| 1 | #!/bin/sh
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| 2 | #
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| 3 | # ========================================================================
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| 4 | #
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| 5 | # *
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| 6 | # * This file is part of MARS, the MAGIC Analysis and Reconstruction
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| 7 | # * Software. It is distributed to you in the hope that it can be a useful
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| 8 | # * and timesaving tool in analysing Data of imaging Cerenkov telescopes.
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| 9 | # * It is distributed WITHOUT ANY WARRANTY.
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| 10 | # *
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| 11 | # * Permission to use, copy, modify and distribute this software and its
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| 12 | # * documentation for any purpose is hereby granted without fee,
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| 13 | # * provided that the above copyright notice appear in all copies and
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| 14 | # * that both that copyright notice and this permission notice appear
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| 15 | # * in supporting documentation. It is provided "as is" without express
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| 16 | # * or implied warranty.
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| 17 | # *
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| 18 | #
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| 19 | #
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| 20 | # Author(s): Daniela Dorner 10/2006 <mailto:dorner@astro.uni-wuerzburg.de>
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| 21 | #
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| 22 | # Copyright: MAGIC Software Development, 2000-2007
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| 23 | #
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| 24 | #
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| 25 | # ========================================================================
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| 26 | #
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| 27 | #
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| 28 | #
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| 29 | ##############################################################################
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| 30 | #
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| 31 | # This script can be used to run the following steps for one sequence:
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| 32 | # - callisto
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| 33 | # - merppupdate
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| 34 | # - star
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| 35 | #
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| 36 | # You have to set the path, where your Mars version can be found, the outpath,
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| 37 | # where you want to store the output and the sequencenumber of the sequence
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| 38 | # you want to process
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| 39 | #
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| 40 | ##############################################################################
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| 41 |
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| 42 | #to be set by the user (if you don't use the command-line options)
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| 43 | #path of your output directory
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| 44 | outpath=""
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| 45 | #give either sequence number or sequence file (including path)
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| 46 | sequence=""
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| 47 | sequfile=""
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| 48 |
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| 49 | function usage()
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| 50 | {
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| 51 | echo "Usage: $0 [options]"
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| 52 | echo "options:"
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| 53 | echo -n " --sequ sequence# "
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| 54 | echo " giving number of sequence which shall be processed "
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| 55 | echo -n " --sequ-file sequfile "
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| 56 | echo " giving sequencfile (including path) of sequence which shall be processed "
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| 57 | echo -n " --out outpath "
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| 58 | echo " giving the path where all outputfiles are stored "
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| 59 | echo -n " -cal "
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| 60 | echo " running only calibration"
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| 61 | echo -n " --cal-rc "
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| 62 | echo " giving a differnt callisto rc file"
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| 63 | echo -n " --star-rc "
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| 64 | echo " giving a differnt star rc file"
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| 65 | echo -n " -b "
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| 66 | echo " running in non-interactive mode (i.e. you are not asked if the paths are ok)"
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| 67 | echo -n " -star "
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| 68 | echo " running only star"
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| 69 | echo ""
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| 70 | echo "Remarks: "
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| 71 | echo " - you can set the needed variables also in the script "
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| 72 | echo " - you have to set the outpath and either the sequence number or the sequence "
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| 73 | echo " file (if both is set, the sequence given by the sequencefile is processed)"
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| 74 | echo " - you have to execute the script from your mars directory"
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| 75 | echo " - in your outpath a calibration directory (callisto/sequencenumber), a "
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| 76 | echo " directory for the image fiels (star/sequencenumber) and a directory for "
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| 77 | echo " the merpplogs in the calibration directory are created. "
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| 78 | echo ""
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| 79 | exit
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| 80 | }
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| 81 |
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| 82 | function checkreturncode()
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| 83 | {
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| 84 | case $check in
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| 85 | 0) echo "$program finished sucessfully"
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| 86 | echo ""
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| 87 | ;;
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| 88 | [1-9]|[0-9][0-9]|1[0-1][0-9]|12[0-7])
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| 89 | echo -n "ERROR@$HOSTNAME: $program returned $check - please check the logfile $logfile"
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| 90 | if [ "$program" == "callisto" ]
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| 91 | then
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| 92 | echo -n " - for more details see http://www.astro.uni-wuerzburg.de/datacenter/instructions/intern/errorcoding.txt"
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| 93 | fi
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| 94 | echo " you executed the following command: "$command
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| 95 | exit
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| 96 | ;;
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| 97 | *) echo -n "ERROR@$HOSTNAME: $program returned $check - please check the logfile $logfile"
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| 98 | echo -n " $program returned a signal > 127 ($check)"
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| 99 | echo " you executed the following command: "$command
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| 100 | exit;;
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| 101 | esac
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| 102 | }
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| 103 |
