src/utils/qa/checkWigFiles.csh 1.3

Index: src/utils/qa/checkWigFiles.csh
===================================================================
RCS file: /projects/compbio/cvsroot/kent/src/utils/qa/checkWigFiles.csh,v
retrieving revision 1.2
retrieving revision 1.3
diff -b -B -U 1000000 -r1.2 -r1.3
--- src/utils/qa/checkWigFiles.csh	29 Apr 2009 17:23:56 -0000	1.2
+++ src/utils/qa/checkWigFiles.csh	25 Jun 2009 23:02:55 -0000	1.3
@@ -1,74 +1,74 @@
 #!/bin/tcsh
 source `which qaConfig.csh`
 
 ################################
 #
 # 04-23-2009
 # Ann Zweig
 #
 # This script is used to check wiggle files. It accepts a table name
 # that has a wiggle file associated with it. It makes sure that the wiggle 
 # file corresponds correctly with its table.
 #
 ################################
 
 set db=""
 set table=""
 set file=""
 set remove="F"
 
 # usage statement
 if ( $#argv < 3 || $#argv > 4 ) then
  echo
  echo " Ensures that a table correlates with its wig file."
  echo " Only prints results if there is a problem."
  echo
  echo "  usage:  database tableName fileName [rm]"
  echo "   fileName includes path of wig download file "
  echo "    (.txt and/or .gz files are OK)"
  echo
- echo "    e.g. /goldenPath/<db>/wig/fileName.wig"
+ echo "    e.g. /usr/local/apache/htdocs/goldenPath/<db>/wig/fileName.wig"
  echo
  echo "    add rm if you would like the output files to be removed."
  echo
  exit
 else
  set db=$argv[1]
  set table=$argv[2]
  set file=$argv[3]
  if ( "rm" == $argv[4] ) then
   set remove="T"
  else
   echo "\nERROR: fourth argument must be 'rm'\n"
   exit 1
  endif
 endif
 
 if ( "$HOST" != "hgwdev" ) then
  echo "\nERROR: this script must be run from hgwdev.\n"
  exit 1
 endif
 
 if ( ! -e $file ) then
  echo "\nERROR: sorry I can't find the original wig file here:"
- echo " /usr/local/apahce/htdocs$file\n"
+ echo " $file\n"
  exit 1
 endif
 
 # convert Wiggle ascii data file to binary format
 wigEncode $file test.$table.wig test.$table.wib
 
 # fetch wiggle data from table and perform stats
 hgWiggle -db=$db -doStats $table | grep -v '^#' > stats.$table.table
 
 # fetch wiggle data from file and perform stats
 hgWiggle -doStats test.$table.wig | grep -v '^#' > stats.$table.file
 
 # compare output files from two hgWiggle steps above
 diff -q stats.$table.file stats.$table.table
 
 if ( "F" != $remove ) then
  rm -f test.$table.wig test.$table.wib stats.$table.*
 endif
 
 exit 0