# This doc assumes that the gencode* tables have been built on $db
export db=mm39
export GENCODE_VERSION=VM27
export PREV_GENCODE_VERSION=NOT_VALID
export dir=/hive/data/genomes/$db/bed/gencode$GENCODE_VERSION/build
export genomes=/hive/data/genomes
export tempDb=knownGeneVM27
export oldDb=mm10
export kent=$HOME/kent
export spDb=sp180404
export cpuFarm=ku
export oldGeneDir=/cluster/data/mm10/bed/ucsc.19.1
export oldGeneBed=/cluster/data/mm10/bed/ucsc.19.1/ucscGenes.bed
export lastVer=12
export curVer=13
export Db=Mm39
export xdb=hg38
export Xdb=Hg38
export ydb=canFam4
export zdb=rheMac8
export ratDb=rn6
export RatDb=Rn6
export fishDb=danRer11
export flyDb=dm6
export wormDb=ce11
export yeastDb=sacCer3
export tempFa=$dir/ucscGenes.faa
export genomes=/hive/data/genomes

export xdbFa=$genomes/$xdb/bed/gencodeV36/build/ucscGenes.faa
export ratFa=$genomes/$ratDb/bed/ensGene.95/ensembl.faa
#export ratFa=$genomes/$ratDb/bed/blastpRgdGene2/rgdGene2Pep.faa
export fishFa=$genomes/$fishDb/bed/ensGene.95/ensembl.faa
#export fishFa=$genomes/$fishDb/bed/blastp/ensembl.faa
export flyFa=$genomes/$flyDb/bed/ensGene.95/ensembl.faa
#export flyFa=$genomes/$flyDb/bed/hgNearBlastp/100806/$flyDb.flyBasePep.faa
export wormFa=$genomes/$wormDb/bed/ws245Genes/ws245Pep.faa
#export wormFa=$genomes/$wormDb/bed/blastp/wormPep190.faa
export yeastFa=$genomes/$yeastDb/bed/sgdAnnotations/blastTab/sacCer3.sgd.faa
export scratchDir=/hive/users/braney/scratch

export blastTab=mmBlastTab
export xBlastTab=hgBlastTab
export rnBlastTab=rnBlastTab
export dbHost=hgwdev
export ramFarm=ku
export cpuFarm=ku

export bioCycDir=/hive/data/outside/bioCyc/210803/mousecyc/23.0/data
