5adcf6bc2904690de7b7b30a83ec8a7a0996abe9
galt
Tue Aug 21 00:01:25 2018 -0700
changing cse subdomain to soe
diff --git src/utils/qa/hgFindSpecGlobal.csh src/utils/qa/hgFindSpecGlobal.csh
index dd30d8e..a246abe 100755
--- src/utils/qa/hgFindSpecGlobal.csh
+++ src/utils/qa/hgFindSpecGlobal.csh
@@ -1,96 +1,96 @@
#!/bin/tcsh
source `which qaConfig.csh`
#######################
#
# checks all databases on beta against an RR machine and compares hgFindSpecs.
#
#######################
set machine="hgw1"
set today=""
set diffs=0
set outfile=""
set summaryFile=""
set mode="fast"
if ( $#argv < 1 || $#argv > 2 ) then
echo
echo " checks all databases on RR and compares hgFindSpecs."
echo
echo " usage: RRmachine, "
echo " [mode] (realTime|fast)"
echo " - defaults to fast which uses mysql-genome instead of WGET"
echo
exit 1
else
set machine=$argv[1]
endif
if ( $#argv == 2 ) then
set mode="$argv[2]"
if ( $mode == "realTime" ) then
set mode = ""
else
if ( $mode != "fast" ) then
echo '\n mode not "realTime" or "fast"\n'
echo "${0}:"
$0
exit 1
endif
endif
endif
checkMachineName.csh $machine
if ( $status ) then
echo "${0}:"
$0
exit 1
endif
set dbs=`getAssemblies.csh hgFindSpec hgwbeta \
| egrep -v "checking|get all|found|^qa_|^zoo" | egrep "."`
# set file paths and URLs
set today=`date +%Y-%m-%d`
# set today="2005-01-23"
set dirPath="/usr/local/apache/htdocs-genecats/qa/test-results/hgFindSpec"
-set urlPath="http://genecats.cse.ucsc.edu/qa/test-results/hgFindSpec"
+set urlPath="http://genecats.soe.ucsc.edu/qa/test-results/hgFindSpec"
mkdir -p $dirPath/$today
set summaryFile=$dirPath/$today/$today.hgFindSpec.html
set summaryUrl=$urlPath/$today/$today.hgFindSpec.html
rm -f $summaryFile
echo "hgFindSpec Diffs $today\n \
\n" >! $summaryFile
echo "db diffs"
echo "-------------"
foreach db ( $dbs )
set todaysPath="$dirPath/$today"
set summaryOut="$db.$machine.hgFindSpec"
set outfile="$todaysPath/$summaryOut"
compareHgFindSpecAll.csh $db hgwbeta $machine $mode >& $outfile
if ( $status ) then
echo "$db err" | gawk '{printf "%7s %3s", $1, $2}'
echo
echo ''$db' error \n\n' \
>> $summaryFile
# echo "${db}: error detected from compareHgFindSpecAll.csh" >> $summaryFile
else
set diffs=`cat $outfile | egrep "Diff|The diff" | wc -l`
echo "$db $diffs" | gawk '{printf "%7s %2d", $1, $2}'
echo
if ( $diffs == 0 ) then
echo "$db number of diffs:" >> $summaryFile
# rm -f $outfile
else
echo ''$db' number of diffs ' >> $summaryFile
endif
echo " $diffs\n" >> $summaryFile
endif
end
echo "\n
" >> $summaryFile
echo $summaryUrl
exit 0