src/utils/qa/hgFindSpecGlobal.csh 5adcf6bc2904690de7b7b30a83ec8a7a0996abe9

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 "<HTML><HEAD><TITLE>hgFindSpec Diffs $today</TITLE></HEAD><BODY>\n<PRE> \
       \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, $2}'
     echo 
     echo '<A HREF ="'$summaryOut'">'$db'</A> 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 $outfile
     else
       echo '<A HREF ="'$summaryOut'">'$db'</A> number of diffs '  >> $summaryFile
     endif
     echo "    $diffs\n<P>" >> $summaryFile
   endif
 end
 
 echo "\n</PRE></BODY></HTML>" >> $summaryFile
 echo $summaryUrl
 exit 0