Completely changed parts of the mlog2db, added new features, fixed some weaknesses - and probably added new ones.
This commit is contained in:
Bastian M. Wojek
parent
f3e700b03f
commit
7cdaa0143e
767
src/external/scripts/mlog2db
vendored
767
src/external/scripts/mlog2db
vendored
@ -1,33 +1,50 @@
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#!/bin/bash
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#!/bin/bash
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if [ ! -e /usr/bin/awk ]; then
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if [ ! -e /usr/bin/awk ]; then
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echo Please make sure you have installed awk!
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echo Please make sure you have installed awk!
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exit 1
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exit 1
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fi
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fi
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if [ $# -lt 3 ] ; then
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if [ $# -lt 2 ] ; then
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cat <<EOFHELP
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cat <<EOFHELP
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"musrfit-mlog to db converter"
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"musrfit-mlog to db converter"
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USAGE: mlog2db FIRSTRUN# LASTRUN# BLABLA [noheader | fit-TEMPLATERUN# | -oDB_OUTPUT_FILE | -k]
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USAGE: mlog2db FIRSTRUN# LASTRUN# EXTENSION [noheader | nosummary | fit-TEMPLATERUN# | -oDB_OUTPUT_FILE | -k]
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OR
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OR
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mlog2db \[LIST OF RUNS\] BLABLA [noheader | fit-TEMPLATERUN# | -oDB_OUTPUT_FILE | -k]
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mlog2db \[SPACE SEPARATED LIST OF RUNS\] EXTENSION [noheader | nosummary | fit-TEMPLATERUN# | -oDB_OUTPUT_FILE | -k]
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OR
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mlog2db RUNLISTFILE EXTENSION [noheader | nosummary | fit-TEMPLATERUN# | -oDB_OUTPUT_FILE | -k]
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This small script converts subsequent musrfit output files (mlog) into one db file using bash/awk.
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This small script converts subsequent musrfit output files (mlog) into one db file using bash/awk.
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Example 1:
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Example 1:
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mlog2db 1423 1424 _ZF-LF-TF-supermeasurement
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mlog2db 1423 1425 _tf_h13
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generates the db-file "out.db" (or whatever filename you specified with the -o option) from 1423_ZF-LF-TF-supermeasurement.mlog and 1424_ZF-LF-TF-supermeasurement.mlog .
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generates the db-file "out.db" (or whatever filename you additionally specify with the -o option) from 1423_tf_h13.mlog, 1424_tf_h13.mlog, and 1425_tf_h13.mlog .
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Example 2:
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Example 2:
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mlog2db [1423 1425] _ZF-LF-TF-supermeasurement
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mlog2db [1487 1435] _tf_h13
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generates the db-file "out.db" (or whatever filename you specified with the -o option) from 1423_ZF-LF-TF-supermeasurement.mlog and 1425_ZF-LF-TF-supermeasurement.mlog .
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generates the db-file "out.db" (or whatever filename you additionally specify with the -o option) from 1487_tf_h13.mlog and 1435_tf_h13.mlog .
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The output files in both examples above also include the db header.
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Example 3:
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mlog2db runs.txt _tf_h13
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generates the db-file "out.db" (or whatever filename you additionally specify with the -o option) from all runs listed in the ASCII-file
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"runs.txt" in the working directory. In the file it's also possible to include external parameters which should be put in the resulting db-file.
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The structure of the "runs.txt" is the following:
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RUN VAR1 VAR2 VAR3 ...
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2716 200 27.1 46.2 ...
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2787 205 27.1 46.3 ...
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2260 210 27.2 45.9 ...
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...
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The first line specifies the db-parameter names and labels and has to be present!
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The output files in all examples above also include the db header.
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In the case you are dealing with LEM-data AND have locally mounted the /mnt/data/nemu directory some available parameters like the
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In the case you are dealing with LEM-data AND have locally mounted the /mnt/data/nemu directory some available parameters like the
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temperature or transport settings will be taken from the summary files and added to the db-file.
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temperature or transport settings will be taken from the summary files and added to the db-file.
