711a43a7e71b5dc994106d21f9b3254fe48b009b
hiram
  Wed Sep 11 08:59:03 2019 -0700
Added regenRn1 - Regeneron rat refs #21579

diff --git src/hg/makeDb/genbank/etc/genbank.conf src/hg/makeDb/genbank/etc/genbank.conf
index cdaedbd..ad51a52 100644
--- src/hg/makeDb/genbank/etc/genbank.conf
+++ src/hg/makeDb/genbank/etc/genbank.conf
@@ -664,30 +664,48 @@
 rn5.lift = /hive/data/genomes/rn5/jkStuff/rn5.nonBridged.lift
 rn5.refseq.mrna.native.pslCDnaFilter  = ${finished.refseq.mrna.native.pslCDnaFilter}
 rn5.refseq.mrna.xeno.pslCDnaFilter    = ${finished.refseq.mrna.xeno.pslCDnaFilter}
 rn5.genbank.mrna.native.pslCDnaFilter = ${finished.genbank.mrna.native.pslCDnaFilter}
 rn5.genbank.mrna.xeno.pslCDnaFilter   = ${finished.genbank.mrna.xeno.pslCDnaFilter}
 rn5.genbank.est.native.pslCDnaFilter  = ${finished.genbank.est.native.pslCDnaFilter}
 rn5.downloadDir = rn5
 rn5.refseq.mrna.xeno.load  = yes
 rn5.refseq.mrna.xeno.loadDesc = yes
 rn5.genbank.mrna.xeno.load  = yes
 rn5.perChromTables = no
 rn5.mgc = yes
 rn5.upstreamGeneTbl = ensGene
 rn5.upstreamMaf = multiz13way /hive/data/genomes/rn5/bed/multiz13way/species.list.txt
 
+# regenRn1 (Regeneron rat assembly)
+regenRn1.serverGenome = /hive/data/genomes/regenRn1/regenRn1.2bit
+regenRn1.ooc = /hive/data/genomes/regenRn1/jkStuff/regenRn1.11.ooc
+regenRn1.lift = /hive/data/genomes/regenRn1/jkStuff/nonBridged.lift
+regenRn1.refseq.mrna.native.pslCDnaFilter  = ${finished.refseq.mrna.native.pslCDnaFilter}
+regenRn1.refseq.mrna.xeno.pslCDnaFilter    = ${finished.refseq.mrna.xeno.pslCDnaFilter}
+regenRn1.genbank.mrna.native.pslCDnaFilter = ${finished.genbank.mrna.native.pslCDnaFilter}
+regenRn1.genbank.mrna.xeno.pslCDnaFilter   = ${finished.genbank.mrna.xeno.pslCDnaFilter}
+regenRn1.genbank.est.native.pslCDnaFilter  = ${finished.genbank.est.native.pslCDnaFilter}
+regenRn1.downloadDir = regenRn1
+regenRn1.refseq.mrna.xeno.load  = yes
+regenRn1.refseq.mrna.xeno.loadDesc = yes
+regenRn1.genbank.mrna.xeno.load  = yes
+regenRn1.perChromTables = no
+regenRn1.mgc = yes
+# regenRn1.upstreamGeneTbl = ensGene
+# regenRn1.upstreamMaf = multiz13way /hive/data/genomes/regenRn1/bed/multiz13way/species.list.txt
+
 # regenRn0 (Regeneron rat assembly)
 regenRn0.serverGenome = /hive/data/genomes/regenRn0/regenRn0.2bit
 regenRn0.ooc = /hive/data/genomes/regenRn0/jkStuff/regenRn0.11.ooc
 regenRn0.lift = /hive/data/genomes/regenRn0/jkStuff/nonBridged.lift
 regenRn0.refseq.mrna.native.pslCDnaFilter  = ${finished.refseq.mrna.native.pslCDnaFilter}
 regenRn0.refseq.mrna.xeno.pslCDnaFilter    = ${finished.refseq.mrna.xeno.pslCDnaFilter}
 regenRn0.genbank.mrna.native.pslCDnaFilter = ${finished.genbank.mrna.native.pslCDnaFilter}
 regenRn0.genbank.mrna.xeno.pslCDnaFilter   = ${finished.genbank.mrna.xeno.pslCDnaFilter}
 regenRn0.genbank.est.native.pslCDnaFilter  = ${finished.genbank.est.native.pslCDnaFilter}
 regenRn0.downloadDir = regenRn0
 regenRn0.refseq.mrna.xeno.load  = yes
 regenRn0.refseq.mrna.xeno.loadDesc = yes
 regenRn0.genbank.mrna.xeno.load  = yes
 regenRn0.perChromTables = no
 regenRn0.mgc = yes