bbd6bb52c2407aa5c46725fef114aed1a6b5b396
hiram
  Thu Sep 3 12:49:32 2020 -0700
Added calJac4 mouse; refs #24074

diff --git src/hg/makeDb/genbank/etc/genbank.conf src/hg/makeDb/genbank/etc/genbank.conf
index 8ab7d1e..acc305f 100644
--- src/hg/makeDb/genbank/etc/genbank.conf
+++ src/hg/makeDb/genbank/etc/genbank.conf
@@ -2886,30 +2886,49 @@
 caeJap1.refseq.mrna.native.pslCDnaFilter  = ${lowCover.refseq.mrna.native.pslCDnaFilter}
 caeJap1.refseq.mrna.xeno.pslCDnaFilter    = ${lowCover.refseq.mrna.xeno.pslCDnaFilter}
 caeJap1.genbank.mrna.native.pslCDnaFilter = ${lowCover.genbank.mrna.native.pslCDnaFilter}
 caeJap1.genbank.mrna.xeno.pslCDnaFilter   = ${lowCover.genbank.mrna.xeno.pslCDnaFilter}
 caeJap1.genbank.est.native.pslCDnaFilter  = ${lowCover.genbank.est.native.pslCDnaFilter}
 caeJap1.refseq.mrna.native.load = yes
 caeJap1.refseq.mrna.xeno.load  = yes
 caeJap1.refseq.mrna.xeno.loadDesc = yes
 # DO NOT NEED genbank.mrna.xeno except for human, mouse
 caeJap1.genbank.mrna.xeno.load = yes
 caeJap1.genbank.est.native.load = yes
 caeJap1.genbank.est.native.loadDesc = no
 caeJap1.downloadDir = caeJap1
 caeJap1.perChromTables = no
 
+# Marmoset - GCF_009663435.1 - Callithrix_jacchus_cj1700_1.1
+calJac4.serverGenome = /hive/data/genomes/calJac4/calJac4.2bit
+calJac4.ooc = /hive/data/genomes/calJac4/jkStuff/calJac4.11.ooc
+calJac4.lift = /hive/data/genomes/calJac4/jkStuff/calJac4.gaps.lft
+calJac4.perChromTables = no
+calJac4.refseq.mrna.native.pslCDnaFilter  = ${finished.refseq.mrna.native.pslCDnaFilter}
+calJac4.refseq.mrna.xeno.pslCDnaFilter    = ${finished.refseq.mrna.xeno.pslCDnaFilter}
+calJac4.genbank.mrna.native.pslCDnaFilter = ${finished.genbank.mrna.native.pslCDnaFilter}
+calJac4.genbank.mrna.xeno.pslCDnaFilter   = ${finished.genbank.mrna.xeno.pslCDnaFilter}
+calJac4.genbank.est.native.pslCDnaFilter  = ${finished.genbank.est.native.pslCDnaFilter}
+calJac4.genbank.est.xeno.pslCDnaFilter    = ${finished.genbank.est.xeno.pslCDnaFilter}
+calJac4.downloadDir = calJac4
+calJac4.refseq.mrna.native.load  = yes
+calJac4.refseq.mrna.xeno.load = yes
+calJac4.refseq.mrna.xeno.loadDesc  = yes
+calJac4.genbank.mrna.xeno.load  = yes
+# calJac4.upstreamGeneTbl = ensGene
+# calJac4.upstreamMaf = multiz13way /hive/data/genomes/calJac4/bed/multiz13way/species.list
+
 # Marmoset
 calJac3.serverGenome = /hive/data/genomes/calJac3/calJac3.2bit
 calJac3.ooc = /hive/data/genomes/calJac3/calJac3.11.ooc
 calJac3.lift = no
 calJac3.perChromTables = no
 calJac3.refseq.mrna.native.pslCDnaFilter  = ${ordered.refseq.mrna.native.pslCDnaFilter}
 calJac3.refseq.mrna.xeno.pslCDnaFilter    = ${ordered.refseq.mrna.xeno.pslCDnaFilter}
 calJac3.genbank.mrna.native.pslCDnaFilter = ${ordered.genbank.mrna.native.pslCDnaFilter}
 calJac3.genbank.mrna.xeno.pslCDnaFilter   = ${ordered.genbank.mrna.xeno.pslCDnaFilter}
 calJac3.genbank.est.native.pslCDnaFilter  = ${ordered.genbank.est.native.pslCDnaFilter}
 calJac3.genbank.est.xeno.pslCDnaFilter    = ${ordered.genbank.est.xeno.pslCDnaFilter}
 calJac3.downloadDir = calJac3
 calJac3.refseq.mrna.native.load  = yes
 calJac3.refseq.mrna.xeno.load = yes
 calJac3.refseq.mrna.xeno.loadDesc  = yes