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You can suppress the reading of the summary files with the option "nosummary".
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If you want to generate a file without the header information just run the script with the option "noheader".
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If you want to generate a file without the header information just run the script with the option "noheader".
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@ -35,7 +52,7 @@ If you additionally want to fit some data using musrfit specify the option "fit-
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In this case either a mlog-outputfile or a msr-inputfile have to be present for the specified template run.
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In this case either a mlog-outputfile or a msr-inputfile have to be present for the specified template run.
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The subsequent inputfiles will be created.
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The subsequent inputfiles will be created.
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Example 3:
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Example 4:
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mlog2db 200 220 _tf_h13 -oABC.db fit-199
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mlog2db 200 220 _tf_h13 -oABC.db fit-199
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This will fit the runs 200 to 220 using musrfit. The file 199_tf_h13.mlog (or if that is not available: 199_tf_h13.msr) is used as
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This will fit the runs 200 to 220 using musrfit. The file 199_tf_h13.mlog (or if that is not available: 199_tf_h13.msr) is used as
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@ -43,358 +60,450 @@ template for the first musrfit input file. The results of the fits will be writt
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For keeping the MINUIT2 output files after calling musrfit, i.e. invoke musrfit with the option "--keep-mn2-output" just pass the option "-k" to mlog2db. If you pass this option to mlog2db but do not fit any data, the option will just be ignored.
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For keeping the MINUIT2 output files after calling musrfit, i.e. invoke musrfit with the option "--keep-mn2-output" just pass the option "-k" to mlog2db. If you pass this option to mlog2db but do not fit any data, the option will just be ignored.
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If your .mlog files do not have an extension as specified above like "200.mlog" you have to call the script as in the following example.
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Example 5:
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mlog2db 200 220 "" -oABC.db fit-199
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CAUTION:
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CAUTION:
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The "indexing number" of the .mlog has to be at the begin of the filename.
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The "indexing number" of the .mlog has to be at the begin of the filename.
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Furthermore the data files that were fitted have to have the name "XXX_RUN#[_YYY]", where XXX,YYY are strings without whitespaces ("/" is OK).
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Furthermore the data files that were fitted have to have the name "XXX_RUN#[_YYY]", where XXX,YYY are strings without whitespaces ("/" is OK).
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If you want to use the fitting feature, musrfit has to be installed either on the PATH or in the working directory.
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If you want to use the fitting feature, musrfit has to be installed either on the PATH or in the working directory.
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Those of you who do not like scripting without functions better do not look at the code. Still it is more or less straight forward.
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EOFHELP
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EOFHELP
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else
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else
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export PATH=./:$PATH
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export PATH=./:$PATH
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SUMMDIR="/mnt/data/nemu/summ"
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SUMMDIR="/mnt/data/nemu/summ"
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# In case a list of runs is given by [...]
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# In case a list of runs is given by [...]
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if [ "${1:0:1}" == "[" ]; then
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if [ "${1:0:1}" == "[" ]; then
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RUNARRAY=($@)
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RUNARRAY=($@)
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if [ "$1" == "[" ]; then
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RUNARRAY[0]=""
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else
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RUNARRAY[0]=${RUNARRAY[0]#"["}
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fi
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tLen=${#RUNARRAY[@]}
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for (( i=0; i<${tLen}; i++ ));
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do
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if [ "$1" == "[" ]; then
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if [ "$1" == "[" ]; then
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RUNARRAY[$i]=${RUNARRAY[ (( i + 1 )) ]}
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RUNARRAY[0]=""
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else
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RUNARRAY[0]=${RUNARRAY[0]#"["}
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fi
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fi
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if [ "${RUNARRAY[$i]:(-1)}" == "]" ]; then
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tLen=${#RUNARRAY[@]}
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if [ "${RUNARRAY[$i]}" == "]" ]; then
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for (( i=0; i<${tLen}; i++ ))
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RUNARRAY[$i]=""
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do
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LASTRUN=$(( i - 1 ))
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if [ "$1" == "[" ]; then
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EMPTYENTRY=1
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RUNARRAY[$i]=${RUNARRAY[ (( i + 1 )) ]}
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else
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fi
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RUNARRAY[$i]=${RUNARRAY[$i]%"]"}