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| 104 | subsystempath=/magic/subsystemdata
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| 105 |
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| 106 | interactive="yes"
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| 107 |
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| 108 | # get options from the command line
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| 109 | while [ "$1" ]
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| 110 | do
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| 111 | case $1 in
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| 112 | --sequ) shift
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| 113 | sequence=$1
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| 114 | ;;
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| 115 | --out) shift
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| 116 | outpath=$1
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| 117 | ;;
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| 118 | -b) interactive='no'
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| 119 | ;;
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| 120 | -cal) cal='yes'
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| 121 | ;;
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| 122 | -star) star='yes'
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| 123 | ;;
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| 124 | --sequ-file) shift
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| 125 | sequfile=$1
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| 126 | ;;
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| 127 | --star-rc) shift
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| 128 | starrc=$1
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| 129 | ;;
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| 130 | --cal-rc) shift
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| 131 | calrc=$1
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| 132 | ;;
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| 133 | -h) usage
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| 134 | ;;
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| 135 | *) echo "unknown option $1 "
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| 136 | usage
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| 137 | ;;
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| 138 | esac
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| 139 | shift
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| 140 | done
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| 141 |
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| 142 | if [ "$outpath" = "" ]
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| 143 | then
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| 144 | echo "WARNING outpath has not been set"
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| 145 | echo ""
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| 146 | usage
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| 147 | fi
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| 148 |
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| 149 | if [ "$sequence" = "" ] && [ "$sequfile" = "" ]
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| 150 | then
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| 151 | echo "WARNING neither sequ nor sequfile has been set"
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| 152 | echo ""
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| 153 | usage
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| 154 | fi
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| 155 |
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| 156 | echo ""
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| 157 | echo "You have set the variables to: "
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| 158 | echo " outpath: "$outpath
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| 159 |
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| 160 | # get sequence file and number
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| 161 | if [ "$sequfile" = "" ]
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| 162 | then
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| 163 | if ! n8=`printf %08d $sequence`
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| 164 | then
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| 165 | echo "your sequence number is not valid"
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| 166 | usage
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| 167 | exit
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| 168 | fi
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| 169 | no=`echo $n8 | cut -c 1-4`
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| 170 | sequfile="/magic/sequences/"$no"/sequence$n8.txt"
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| 171 | echo " sequence: "$sequence
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| 172 | echo " sequfile: "$sequfile
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| 173 | else
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| 174 | echo " sequfile: "$sequfile
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| 175 | # get sequence number from file (for path and log names)
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| 176 | array=( `grep "Sequence: " $sequfile` )
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| 177 | n8=`printf %08d ${array[1]}`
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| 178 | fi
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| 179 |
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| 180 | # define outpaths for callisto and star
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| 181 | calpath=$outpath"/callisto/$n8"
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| 182 | echo " path where calibration files are stored : "$calpath
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| 183 | if ! [ "$cal" = "yes" ] || [ "$star" = "yes" ]
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| 184 | then
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| 185 | starpath=$outpath"/star/$n8"
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| 186 | echo " path where star files are stored : "$starpath
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| 187 | fi
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| 188 |
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| 189 | # rcfiles
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| 190 | if ! [ "$calrc" = "" ]
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| 191 | then
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| 192 | echo "You chose a different callisto rc file: $calrc "
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| 193 | fi
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| 194 | if ! [ "$starrc" = "" ]
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| 195 | then
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| 196 | echo "You chose a different star rc file: $starrc "
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| 197 | fi
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| 198 |
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| 199 | # interactive mode
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| 200 | # user is asked if paths are correct
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| 201 | if [ "$interactive" = "yes" ]
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| 202 | then
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| 203 | echo ""
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| 204 | echo "paths ok? continue?"
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| 205 | echo "please insert y, if you want continue"
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| 206 | echo " n, if you want quit"
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| 207 |
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| 208 | answer=`head -n 1`
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| 209 | case $answer in
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| 210 | y) echo "continue processing sequence"
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| 211 | ;;
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| 212 | n) exit
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| 213 | ;;
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| 214 | *) echo "your answer is not clear -> exit"
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| 215 | exit
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| 216 | ;;
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| 217 | esac
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| 218 | fi
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| 219 |
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| 220 | # calibrate sequence
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| 221 | if ! [ "$star" = "yes" ] || [ "$cal" = "yes" ]
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| 222 | then
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| 223 | mkdir -pv $calpath
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| 224 |
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| 225 | program=callisto
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| 226 | echo "run $program..."
