06d7be056190c14b85e71bc12523f18ea6815b5e
markd
  Mon Dec 7 00:50:29 2020 -0800
BLAT mmap index support merge with master

diff --git src/hg/makeDb/doc/hg38/gencode.txt src/hg/makeDb/doc/hg38/gencode.txt
index 1c8ea0b..315a57f 100644
--- src/hg/makeDb/doc/hg38/gencode.txt
+++ src/hg/makeDb/doc/hg38/gencode.txt
@@ -695,15 +695,45 @@
 
     # edit human/hg38/trackDb.gencode.ra to add new .ra file include
     make DBS=hg38
 
     ## only if being pushed to RR (may be there from pre-release)
     # edit all.joiner to add ~/tmp/gencodeV35.joiner
     # verify with:
     pushd /hive/data/genomes/hg38/bed/gencodeV35Pre
     make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeLoad.mk joinerCheck
 
     # check tracks in browser sandbox
     # commit all
     make DBS=hg38 alpha
     # if pushing public: create ticket and MARK QA READY
 #########################################################################
+2020-11-30: import of UCSC GENCODE group GENCODE V36 pre-release  (markd)
+    
+    # edit hg/makeDb/outside/gencode/gencodeHgGeneLoad.mk to set release and ensembl versions
+
+    # download, build and load tables
+    mkdir -p /hive/data/genomes/hg38/bed/gencodeV36/importi
+    pushd /hive/data/genomes/hg38/bed/gencodeV36/import
+
+    (time nice make -j 10 -f ~/kent/src/hg/makeDb/outside/gencode/gencodeHgGeneLoad.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 hg38 36 102 'November 2020'
+
+    # edit human/hg38/trackDb.gencode.ra to add new .ra file include
+    make DBS=hg38
+
+    # edit all.joiner to add ~/tmp/gencodeV36.joiner
+    # verify with:
+    pushd /hive/data/genomes/hg38/bed/gencodeV36
+    make  -f ~/kent/src/hg/makeDb/outside/gencode/gencodeHgGeneLoad.mk joinerCheck
+
+    # check tracks in browser sandbox
+    # commit all
+    # SKIP FOR NOW, hgc needs to handle these for testing on hgwdev
+    # make DBS=hg38 alpha
+#########################################################################