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if [ "${RUNARRAY[$i]:(-1)}" == "]" ]; then
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LASTRUN=$i
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if [ "${RUNARRAY[$i]}" == "]" ]; then
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EMPTYENTRY=0
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RUNARRAY[$i]=""
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LASTRUN=$(( i - 1 )) # RUNARRAY-index of the last run
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else
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RUNARRAY[$i]=${RUNARRAY[$i]%"]"}
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LASTRUN=$i # RUNARRAY-index of the last run
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fi
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fi
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done
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# search for the parameter including the "]"
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for (( i=0; i<="$#"; i++ ))
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do
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RIGHTBRACKET=$( eval echo \$$i )
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if [ "${RIGHTBRACKET:(-1)}" == "]" ]; then
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RIGHTBRACKET=$i
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break
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fi
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done
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EXTENSION=$( eval echo \$$((RIGHTBRACKET + 1)) )
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OPT_PAR_ONE=$( eval echo \$$((RIGHTBRACKET + 2)) )
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OPT_PAR_TWO=$( eval echo \$$((RIGHTBRACKET + 3)) )
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OPT_PAR_THREE=$( eval echo \$$((RIGHTBRACKET + 4)) )
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OPT_PAR_FOUR=$( eval echo \$$((RIGHTBRACKET + 5)) )
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OPT_PAR_FIVE=$( eval echo \$$((RIGHTBRACKET + 6)) )
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RUNLIST_USED=0
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NUM_OF_IND_VAR=1 # 1 for the run number
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else
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ISDIGIT=$( echo $1 | awk '{ if (( $1 + 0 ) == $1 ) {print 1} else {print 0}}' ) # check if the first parameter is a number or not
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if [ "$ISDIGIT" -eq 1 ]; then # start and end-runs are given
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for (( j=0; j<=$2-$1; j++ ));
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do
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RUNARRAY[$j]=$(( $1 + $j ))
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done
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LASTRUN=$(( $2 - $1 )) # RUNARRAY-index of the last run
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EXTENSION=$3
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OPT_PAR_ONE=$4
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OPT_PAR_TWO=$5
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OPT_PAR_THREE=$6
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OPT_PAR_FOUR=$7
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OPT_PAR_FIVE=$8
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RUNLIST_USED=0
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NUM_OF_IND_VAR=1 # 1 for the run number
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else # assume a runlist-file with "independent variables" is given
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if [ ! -e $1 ]; then
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echo
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echo "The specified runlist file" $1 "is not present... Bye bye!"
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echo
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exit 1
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fi
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numberOfReadInLines=0
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exec 3< $1 # open file for reading in the runlist-file the first time and get the runnumbers to be processed
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while read -u 3 -a runList
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do
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if [ "$numberOfReadInLines" == "0" ]; then
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NUM_OF_IND_VAR=${#runList[@]}
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else
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RUNARRAY[(( numberOfReadInLines - 1 ))]=${runList[0]}
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fi
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((numberOfReadInLines++))
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done
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exec 3<&- # close file
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LASTRUN=$(( ${#RUNARRAY[@]} - 1 )) # RUNARRAY-index of the last run
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EXTENSION=$2
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OPT_PAR_ONE=$3
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OPT_PAR_TWO=$4
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OPT_PAR_THREE=$5
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OPT_PAR_FOUR=$6
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OPT_PAR_FIVE=$7
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RUNLIST_USED=1
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fi
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fi
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# Check if fitting should be done
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if [ "${OPT_PAR_ONE:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_ONE:4}
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elif [ "${OPT_PAR_TWO:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_TWO:4}
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elif [ "${OPT_PAR_THREE:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_THREE:4}
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elif [ "${OPT_PAR_FOUR:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_FOUR:4}
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elif [ "${OPT_PAR_FIVE:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_FIVE:4}
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fi
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if [ "$TEMP" != "" ]; then # runs should be fitted using musrfit
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# Check for musrfit on the PATH and if found continue with searching the fit-template
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PATHTOMUSRFIT=$(echo `which musrfit`)
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if [ "$PATHTOMUSRFIT" == "" ]; then
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echo
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echo "No musrfit executable was found on the PATH or in the current directory!"
