f3e62b71a2cc47befbcd5308b6e1989d4df60f34
markd
  Wed Feb 15 10:38:59 2023 -0800
import of GENCODE V43lift38

diff --git src/hg/makeDb/doc/hg19.gencode.txt src/hg/makeDb/doc/hg19.gencode.txt
index 2f746e6..62fcc72 100644
--- src/hg/makeDb/doc/hg19.gencode.txt
+++ src/hg/makeDb/doc/hg19.gencode.txt
@@ -1111,15 +1111,48 @@
 
     # Update human/hg19/wgEncodeGencodeSuper.html and update 'Release Notes'
     # to describe new release.
 
     jkmake DBS=hg19
 
     # edit  all.joiner to add ~/tmp/gencodeV42lift37.joiner
     # verify with:
     pushd /hive/data/genomes/hg19/bed/gencodeV42lift37/hgcImport
     make -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
 
     # commit all
     jkmake alpha DBS=hg19
 
 ##############################################################################
+2023-02-15: import of UCSC GENCODE group processing of GENCODE V43lift38 release (markd)
+    # edit hg/makeDb/outside/gencode/gencodeLoad.mk to set release and ensembl versions
+
+    # download, build and load tables
+    mkdir -p /hive/data/genomes/hg19/bed/gencodeV43lift37/hgcImport
+    pushd /hive/data/genomes/hg19/bed/gencodeV43lift37/hgcImport
+
+    (time nice make -j 10 -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk) >&build.1.out&
+
+
+
+    # compare tables from previous release to see if number changed makes
+    # sense.  Results are in gencode-cmp.tsv
+    # generate trackDb and joiner blurb
+    pushd ~/kent/src/hg/makeDb/trackDb
+    ../../makeDb/outside/gencode/bin/gencodeGenerateTrackDbs hg19 43lift37 109 'Feb 2023'
+
+    # edit human/hg19/trackDb.gencode.ra to add new .ra file include
+
+    # Update human/hg19/wgEncodeGencodeSuper.html and update 'Release Notes'
+    # to describe new release.
+
+    jkmake DBS=hg19
+
+    # edit  all.joiner to add ~/tmp/gencodeV43lift37.joiner
+    # verify with:
+    pushd /hive/data/genomes/hg19/bed/gencodeV43lift37/hgcImport
+    make -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
+
+    # commit all
+    jkmake alpha DBS=hg19
+
+##############################################################################