src/hg/makeDb/doc/hg18.txt 1.364
1.364 2009/06/02 23:49:01 markd
update nucleosome occupance track due to corrupted data on chr3
Index: src/hg/makeDb/doc/hg18.txt
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/hg/makeDb/doc/hg18.txt,v
retrieving revision 1.363
retrieving revision 1.364
diff -b -B -U 4 -r1.363 -r1.364
--- src/hg/makeDb/doc/hg18.txt 26 May 2009 22:13:50 -0000 1.363
+++ src/hg/makeDb/doc/hg18.txt 2 Jun 2009 23:49:01 -0000 1.364
@@ -23853,8 +23853,9 @@
# that I re-rooted
#######################################################
# UW nucleosome occupancy predictions (2008-08-13 markd)
+# update due to chr3 being truncated (2009-05-12 markd)
# contact William Stafford Noble <noble@gs.washington.edu>
# obtain data:
mkdir -p /cluster/data/hg18/bed/uwNucOcc
cd /cluster/data/hg18/bed/uwNucOcc
@@ -23890,8 +23891,29 @@
hgLoadWiggle -pathPrefix=/gbdb/hg18/wib hg18 uwNucOccMec uwNucOccMec.wig
rm wiggle.tab
+ # noble lab supplied update due to chr3 being truncated (2009-05-12 markd)
+ cd /cluster/data/hg18/bed/uwNucOcc
+ mkdir bad
+ mv wig/*/*.chr3.hg18.wig.gz bad/
+ mv wib bad/
+ wget http://USER:PASS@noble.gs.washington.edu/~wnoble/proj/dennis/results/2008-08-11/a375/a375.chr3.hg18.wig.gz
+ wget http://USER:PASS@noble.gs.washington.edu/~wnoble/proj/dennis/results/2008-08-11/mec/mec.chr3.hg18.wig.gz
+ wget http://USER:PASS@noble.gs.washington.edu/~wnoble/proj/dennis/results/2008-08-11/dennis/dennis.chr3.hg18.wig.gz
+ mv dennis.chr3.hg18.wig.gz wig/dennis/
+ mv mec.chr3.hg18.wig.gz wig/mec/
+ mv a375.chr3.hg18.wig.gz wig/a375/
+
+ cd /cluster/data/hg18/bed/uwNucOcc/wib
+ zcat ../wig/a375/a375.chr*.wig.gz|wigEncode stdin uwNucOccA375.wig uwNucOccA375.wib
+ zcat ../wig/dennis/dennis.chr*.wig.gz|wigEncode stdin uwNucOccDennis.wig uwNucOccDennis.wib
+ zcat ../wig/mec/mec.chr*.wig.gz|wigEncode stdin uwNucOccMec.wig uwNucOccMec.wib
+ cd ..
+ hgLoadWiggle -pathPrefix=/gbdb/hg18/wib hg18 uwNucOccA375 uwNucOccA375.wig
+ hgLoadWiggle -pathPrefix=/gbdb/hg18/wib hg18 uwNucOccDennis uwNucOccDennis.wig
+ hgLoadWiggle -pathPrefix=/gbdb/hg18/wib hg18 uwNucOccMec uwNucOccMec.wig
+
#########################################################################
# BLASTZ/CHAIN/NET oryLat2 (DONE - 2008-08-19,25 - Hiram)
ssh kkstore02
screen # use a screen to manage this longish running job