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echo "Please install musrfit first!"
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echo
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exit 1
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else
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if [ -e $TEMP$EXTENSION.mlog ]; then
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TEMPLATE=$TEMP$EXTENSION.mlog
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elif [ -e $TEMP$3.msr ]; then
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TEMPLATE=$TEMP$EXTENSION.msr
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fi
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fi
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fi
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fi
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# echo ${RUNARRAY[$i]}
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fi
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done
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EXTENSION=${RUNARRAY[ (( LASTRUN + EMPTYENTRY + 1 )) ]}
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for (( q=0; q<=LASTRUN; q++ )) # loop over all RUNARRAY entries - the actual data-processing
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OPT_PAR_ONE=${RUNARRAY[ (( LASTRUN + EMPTYENTRY + 2 )) ]}
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OPT_PAR_TWO=${RUNARRAY[ (( LASTRUN + EMPTYENTRY + 3 )) ]}
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OPT_PAR_THREE=${RUNARRAY[ (( LASTRUN + EMPTYENTRY + 4 )) ]}
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OPT_PAR_FOUR=${RUNARRAY[ (( LASTRUN + EMPTYENTRY + 5 )) ]}
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else # start and end-runs are given
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for (( j=0; j<=$2-$1; j++ ));
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do
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do
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RUNARRAY[$j]=$(( $1 + $j ))
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COUNT=${RUNARRAY[$q]}
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# echo ${RUNARRAY[$j]}
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NEXTCOUNT=${RUNARRAY[ (( q + 1 )) ]}
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done
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NEXTINPUT=$NEXTCOUNT$EXTENSION.msr
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LASTRUN=$(( $2 - $1 ))
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FIRSTINPUT=${RUNARRAY[0]}$EXTENSION.msr
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EXTENSION=$3
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OPT_PAR_ONE=$4
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OPT_PAR_TWO=$5
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OPT_PAR_THREE=$6
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OPT_PAR_FOUR=$7
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fi
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# Check if fitting should be done
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if [ "$TEMP" != "" ]; then # if fitting should be done
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if [ "${OPT_PAR_ONE:0:3}" == "fit" ]; then
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if [ "$TEMPLATE" == "" ]; then
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TEMP=${OPT_PAR_ONE:4}
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echo
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else if [ "${OPT_PAR_TWO:0:3}" == "fit" ]; then
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echo "The specified musrfit template files "$TEMP$3".mlog and $TEMP$3.msr do not exist!"
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TEMP=${OPT_PAR_TWO:4}
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echo
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else if [ "${OPT_PAR_THREE:0:3}" == "fit" ]; then
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exit 1
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TEMP=${OPT_PAR_THREE:4}
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fi
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else if [ "${OPT_PAR_FOUR:0:3}" == "fit" ]; then
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TEMP=${OPT_PAR_FOUR:4}
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fi
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fi
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fi
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fi
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if [ "$TEMP" != "" ]; then
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# if it's the first run to be fitted, take the template and substitute the runnumber to match the first run
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if [ "$COUNT" == "${RUNARRAY[0]}" ]; then
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awk -v count=$TEMP -v nextcount=${RUNARRAY[0]} -v nextinput=$FIRSTINPUT '{
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if(NR==1) print nextcount > nextinput
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else if($1 == "RUN") {
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if (substr(count,1,1) != "_"){ count = sprintf("_%04u", count); nextcount = sprintf("_%04u", nextcount);}
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sub(count, nextcount, $0);
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print $0 >> nextinput
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}
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else print $0 >> nextinput
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}' $TEMPLATE
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fi
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# Check for musrfit on the PATH and if found continue with searching the fit-template
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if [ "${OPT_PAR_ONE}" == "-k" ] || [ "${OPT_PAR_TWO}" == "-k" ] || [ "${OPT_PAR_THREE}" == "-k" ] || [ "${OPT_PAR_FOUR}" == "-k" ] \
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|| [ "${OPT_PAR_FIVE}" == "-k" ]; then
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MUSRFITPARAM="-k"
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fi
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PATHTOMUSRFIT=$(echo `which musrfit`)
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musrfit $COUNT$EXTENSION.msr $MUSRFITPARAM # the fit
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if [ "$PATHTOMUSRFIT" == "" ]; then
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echo
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echo No musrfit executable was found on the PATH or in the current directory!
