Hg19,Hg19Patch2,Hg19Patch5,Hg19Patch9,Hg19Patch10,Hg19Patch13,Hg38Patch2,Hg38Patch3,Hg38Patch5,Hg38Patch6,Hg38Patch7,Hg38Patch9,Hg38Patch11,Hg38,LatCha1,LepWed1,LoaLoa1,LoxAfr2,LoxAfr3,MacEug1,MacEug2,MacFas5,MarVir1,MayZeb1,MelGal1,MelGal5,MelHap1,MelInc1,MelInc2,MelUnd1,MesAur1,MicMur1,MicMur2,MicMur3,MicOch1,Mm5,Mm6,Mm7,Mm8,Mm9,Mm10,Mm10Patch1,Mm10Patch4,Mm39,MonDom1,MonDom2,MonDom4,MonDom5,MusDom2,MyoLuc1,MyoLuc2,NanPar1,NasLar1,NecAme1,NeoSch1,NomLeu1,NomLeu2,NomLeu3,OchPri2,OncVol1,OreNil1,OreNil2,OreNil3,OrnAna1,OrnAna2,OryCun1,OryCun2,OryLat1,OryLat2,OtoGar1,OtoGar3,OviAri1,OviAri3,OviAri4,PanPan1,PanRed1,PanTro1,PanTro2,PanTro3,PanTro4,PanTro5,PanTro6,PapAnu2,PapAnu3,PapHam1,PelSin1,PetMar1,PetMar2,PetMar3,PonAbe2,PonAbe3,PriExs1,PriPac1,PriPac2,PriPac3,ProCap1,ProCoq1,PteVam1,RheMac1,RheMac2,RheMac3,RheMac8,RheMac10,RhiRox1,Rn3,Rn4,Rn5,Rn6,RegenRn0,SaiBol1,SorAra1,SpeTri1,SpeTri2,StrRat1,StrRat2,StrPur1,StrPur2,SusScr1,SusScr2,SusScr3,SusScr11,TaeGut1,TaeGut2,TarSyr1,TarSyr2,TetNig1,TetNig2,TriCas2,TriMan1,TriSpi1,TriSui1,TupBel1,TurTle1,TurTru1,TurTru2,VicPac1,VicPac2,XenLae2,XenTro1,XenTro2,XenTro3,XenTro7,XenTro9
+set chainDest AilMel1,AmbMex1,AncCey1,AnoCar1,AnoCar2,AnoGam1,ApiMel1,ApiMel2,ApiMel3,ApiMel4,AplCal1,AscSuu1,BosTau1,BosTau2,BosTau3,BosTau4,BosTau6,BosTau7,BosTau8,BosTau9,BraFlo1,BraFlo2,BruMal1,BruMal2,BurXyl1,CaeAng1,CaeAng2,CaeJap1,CaeJap3,CaeJap4,CaePb1,CaePb2,CaePb3,CaeRem2,CaeRem3,CaeRem4,CaeSp111,CaeSp51,CalJac1,CalJac3,CalJac4,CalMil1,CanFam1,CanFam2,CanFam3,CanFam4,CanFam5,CanFamPoodle1,CavPor3,Cb1,Cb3,Cb4,Ce2,Ce4,Ce6,Ce9,Ce10,Ce11,ChlSab1,ChlSab2,ChoHof1,ChrPic2,Ci1,Ci2,CioSav2,ColAng1,CriGri1,CriGriChoV1,DanRer1,DanRer2,DanRer3,DanRer4,DanRer5,DanRer6,DanRer7,DanRer10,DanRer11,DasNov2,DasNov3,DipOrd1,DirImm1,Dm1,Dm2,Dm3,Dm6,Dp1,Dp2,Dp3,Dp4,DroAlb1,DroAna1,DroAna2,DroAna3,DroBia2,DroBip2,DroEle2,DroEre1,DroEre2,DroEug2,DroFic2,DroGri1,DroGri2,DroKik2,DroMir2,DroMoj1,DroMoj2,DroMoj3,DroPer1,DroPse3,DroRho2,DroSec1