src/hg/makeDb/doc/panTro2.txt 1.16

Index: src/hg/makeDb/doc/panTro2.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/panTro2.txt,v
retrieving revision 1.15
retrieving revision 1.16
diff -b -B -U 4 -r1.15 -r1.16
--- src/hg/makeDb/doc/panTro2.txt	21 Jul 2009 21:01:45 -0000	1.15
+++ src/hg/makeDb/doc/panTro2.txt	21 Aug 2009 06:25:21 -0000	1.16
@@ -2658,8 +2658,33 @@
 
     # generate .gif of tree
     phyloGif
 
+----------------------------------------------------------------------------
+2009-08-20 markd with guidance from braney
+    ###
+    # mafs not correctly displayed due to incorrectly using  -sizes=sizes
+    # with mafAddIRows
+    ###
+
+    # annotate mafs
+    ssh kolossus
+    cd /cluster/data/panTro2/bed/multiz8way/anno
+    rm -f maf/*.maf run/*.maf
+    cd run
+    # edit jobs.csh to remove -sizes=sizes
+
+    csh jobs.csh >& jobs.log &
+
+>>>>>>>>>>>>>>>>>
+
+    # Load into database
+    ssh hgwdev
+    cd /cluster/data/panTro2/bed/multiz8way/anno/maf
+    mkdir -p /gbdb/panTro2/multiz8way/anno/maf
+    csh loadMaf.csh  >& loadMaf.log &
+
+
 #############################################################################
 # PHASTCONS CONSERVATION (2006-07-18 kate)
 
     # create cluster-friendly copies of chrom fasta files