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echo Please install musrfit first!
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echo
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exit 1
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else
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if [ -e $TEMP$EXTENSION.mlog ]; then
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if [ "$COUNT" != "${RUNARRAY[$LASTRUN]}" ]; then # create the next musrfit input file if not the last specified run was fitted already
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TEMPLATE=$TEMP$EXTENSION.mlog
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awk -v count=$COUNT -v nextcount=$NEXTCOUNT -v nextinput=$NEXTINPUT '{
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else if [ -e $TEMP$3.msr ]; then
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if(NR==1) print nextcount > nextinput
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TEMPLATE=$TEMP$EXTENSION.msr
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else if($1 == "RUN") {
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fi
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if (substr(count,1,1) != "_"){ count = sprintf("_%04u", count); nextcount = sprintf("_%04u", nextcount);}
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fi
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sub(count, nextcount, $0);
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fi
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print $0 >> nextinput
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fi
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}
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else print $0 >> nextinput
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}' $COUNT$EXTENSION.mlog
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fi
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fi
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for (( q=0; q<=${LASTRUN}; q++ ));
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if [ ! -e $COUNT$EXTENSION.mlog ]; then
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do
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echo
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||||||
COUNT=${RUNARRAY[$q]}
|
echo "The specified musrfit output file "$COUNT$EXTENSION".mlog does not exist!"
|
||||||
NEXTCOUNT=${RUNARRAY[ (( q + 1 )) ]}
|
echo
|
||||||
NEXTINPUT=$NEXTCOUNT$EXTENSION.msr
|
exit 1
|
||||||
FIRSTINPUT=${RUNARRAY[0]}$EXTENSION.msr
|
fi
|
||||||
|
|
||||||
#echo COUNT: $COUNT, NEXTCOUNT: $NEXTCOUNT, NEXTINPUT: $NEXTINPUT, FIRSTINPUT: $FIRSTINPUT
|
# if the "nosummary"-option is not set and the summary files are present, get some information from there
|
||||||
|
if [ "${OPT_PAR_ONE}" != "nosummary" ] && [ "${OPT_PAR_TWO}" != "nosummary" ] && [ "${OPT_PAR_THREE}" != "nosummary" ] \
|
||||||
|
&& [ "${OPT_PAR_FOUR}" != "nosummary" ] && [ "${OPT_PAR_FIVE}" != "nosummary" ]; then
|
||||||
|
|
||||||
if [ "$TEMP" != "" ]; then
|
if [ -d $SUMMDIR ]; then
|
||||||
|
# extract runnumber from mlog-file
|
||||||
if [ "$TEMPLATE" == "" ]; then
|
RUNNUMBER=$( awk '{
|
||||||
echo The specified musrfit template files $TEMP$3.mlog and $TEMP$3.msr do not exist!