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| 227 | logfile=$calpath/$program$n8.log
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| 228 | command="./$program -b -q -f --log=$logfile --out=$calpath "
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| 229 | if ! [ "$calrc" = "" ]
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| 230 | then
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| 231 | command=$command" --config=$calrc "
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| 232 | fi
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| 233 | command=$command" $sequfile "
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| 234 | echo $command
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| 235 | $command
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| 236 | check=$?
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| 237 | checkreturncode
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| 238 |
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| 239 | calfiles=`find $calpath -name 20[0-2][0-9][01][0-9][0-3][0-9]_*_Y_*.root`
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| 240 |
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| 241 | echo "run merpp update for calibrated files..."
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| 242 | echo "calibrated data files: "$calfiles
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| 243 |
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| 244 | for calfile in ${calfiles[@]}
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| 245 | do
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| 246 | echo "calfile: "$calfile
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| 247 | outpath=`dirname $calfile`
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| 248 |
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| 249 | runno=`basename $calfile | cut -d_ -f2 | sed -e 's/^0//' | sed -e 's/^0//' | sed -e 's/^0//' `
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| 250 | echo "finding cc and cacofile for run $runno..."
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| 251 | date=`date --date \`basename $calfile | cut -d_ -f1\` +%Y/%m/%d`
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| 252 | ccpath=$subsystempath/cc/$date
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| 253 | cacopath=$subsystempath/caco/$date
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| 254 | ccfile=`find $ccpath -name 20[0-2][0-9][01][0-9][0-3][0-9]_*${runno}_[PDCS]_*_S.rep`
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| 255 | source=`echo $ccfile | cut -d_ -f4`
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| 256 | cacofile=`find $cacopath -name dc_20[0-2][0-9]_[01][0-9]_[0-3][0-9]_*${runno}_${source}.txt`
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| 257 | if [ "$cacofile" = "" ]
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| 258 | then
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| 259 | echo "no cacofile found for run "$runno
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| 260 | echo "finding cacofile..."
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| 261 | for (( i = 0; i <= 10; i++ ))
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| 262 | do
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| 263 | newrun=`echo $runno - $i | bc`
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| 264 | cacofile=`find $cacopath -name *$newrun*`
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| 265 | if [ "$cacofile" = "" ]
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| 266 | then
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| 267 | continue
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| 268 | else
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| 269 | break
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| 270 | fi
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| 271 | done
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| 272 | fi
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| 273 | if [ "$ccfile" = "" ]
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| 274 | then
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| 275 | echo "no ccfile found for run "$runno
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| 276 | exit
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| 277 | fi
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| 278 | if [ "$cacofile" = "" ]
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| 279 | then
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| 280 | echo "no cacofile found for run "$runno
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| 281 | exit
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| 282 | fi
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| 283 | echo "ccfile: "$ccfile
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| 284 | echo "cacofile: "$cacofile
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| 285 |
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| 286 | merpplogpath=$outpath"/merpplogs"
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| 287 | mkdir -pv $merpplogpath
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| 288 |
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| 289 | program=merppccupdate
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| 290 | logfile=$merpplogpath/$program$runno.log
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| 291 | command="./merpp -u --log=$logfile --runfile=$runno $ccfile $calfile "
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| 292 | echo $command
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| 293 | $command
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| 294 | check=$?
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| 295 | checkreturncode
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| 296 |
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| 297 | program=merppcacoupdate
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| 298 | logfile=$merpplogpath/$program$runno.log
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| 299 | command="./merpp -u --log=$logfile --auto-time $cacofile $calfile"
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| 300 | echo $command
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| 301 | $command
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| 302 | check=$?
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| 303 | checkreturncode
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| 304 |
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| 305 | done
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| 306 | echo "merppupdate is finished"
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| 307 | echo ""
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| 308 | fi
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| 309 |
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| 310 | # run star for sequence
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| 311 | if ! [ "$cal" = "yes" ] || [ "$star" = "yes" ]
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| 312 | then
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| 313 | mkdir -pv $starpath
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| 314 |
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| 315 | program=star
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| 316 | echo "run $program..."
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| 317 | logfile=$starpath/$program$n8.log
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| 318 | command="./$program -b -q -f --log=$logfile --out=$starpath "
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| 319 | if ls $calpath >/dev/null 2>&1
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| 320 | then
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| 321 | command=$command"--ind=$calpath "
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| 322 | fi
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| 323 | if ! [ "$starrc" = "" ]
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| 324 | then
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| 325 | command=$command" --config=$starrc "
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| 326 | fi
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| 327 | command=$command" $sequfile"
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| 328 | echo $command
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| 329 | $command
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| 330 | check=$?
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| 331 | checkreturncode
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| 332 | fi
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| 333 |
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