349052c6b39b964a7756528532affcfdda8b7281
markd
  Thu Oct 17 23:18:19 2024 -0700
import of GENCODE V47lift38

diff --git src/hg/makeDb/doc/hg19.gencode.txt src/hg/makeDb/doc/hg19.gencode.txt
index 838c5b1..cfa5790 100644
--- src/hg/makeDb/doc/hg19.gencode.txt
+++ src/hg/makeDb/doc/hg19.gencode.txt
@@ -1314,50 +1314,50 @@
 
       These two complaint are cause by the new PAR id scheme causing a chrY
       V19 copy to be brought in are now fixed by filter and input time.
 
     # commit all
     jkmake alpha DBS=hg19
 
 2024-05-15 - EBI got a fixed version of gencode.v46lift37.metadata.HGNC.gz,
 which will also have all symbols mapped to HGNC ids.
 
 download 
   https://ftp.ebi.ac.uk/pub/databases/gencode/Gencode_human/release_46/GRCh37_mapping/gencode.v46lift37.metadata.HGNC.gz
 to data/release_46lift37/ and rerun the make
 ##############################################################################
 2024-07-31: import of UCSC GENCODE group processing of GENCODE V47lift38 pre-release for GENCODE Versions (markd)
-
+2024-10-17: final release of V47lift38
    # edit hg/makeDb/outside/gencode/gencodeLoad.mk to set release type and versions
 
    # pre-release shell variables 
        ver=47lift37
        ensver=113
        pre="Pre"
        ensdate='Sept 2024 pre-release' 
    # release shell variables 
        ver=47lift37
        ensver=113
        pre=""
-       ensdate='Sept 2024' 
+       ensdate='Oct 2024' 
     
 
     # 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/gencodeV${ver}/hgcImport${pre}
-    pushd /hive/data/genomes/hg19/bed/gencodeV${ver}/hgcImport${pre}p
+    pushd /hive/data/genomes/hg19/bed/gencodeV${ver}/hgcImport${pre}
 
     (time nice make -O -j 32 -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
     ../outside/gencode/bin/gencodeGenerateTrackDbs hg19 ${ver} ${ensver} "${ensdate}"
 
     # edit human/hg19/trackDb.gencode.ra to add new .ra file include
     # edit all.joiner to add ~/tmp/gencodeV${ver}.joiner
 
     # if final release, Update 'Release Notes' 
     #  human/hg19/wgEncodeGencodeSuper.html