|
if(NR==1) X=0
|
||||||
exit 1
|
if($1 ~ /^RUN/ && X==0) {
|
||||||
fi
|
split($2, runNumber, "_")
|
||||||
|
if(runNumber[1] ~ /lem/ && runNumber[2] != "his") {print runNumber[2] }
|
||||||
if [ "$COUNT" == "${RUNARRAY[0]}" ]; then
|
if(runNumber[1] ~ /lem/ && runNumber[2] == "his") {print substr(runNumber[3],1,4) }
|
||||||
awk -v count=$TEMP -v nextcount=${RUNARRAY[0]} -v nextinput=$FIRSTINPUT '{
|
X=1
|
||||||
if(NR==1) print nextcount > nextinput
|
}
|
||||||
else if($1 == "RUN") {
|
|
||||||
if (substr(count,1,1) != "_"){ count = sprintf("_%04u", count); nextcount = sprintf("_%04u", nextcount);}
|
|
||||||
sub(count, nextcount, $0);
|
|
||||||
print $0 >> nextinput
|
|
||||||
}
|
|
||||||
else print $0 >> nextinput
|
|
||||||
}' $TEMPLATE
|
|
||||||
fi
|
|
||||||
|
|
||||||
if [ "${OPT_PAR_ONE}" == "-k" ] || [ "${OPT_PAR_TWO}" == "-k" ] || [ "${OPT_PAR_THREE}" == "-k" ] || [ "${OPT_PAR_FOUR}" == "-k" ]; then
|
|
||||||
MUSRFITPARAM="-k"
|
|
||||||
fi
|
|
||||||
|
|
||||||
musrfit $COUNT$EXTENSION.msr $MUSRFITPARAM
|
|
||||||
|
|
||||||
if [ "$COUNT" != "${RUNARRAY[$LASTRUN]}" ]; then
|
|
||||||
awk -v count=$COUNT -v nextcount=$NEXTCOUNT -v nextinput=$NEXTINPUT '{
|
|
||||||
if(NR==1) print nextcount > nextinput
|
|
||||||
else if($1 == "RUN") {
|
|
||||||
if (substr(count,1,1) != "_"){ count = sprintf("_%04u", count); nextcount = sprintf("_%04u", nextcount);}
|
|
||||||
sub(count, nextcount, $0);
|
|
||||||
print $0 >> nextinput
|
|
||||||
}
|
|
||||||
else print $0 >> nextinput
|
|
||||||
}' $COUNT$EXTENSION.mlog
|
|
||||||
fi
|
|
||||||
fi
|
|
||||||
|
|
||||||
if [ ! -e $COUNT$EXTENSION.mlog ]; then
|
|
||||||
echo The specified musrfit output file $COUNT$EXTENSION.mlog does not exist!
|
|
||||||
exit 1
|
|
||||||
fi
|
|
||||||
|
|
||||||
if [ -d $SUMMDIR ]; then
|
|
||||||
RUNNUMBER=$( awk '{
|
|
||||||
if(NR==1) X=0
|
|
||||||
if($1 ~ /^RUN/ && X==0) {
|
|
||||||
split($2, runNumber, "_")
|
|
||||||
if(runNumber[1] ~ /lem/ && runNumber[2] != "his") {print runNumber[2] }
|
|
||||||
if(runNumber[1] ~ /lem/ && runNumber[2] == "his") {print substr(runNumber[3],1,4) }
|
|
||||||
X=1
|
|
||||||
}
|
|
||||||
}' $COUNT$EXTENSION.mlog )
|
|
||||||
|
|
||||||
RUNYEAR=$( awk '{
|
|
||||||
if(NR==1) X=0
|
|
||||||
if($1 ~ /^RUN/ && X==0) {
|
|
||||||
split($2, runNumber, "_")
|
|
||||||
if(runNumber[1] ~ /lem/) {print substr(runNumber[1],length(runNumber[1])-1)}
|
|
||||||
else print "XX"
|
|
||||||
X=1
|
|
||||||
}
|
|
||||||
}' $COUNT$EXTENSION.mlog )
|
}' $COUNT$EXTENSION.mlog )
|
||||||
|
|
||||||
if [ "$RUNYEAR" != "XX" ]; then
|
# extract runyear from mlog-file in case of LEM-data
|
