3fd63f8af085564134cae5e8c3be6b6cb7adaa14
markd
  Sun Jul 7 16:08:45 2019 -0700
import of GENCODE v31, v23lift37, and vM21

diff --git src/hg/makeDb/doc/hg38/gencode.txt src/hg/makeDb/doc/hg38/gencode.txt
index d174ebf..cb132b6 100644
--- src/hg/makeDb/doc/hg38/gencode.txt
+++ src/hg/makeDb/doc/hg38/gencode.txt
@@ -465,37 +465,37 @@
     # Edit human/hg38/wgEncodeGencodeSuper.html and update 'Release Notes'
     # to describe new release. [ONLY if it's going to be pushed]
 
     # edit human/hg38/trackDb.gencode.ra to add new .ra file include
     make DBS=hg38
 
     ## only if being pushed to RR:
     # edit all.joiner to add ~/tmp/gencodeV30.joiner
     # verify with:
     pushd /hive/data/genomes/hg38/bed/gencodeV30
     make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
 
     # commit all
 
 #########################################################################
-2019-05-17: import of UCSC GENCODE group processing of GENCODE V31 (markd)
-    # import of pre-release, it will be promoted if there are no changes in the final release.
+2019-07-03: import of UCSC GENCODE group processing of GENCODE V31 (markd)
+    # Replaced import of pre-release
     # edit hg/makeDb/outside/gencode/gencodeLoad.mk to set release and ensembl versions
 
     # download, build and load tables
-    mkdir -p /hive/data/genomes/hg38/bed/gencodeV31-pre
-    pushd /hive/data/genomes/hg38/bed/gencodeV31-pre
+    mkdir -p /hive/data/genomes/hg38/bed/gencodeV31a
+    pushd /hive/data/genomes/hg38/bed/gencodeV31
 
     (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/gencodeGenerateTrackDbs hg38 31 97 'June 2019'
 
     # Edit human/hg38/wgEncodeGencodeSuper.html and update 'Release Notes'
     # to describe new release. [ONLY if it's going to be pushed]
 
     # edit human/hg38/trackDb.gencode.ra to add new .ra file include
     make DBS=hg38