src/hg/makeDb/doc/hg17.txt 1.120

Index: src/hg/makeDb/doc/hg17.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/hg17.txt,v
retrieving revision 1.119
retrieving revision 1.120
diff -b -B -U 4 -r1.119 -r1.120
--- src/hg/makeDb/doc/hg17.txt	23 Feb 2009 23:41:35 -0000	1.119
+++ src/hg/makeDb/doc/hg17.txt	11 Mar 2009 18:31:05 -0000	1.120
@@ -24335,22 +24335,23 @@
 ############################################################################
 
 
 ############################################################################
-# DGV V6 (DATABASE OF GENOMIC VARIANTS) (DONE 2/23/09 angie)
+# DGV V7 (DATABASE OF GENOMIC VARIANTS) (DONE 3/11/09 angie)
+# DGV V6 thin regions dropped 2/23/09
 # DGV V6 with useless thin regions done 11/12/08
 # DGV V5 done 8/11/08
 # DGV V4 done 5/9/08
     ssh hgwdev
-    mkdir /cluster/data/hg17/bed/dgv.v6
-    cd /cluster/data/hg17/bed/dgv.v6
+    mkdir /hive/data/genomes/hg17/bed/dgv.v7
+    cd /hive/data/genomes/hg17/bed/dgv.v7
     wget --timestamping \
-      http://projects.tcag.ca/variation/downloads/variation.hg17.v6.nov.2008.txt
+      http://projects.tcag.ca/variation/downloads/variation.hg17.v7.mar.2009.txt
     wget --timestamping \
-      http://projects.tcag.ca/variation/downloads/indel.hg17.v6.nov.2008.txt
+      http://projects.tcag.ca/variation/downloads/indel.hg17.v7.mar.2009.txt
     # shuffle fields into bed8+ (input has one start coord==0, but min 
     # nonzero size of 99 not 100 implies most coords are 1-based):
-    foreach f (*.v6.*.txt)
+    foreach f (*.v7.*.txt)
       tail -n +2 $f \
       | perl -wpe 'chomp; \
         ($id, $landmark, $chr, $start, $end, $varType, \
          undef, undef, undef, $ref, $pmid, $method, \
@@ -24365,12 +24366,12 @@
                   $start, $end, $rgb, $landmark, $varType, \
                   $ref, $pmid, $method, $sample) . "\n";' \
           > $f:r.bed
     end
-    hgsql hg17 -e 'rename table dgv to dgvV5'
+    hgsql hg17 -e 'rename table dgv to dgvV6'
     hgLoadBed hg17 dgv *.bed \
       -onServer -sqlTable=$HOME/kent/src/hg/lib/dgv.sql -tab
-#Loaded 17479 elements of size 15
+#Loaded 17473 elements of size 15
 
 
 ############################################################################
 # KIDD/EICHLER DISCORDANT CLONE ENDS (DONE 6/10/08 angie)