||||||
|
RUNYEAR=$( awk '{
|
||||||
|
if(NR==1) X=0
|
||||||
|
if($1 ~ /^RUN/ && X==0) {
|
||||||
|
split($2, runNumber, "_")
|
||||||
|
if(runNumber[1] ~ /lem/) {print substr(runNumber[1],length(runNumber[1])-1)}
|
||||||
|
else print "XX"
|
||||||
|
X=1
|
||||||
|
}
|
||||||
|
}' $COUNT$EXTENSION.mlog )
|
||||||
|
|
||||||
SUMMFILE=$SUMMDIR/20$RUNYEAR/lem$RUNYEAR\_$RUNNUMBER.summ
|
if [ "$RUNYEAR" != "XX" ]; then # in case of LEM-data search the summary-file
|
||||||
|
SUMMFILE=$SUMMDIR/20$RUNYEAR/lem$RUNYEAR\_$RUNNUMBER.summ
|
||||||
|
TITLE=$( awk '{ if(NR==4) print $0 }' $SUMMFILE )
|
||||||
|
ENERGY=$( awk '{ if($0 ~ /implantation energy/) print $(NF-1)}' $SUMMFILE )
|
||||||
|
TEMPERATURE=$( awk '{ if($1 == "Sample_CF1") print $(NF-1)}' $SUMMFILE )
|
||||||
|
RALRAR=$( awk '{ if($5 == "RA-L") RAL=$7; if($1 == "RA-R") { RAR=$3; print RAL-RAR; nextfile } }' $SUMMFILE )
|
||||||
|
RATRAB=$( awk '{ if($5 == "RA-T") RAT=$7; if($1 == "RA-B") { RAB=$3; print RAT-RAB; nextfile } }' $SUMMFILE )
|
||||||
|
TRANSPORT=$( awk '{ if($1 == "Moderator") print $3}' $SUMMFILE )
|
||||||
|
fi
|
||||||
|
fi
|
||||||
|
fi
|
||||||
|
|
||||||
TITLE=$( awk '{ if(NR==4) print $0 }' $SUMMFILE )
|
# put together all data to db-format and write it to the file
|
||||||
|
awk -v optPARone=$OPT_PAR_ONE -v optPARtwo=$OPT_PAR_TWO -v optPARthree=$OPT_PAR_THREE -v optPARfour=$OPT_PAR_FOUR \
|
||||||
|
-v optPARfour=$OPT_PAR_FIVE -v runList=$RUNLIST_USED -v numIndVar=$NUM_OF_IND_VAR '{
|
||||||
|
|
||||||
ENERGY=$( awk '{ if($0 ~ /implantation energy/) print $(NF-1)}' $SUMMFILE )
|
outfile="out.db"
|
||||||
|
if(optPARone ~ /^-o/) outfile = substr(optPARone,3)
|
||||||
|
if(optPARtwo ~ /^-o/) outfile = substr(optPARtwo,3)
|
||||||
|
if(optPARthree ~ /^-o/) outfile = substr(optPARthree,3)
|
||||||
|
if(optPARfour ~ /^-o/) outfile = substr(optPARfour,3)
|
||||||
|
if(optPARfive ~ /^-o/) outfile = substr(optPARfive,3)
|
||||||
|
|
||||||
TEMPERATURE=$( awk '{ if($1 == "Sample_CF1") print $(NF-1)}' $SUMMFILE )
|
FS = " "
|
||||||
|
OFS = " "
|
||||||
|
|
||||||
RALRAR=$( awk '{ if($5 == "RA-L") RAL=$7; if($1 == "RA-R") { RAR=$3; print RAL-RAR; nextfile } }' $SUMMFILE )
|
if(NR==1){title=$0; X=0; Y=0; i=1}
|
||||||
|
|
||||||
RATRAB=$( awk '{ if($5 == "RA-T") RAT=$7; if($1 == "RA-B") { RAB=$3; print RAT-RAB; nextfile } }' $SUMMFILE )
|
if(NR>4){
|
||||||
|
if(X == 0){
|
||||||
|
if($0 != ""){
|
||||||
|
parArray[i] = $2
|
||||||
|
dataArray[i] = $3
|
||||||
|
if($4 ~ /^-/)
|
||||||
|
negErrArray[i] = (-1.0)*$4
|
||||||
|
else
|
||||||
|
negErrArray[i] = $4
|
||||||
|
