7fb2f3f334694376f7bec47237552ddf8eb186dc
markd
  Wed Apr 26 10:13:42 2023 -0700
import of gencode VM33 prerelease

diff --git src/hg/makeDb/doc/mm39/gencode.txt src/hg/makeDb/doc/mm39/gencode.txt
index 18ab4f5..77f1fe4 100644
--- src/hg/makeDb/doc/mm39/gencode.txt
+++ src/hg/makeDb/doc/mm39/gencode.txt
@@ -293,32 +293,32 @@
     # mouse/mm39/wgEncodeGencodeSuper.html
 
     # edit mouse/mm39/trackDb.gencode.ra to add new .ra file include
     jkmake DBS=mm39
 
     ## only if being pushed to RR:
     # edit all.joiner to add ~/tmp/gencodeVM31/hgcImport.joiner
     # verify with:
     pushd /hive/data/genomes/mm39/bed/gencodeVM31/hgcImport
     make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
 
     # check tracks in browser sandbox
     # commit all
     jkmake DBS=mm39 alpha
 ##############################################################################
-2022-12-29: import of UCSC GENCODE group processing of GENCODE VM31 pre-release (markd)
-2023-02-13: import of UCSC GENCODE group processing of GENCODE VM31 final release (markd)
+2022-12-29: import of UCSC GENCODE group processing of GENCODE VM32 pre-release (markd)
+2023-02-13: import of UCSC GENCODE group processing of GENCODE VM32 final release (markd)
 
     pre-release moved to hgcImportPre, notes revised
     
 
     # edit hg/makeDb/outside/gencode/gencodeLoad.mk to set release and ensembl versions
     # download, build and load tables
     mkdir -p /hive/data/genomes/mm39/bed/gencodeVM32/hgcImport
     pushd /hive/data/genomes/mm39/bed/gencodeVM32/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
@@ -329,15 +329,49 @@
     jkmake DBS=mm39
 
     ## only if being pushed to RR:
     # Update 'Release Notes' in
     # mouse/mm39/wgEncodeGencodeSuper.html
 
     # edit all.joiner to add ~/tmp/gencodeVM32/hgcImport.joiner
     # verify with:
     pushd /hive/data/genomes/mm39/bed/gencodeVM32/hgcImport
     make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
 
     # check tracks in browser sandbox
     # commit all
     jkmake DBS=mm39 alpha
 ##############################################################################
+2023-04-25: import of UCSC GENCODE group processing of GENCODE VM33 pre-release (markd)
+
+    # edit hg/makeDb/outside/gencode/gencodeLoad.mk to set release and ensembl versions
+    pre="Pre"
+
+    # download, build and load tables
+    mkdir -p /hive/data/genomes/mm39/bed/gencodeVM33/hgcImport${pre}
+    pushd /hive/data/genomes/mm39/bed/gencodeVM33/hgcImport${pre}
+
+    (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 mm39 M33 110 'May 2023'
+
+    # edit mouse/mm39/trackDb.gencode.ra to add new .ra file include
+    jkmake DBS=mm39
+
+    ## only if being pushed to RR:
+    # Update 'Release Notes' in
+    # mouse/mm39/wgEncodeGencodeSuper.html
+
+    # edit all.joiner to add ~/tmp/gencodeVM33/hgcImport${pre}.joiner
+    # verify with:
+    pushd /hive/data/genomes/mm39/bed/gencodeVM33/hgcImport${pre}
+    make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
+
+    # check tracks in browser sandbox
+    # commit all
+    jkmake DBS=mm39 alpha
+##############################################################################