f695b16331ac22d8925e99a05aecd7ce563e0a08 markd Mon Dec 21 21:29:40 2020 -0800 import gencodeV36 diff --git src/hg/makeDb/outside/gencode/gencodeLoad.mk src/hg/makeDb/outside/gencode/gencodeLoad.mk index 4bd127d..ab1e6c3 100644 --- src/hg/makeDb/outside/gencode/gencodeLoad.mk +++ src/hg/makeDb/outside/gencode/gencodeLoad.mk @@ -23,54 +23,54 @@ SHELL = bash -e export SHELLOPTS=pipefail ## # programs, etc ## mach = $(shell uname -m) ## # Release info and files from Sanger. # BEGIN EDIT THESE EACH RELEASE # # - ensemblPrevVersion is use to get chrom name mappings for pre-release, # as this doesn't change between release. ## +preRelease = no +#preRelease = yes db = hg38 #db = hg19 #db = mm10 -#preRelease = no -preRelease = yes ifeq (${db},mm10) grcRefAssembly = GRCm38 ver = M25 prevVer = M24 gencodeOrg = Gencode_mouse ftpReleaseSubdir = release_${ver} annGffTypeName = chr_patch_hapl_scaff.annotation ensemblVer = 100_38 ensemblPrevVer = 99_38 ensemblCDnaDb = mus_musculus_cdna_${ensemblPrevVer} else ifeq (${db},hg38) grcRefAssembly = GRCh38 - ver = 35 - prevVer = 34 + ver = 36 + prevVer = 35 gencodeOrg = Gencode_human ftpReleaseSubdir = release_${ver} annGffTypeName = chr_patch_hapl_scaff.annotation - ensemblVer = 101_38 - ensemblPrevVer = 100_38 + ensemblVer = 102_38 + ensemblPrevVer = 101_38 ensemblCDnaDb = homo_sapiens_cdna_${ensemblPrevVer} else ifeq (${db},hg19) grcRefAssembly = GRCh37 verBase = 35 ver = ${verBase}lift37 backmapTargetVer = 19 ftpReleaseSubdir = release_${verBase}/GRCh37_mapping prevVer = 34lift37 gencodeOrg = Gencode_human annGffTypeName = annotation ensemblVer = 74_37 # only used to get genome chromsome name mappings, don't change ensemblPrevVer = ${ensemblVer} # doesn't change ensemblCDnaDb = homo_sapiens_cdna_${ensemblPrevVer} isBackmap = yes else