src/hg/makeDb/doc/hg19.txt 1.71

Index: src/hg/makeDb/doc/hg19.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/hg19.txt,v
retrieving revision 1.70
retrieving revision 1.71
diff -b -B -U 4 -r1.70 -r1.71
--- src/hg/makeDb/doc/hg19.txt	5 Jan 2010 03:04:20 -0000	1.70
+++ src/hg/makeDb/doc/hg19.txt	15 Jan 2010 23:49:38 -0000	1.71
@@ -8288,4 +8288,25 @@
     # updated it and added a trackDb entry to the trackDb.ra there.
     # 2010-01-04. Moved exoniphy trackDb entry up to the human level
     # trackDb.ra since the entry is the same for hg16-19. Removed the entry in
     # trackDb.ra in each of those assembly directories.
+
+######################################################################## 
+# Vega gene update (DONE - 2010-01-15 - Hiram)
+    #	lookup version number at the Vega WEB site:
+    #	http://vega.sanger.ac.uk/index.html
+    #	and FTP site:
+    #	ftp://ftp.sanger.ac.uk/pub/vega/
+    cd /hive/data/genomes/hg19
+    #	step wise to verify operation
+    doEnsGeneUpdate.pl -vegaGene -ensVersion=36 -stop=download hg19.ensGene.ra
+    doEnsGeneUpdate.pl -vegaGene -ensVersion=36 \
+	-continue=process -stop=process hg19.ensGene.ra
+    doEnsGeneUpdate.pl -vegaGene -ensVersion=36 \
+	-continue=load -stop=load hg19.ensGene.ra
+    doEnsGeneUpdate.pl -vegaGene -ensVersion=36 \
+	-continue=cleanup hg19.ensGene.ra
+    featureBits hg19 vegaGene
+    # 64888909 bases of 2897316137 (2.240%) in intersection
+    featureBits hg19 vegaPseudoGene
+    # 6885145 bases of 2897316137 (0.238%) in intersection
+########################################################################