src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh 1.1
1.1 2009/09/25 00:34:31 angie
Adding refreshSessionCtFiles*csh which have been living in ~qateam/bin/scripts, and souped them up to use tmp file names based on hour, and to watch out for signs of multiple refresh jobs happening at once. makeExclusionList.pl now accepts doNotRmFile as an arg instead of hardcoding it.
Index: src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh
===================================================================
RCS file: src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh
diff -N src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh
--- /dev/null 1 Jan 1970 00:00:00 -0000
+++ src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh 25 Sep 2009 00:34:31 -0000 1.1
@@ -0,0 +1,58 @@
+#!/bin/csh -ef
+
+# DO NOT EDIT the /cluster/bin/scripts copy of this file --
+# edit ~/kent/src/hg/utils/refreshNamedSessionCustomTracks/refreshSessionCtFilesInner.csh instead.
+
+# $Id$
+
+setenv HGDB_CONF /cluster/home/qateam/.hg.conf.hgcentral
+
+set today = `date +%y-%m-%d`
+set hour = `date +%H`
+set thisHour = $today.$hour
+set logDir = /cluster/home/qateam/refrLog/hgcentral
+set tmpLog = $logDir/tmp.$hour.log
+set tmpOut = /trash/ctDoNotRmNext.$hour.txt
+set finalOut = /trash/ctDoNotRm.txt
+
+mkdir -p $logDir/$today
+
+if (-e $tmpLog || -e $tmpOut) then
+ echo "ERROR: $tmpLog and/or $tmpOut already exists! Is another instance running?"
+ echo " Or does the file simply need to be cleaned up since yesterday? Aborting."
+ exit 1
+endif
+
+set strayLogs = `find $logDir -maxdepth 1 -name tmp\*.log`
+if ($strayLogs != "") then
+ echo "WARNING: stray log files (is a previous instance still running?)"
+ echo $strayLogs
+endif
+
+set strayOut = `find $tmpOut:h -maxdepth 1 -name ctDoNoRmNext\*`
+if ($strayOut != "") then
+ echo "WARNING: stray temporary output files (is a previous instance still running?)"
+ echo $strayOut
+endif
+
+ps -eafl > $logDir/before.log
+/cluster/bin/x86_64/refreshNamedSessionCustomTracks hgcentral -verbose=4 \
+>& $tmpLog
+ps -eafl > $logDir/after.log
+/cluster/bin/scripts/makeExclusionList.pl $tmpOut $tmpLog \
+| fgrep -w expired \
+ > $logDir/$today/expired.$thisHour
+
+sleep 1
+
+if (-s $tmpOut) then
+ mv $tmpOut $finalOut
+else
+ echo $tmpOut does not exist or is empty -- not replacing $finalOut .
+ exit 1
+endif
+
+sort -u $finalOut | sed -e 's@^/export@@' \
+| xargs -n 1024 ls -lu > $logDir/$today/$thisHour
+
+# Don't clean up $tmpLog here -- caller may use it.