src/hg/makeDb/doc/hg18.txt 1.385

Index: src/hg/makeDb/doc/hg18.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/hg18.txt,v
retrieving revision 1.384
retrieving revision 1.385
diff -b -B -U 4 -r1.384 -r1.385
--- src/hg/makeDb/doc/hg18.txt	28 Sep 2009 22:07:49 -0000	1.384
+++ src/hg/makeDb/doc/hg18.txt	13 Oct 2009 23:16:33 -0000	1.385
@@ -7443,9 +7443,9 @@
     hgPepPred hg18 generic blastKGPep04 hg18KG.fa
     #	end blat proteins
 
 ##########################################################################
-# BUILD NIBB IMAGE PROGES (DONE 2006-03-14 galt following Jim's hg17 example)
+# BUILD NIBB IMAGE PROBES (DONE 2006-03-14 galt following Jim's hg17 example)
 
 # Make directory on san for cluster job and copy in sequence
     ssh pk
     mkdir /san/sanvol1/scratch/hg18/nibbPics
@@ -27244,9 +27244,9 @@
     ln -s `pwd`/$gp.$mz.exonAA.fa.gz $pd/$gp.exonAA.fa.gz
     ln -s `pwd`/$gp.$mz.exonNuc.fa.gz $pd/$gp.exonNuc.fa.gz
 
 #########################################################################
-# BUILD OMIM RELATED GENES TRACK (complete rebuild, 2/24/09 Fan)
+# BUILD OMIM RELATED GENES TRACK (complete rebuild, 10/13/09 JK)
 
 ssh hgwdev
 cd /hive/data/genomes/gs.19/build36/bed
 mkdir omimGene
@@ -27263,9 +27263,9 @@
 cat x.sql |sed -e 's/PRIMARY KEY(numbering)/KEY(omimId)/' >omimGeneMap.sql
 hgLoadSqlTab -warn hg18 omimGeneMap omimGeneMap.sql genemap.tab
 
 # got warning on 3 records, just ignore them
-Warning: load of omimGeneMap did not go as planned: 11750 record(s), 0 row(s) skipped, 3 warning(s) loading genemap.tab
+# Warning: load of omimGeneMap did not go as planned: 12216 record(s), 0 row(s)
 
 rm x.c x.h
 cd ..
 cat omim/morbidmap|sed -e 's/|/\t/g' > mobidmap.tab
@@ -27330,15 +27330,8 @@
 # hgsql hg18 -e 'drop table fanO4'
 # rm j*.tmp
 # rm o1.tab o2.tab o3.tab o4.tab
 
-# update one omimGene record to reflect a correction UniProt is 
-# going to make on their MIM external link (per 12/15/08 emails from Bob and 
-# Livia (apache@vital-it.ch ) from ExPASy.
-
-    hgsql hg18 -e 'update omimGene set name="611016" where name="608636"'
-    hgsql hg18 -e 'update omimToKnownCanonical set omimId="611016" where omimId="608636"'
-
 #############################################################################
 # fox2ClipSeq from Gene Yeo (DONE - 2009-01-08 - Hiram)
     mkdir /hive/data/genomes/hg18/bed/fox2ClipSeq
     cd /hive/data/genomes/hg18/bed/fox2ClipSeq