9e1d18bbaeabc8922c4aba1baa71102a436d1cc2
hiram
  Tue Apr 27 14:12:08 2021 -0700
hive cleaning running cleanup step for crispr tracks no redmine

diff --git src/hg/makeDb/doc/bosTau9/initialBuild.txt src/hg/makeDb/doc/bosTau9/initialBuild.txt
index 643ccdf..f19c169 100644
--- src/hg/makeDb/doc/bosTau9/initialBuild.txt
+++ src/hg/makeDb/doc/bosTau9/initialBuild.txt
@@ -939,40 +939,43 @@
         -bigClusterHub=ku -dbHost=hgwdev -workhorse=hgwdev \
          bosTau9 bosTau6) > do.log 2>&1 &
     # real    1236m43.784s
 
     # verify the convert link on the test browser is now active
     # from bosTau9 to bosTau6
 
 ##############################################################################
 # crispr 10K shoulders (DONE - 2018-11-16 - Hiram)
     mkdir  /hive/data/genomes/bosTau9/bed/crispr10K
     cd  /hive/data/genomes/bosTau9/bed/crispr10K
 
     time (~/kent/src/hg/utils/automation/doCrispr.pl \
    -stop=load -buildDir=`pwd` -smallClusterHub=hgwdev-101 bosTau9 ncbiRefSeq) \
 	> do.log 2>&1
-XXX - running - Fri Nov 16 08:34:10 PST 2018
-    # real    5896m44.643s
-
+    # real    1192m19.444s
+    # broke down, fixed, manually completed specScores
     time find tmp/outGuides -type f | xargs cut -f3-6 > ../specScores.tab
     # real    329m49.271s
+    # effScores: real      1410m36.918s
+    # offTargets: real     99m35.115s
+    # load: real   132m24.530s
 
-    # after is appears to be correct, cleanup:
-    time (~/kent/src/hg/utils/automation/doCrispr.pl -continue=cleanup \
-   -buildDir=`pwd` -smallClusterHub=hgwdev-101 cotJap2 ncbiRefSeq) \
-	> do.log 2>&1
+    # hive cleaning - 2021-04-26 - Hiram
+    time (~/kent/src/hg/utils/automation/doCrispr.pl \
+     -continue=cleanup -buildDir=`pwd` -smallClusterHub=hgwdev bosTau9 \
+          -fileServer=hgwdev -smallClusterHub=hgwdev -bigClusterHub=ku
+            -workhorse=hgwdev) > cleanup.log 2>&1 &
 
 ##############################################################################
 # GENBANK AUTO UPDATE (DONE - 2018-11-08 - Hiram)
     ssh hgwdev
     cd $HOME/kent/src/hg/makeDb/genbank
     git pull
     # /cluster/data/genbank/data/organism.lst shows:
     # #organism      mrnaCnt   estCnt  refSeqCnt
     # Bos taurus	20115	1583423	13363
 
     # edit etc/genbank.conf to add bosTau9 just after bosTau8
 # bosTau9 (cow - Bos taurus - refseq GCF_002263795.1 ARS-UCD1.2 - taxId 9913)
 bosTau9.serverGenome = /hive/data/genomes/bosTau9/bosTau9.2bit
 bosTau9.clusterGenome = /hive/data/genomes/bosTau9/bosTau9.2bit
 bosTau9.ooc = /hive/data/genomes/bosTau9/jkStuff/bosTau9.11.ooc