,DroSim1,DroSuz1,DroTak2,DroVir1,DroVir2,DroVir3,DroWil1,DroWil2,DroYak1,DroYak2,DroYak3,EchTel1,EchTel2,EnhLutNer1,EquCab1,EquCab2,EquCab3,EriEur1,EriEur2,FalPer1,FelCat3,FelCat4,FelCat5,FelCat8,FelCat9,Fr1,Fr2,Fr3,GadMor1,GalGal2,GalGal3,GalGal4,GalGal5,GalGal6,GalVar1,GasAcu1,GeoFor1,GorGor1,GorGor2,GorGor3,GorGor4,GorGor5,GorGor6,HaeCon1,HaeCon2,HetBac1,HetGla1,HetGla2,Hg16,Hg17,Hg18,Hg19,Hg19Patch2,Hg19Patch5,Hg19Patch9,Hg19Patch10,Hg19Patch13,Hg38Patch2,Hg38Patch3,Hg38Patch5,Hg38Patch6,Hg38Patch7,Hg38Patch9,Hg38Patch11,Hg38,LatCha1,LepWed1,LoaLoa1,LoxAfr2,LoxAfr3,MacEug1,MacEug2,MacFas5,ManPen1,MarVir1,MayZeb1,MelGal1,MelGal5,MelHap1,MelInc1,MelInc2,MelUnd1,MesAur1,MicMur1,MicMur2,MicMur3,MicOch1,Mm5,Mm6,Mm7,Mm8,Mm9,Mm10,Mm10Patch1,Mm10Patch4,Mm39,MonDom1,MonDom2,MonDom4,MonDom5,MusDom2,MyoLuc1,MyoLuc2,NanPar1,NasLar1,NecAme1,NeoSch1,NomLeu1,NomLeu2,NomLeu3,OchPri2,OchPri3,OncVol1,OreNil1,OreNil2,OreNil3,OrnAna1,OrnAna2,OryCun1,OryCun2,OryLat1,OryLat2,OtoGar1,OtoGar3,OviAri1,OviAri3,OviAri4,PanPan1,PanPan2,PanRed1,PanTro1,PanTro2,PanTro3,PanTro4,PanTro5,PanTro6,PapAnu2,PapAnu3,PapHam1,PelSin1,PetMar1,PetMar2,PetMar3,PonAbe2,PonAbe3,PriExs1,PriPac1,PriPac2,PriPac3,ProCap1,ProCoq1,PteVam1,RheMac1,RheMac2,RheMac3,RheMac8,RheMac10,RhiRox1,Rn3,Rn4,Rn5,Rn6,RegenRn0,SaiBol1,SorAra1,SorAra2,SpeTri1,SpeTri2,StrRat1,StrRat2,StrPur1,StrPur2,SusScr1,SusScr2,SusScr3,SusScr11,TaeGut1,TaeGut2,TarSyr1,TarSyr2,TetNig1,TetNig2,TriCas2,TriMan1,TriSpi1,TriSui1,TupBel1,TurTle1,TurTru1,TurTru2,VicPac1,VicPac2,XenLae2,XenTro1,XenTro2,XenTro3,XenTro7,XenTro9
 
 # Define databases that support known genes
 set kgDb $hg,$mm,rn3
 # Older format (KG 2)
 set kgDb2 hg16,hg17,mm7,mm8,rn3,rn4
 # Newer format (KG 3 aka UCSC Genes)
 set kgDb3 hg18,hg19,hg38,mm9,mm10
 
 # Protein browser databases.
 set pbDb hg18,hg17,hg16,mm7,mm8,mm9,rn3
 set pbDb1 hg17,hg16,mm7,mm8,mm9,rn3
 set pbDb2 rn3
 set pbDb3 hg16,hg17,hg18
 
 # Define databases that support family browser (gene sorter)