79 lines
2.3 KiB
Text
79 lines
2.3 KiB
Text
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#! /bin/csh -f
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# alfprocess
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# shell script to process a batch of alf data
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# from abiprocess
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#
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# It assumes that raw data is in ~/alf_e/'Results'$date
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# where date is in the form {yr}{month}{day}{letter}: eg: 910227a
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# for february 27, 1991, run "a"
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# thus in addition to the date, the run letter accounts for more than one
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# run a day:
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# 910227a for first run of day
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# 910227b for second run of day, etc.
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#
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# It then runs alfsplit on that file producing separate files
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# for each clone in the format {clonename}ALF (eg a02b9.s2ALF)
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# get the file names that alfsplit outputs
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# For clone names it is essential that a real clone name has no spaces
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# unnamed clones are ignored when the file names are gotten
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#
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# It then invokes ted on each one of these files
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# (ie. ted -ALF $oldname -output $newname -raw $newname"RES")
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# FoFfile is the file of filenames
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if ( $#argv < 1) then
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echo "Usage: alfprocess <date> (Example: alfprocess 910228a)"
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echo " alfprocess presumes that data are in ~/alf_e/Results<date>"
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echo " (eg. ~/alf_e/Results910228a)"
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echo
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exit
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endif
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if ( ! -d $HOME/alf_e/Results${1} ) then
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echo "Directory ~/alf_e/Results${1} doesn't exist"
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echo "Check if date is correct and that the directory been created"
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echo "Then run alfprocess again"
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exit
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endif
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if ( $#DISPLAY == 0 ) then
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echo "Must be running under X windows for alfprocess to run"
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exit
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endif
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##descriptiong
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echo "Running alfprocess: looking for directory ~/alf_e/Results${1}"
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echo "Will run alfsplit on ${1}.alf, process clones through ted, and then"
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echo "backup directory to tape. The accepted clones will be transferred"
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echo "to your project directory as well as the file of file names"
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cd $HOME/alf_e/"Results"${1}
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set FoFfile = ${1}fn
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set clones = `alfsplit ${1}.alf | awk '/^Clone/&& $4 ~ /-/ {print $3;}' `
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echo Clones: $clones
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if (-e $FoFfile) then
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echo "Warning, file of filenames already exists ($FoFfile)"
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echo "Press return to continue, Ctrl-c to exit"
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$<
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endif
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foreach clonename ( $clones )
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set alfsplitname = $clonename"ALF"
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echo -n "Processing clone: $clonename"
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ted -ALF $clonename"ALF" -output $clonename -raw $clonename"ALF"
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if ( ! -e $clonename ) then
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echo " failed"
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mv $clonename"ALF" $clonename"ALF.fld"
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else
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echo " accepted"
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echo $clonename >> $FoFfile
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endif
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end
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rsh cele /usr/local/bin/alfbackup.sh $cwd ${1}
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