if($5 ~ /none/)
|
||||||
|
posErrArray[i] = $4
|
||||||
|
else
|
||||||
|
posErrArray[i] = $5
|
||||||
|
i++
|
||||||
|
}
|
||||||
|
if($0 == "") X=1
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
TRANSPORT=$( awk '{ if($1 == "Moderator") print $3}' $SUMMFILE )
|
if($1 ~ /^RUN/ && X==1){ split($2, runNumber, "_"); X=2 }
|
||||||
|
|
||||||
fi
|
|
||||||
|
|
||||||
fi
|
|
||||||
|
|
||||||
awk -v optPARone=$OPT_PAR_ONE -v optPARtwo=$OPT_PAR_TWO -v optPARthree=$OPT_PAR_THREE -v optPARfour=$OPT_PAR_FOUR '{
|
|
||||||
|
|
||||||
outfile="out.db"
|
|
||||||
if(optPARone ~ /^-o/) outfile = substr(optPARone,3)
|
|
||||||
if(optPARtwo ~ /^-o/) outfile = substr(optPARtwo,3)
|
|
||||||
if(optPARthree ~ /^-o/) outfile = substr(optPARthree,3)
|
|
||||||
if(optPARfour ~ /^-o/) outfile = substr(optPARfour,3)
|
|
||||||
|
|
||||||
FS = " "
|
|
||||||
OFS = " "
|
|
||||||
|
|
||||||
if(NR==1){title=$0; X=0; Y=0; i=1}
|
|
||||||
|
|
||||||
if(NR>4){
|
|
||||||
if(X == 0){
|
|
||||||
if($0 != ""){
|
|
||||||
parArray[i] = $2
|
|
||||||
dataArray[i] = $3
|
|
||||||
if($4 ~ /^-/)
|
|
||||||
negErrArray[i] = (-1.0)*$4
|
|
||||||
else
|
|
||||||
negErrArray[i] = $4
|
|
||||||
|
|
||||||
if($5 ~ /none/)
|
|
||||||
posErrArray[i] = $4
|
|
||||||
else
|
|
||||||
posErrArray[i] = $5
|
|
||||||
i++
|
|
||||||
}
|
|
||||||
if($0 == "") X=1
|
|
||||||
}
|
|
||||||
}
|
|
||||||
|
|
||||||
if($1 ~ /^RUN/ && X==1){ split($2, runNumber, "_"); X=2 }
|
|
||||||
|
|
||||||
if($1 ~ /^chi/ && X==2){
|
|
||||||
parArray[i] = "CHISQ"
|
|
||||||
parArray[i+1] = "NDF"
|
|
||||||
parArray[i+2] = "CHISQred"
|
|
||||||
parArray[i+3] = "RUN"
|
|
||||||
|
|
||||||
sub(/,/, "", $3); sub(/,/, "", $6);
|
|
||||||
|
|
||||||
dataArray[i] = $3
|
|
||||||
dataArray[i+1] = $6
|
|
||||||
dataArray[i+2] = $9
|
|
||||||
|
|
||||||
for (j in runNumber) {
|
|
||||||
if ( runNumber[j] ~ /^0/ ) {
|
|
||||||
sub(/0+/, "", runNumber[j])
|
|
||||||
}
|
|
||||||
if (int(runNumber[j]) == runNumber[j]) {
|
|
||||||
dataArray[i+3] = runNumber[j]
|
|
||||||
break
|
|
||||||
}
|
|
||||||
else dataArray[i+3] = "0000"
|
|
||||||
}
|
|
||||||
|
|
||||||
negErrArray[i] = ""
|
|
||||||
negErrArray[i+1] = ""
|
|
||||||
negErrArray[i+2] = ""
|
|
||||||
negErrArray[i+3] = ""
|
|
||||||
|
|
||||||
posErrArray[i] = ""
|
|
||||||
posErrArray[i+1] = ""
|
|
||||||
posErrArray[i+2] = ""
|
|
||||||
posErrArray[i+3] = ""
|
|
||||||
|
|
||||||
|
|
||||||
# Output to file in the case, the LEM summary file is accessible
|
|
||||||
|
|
||||||
if("'"$TEMPERATURE"'" != "") {
|
|
||||||
|
|
||||||
if("'"$COUNT"'" == "'"${RUNARRAY[0]}"'" && optPARone != "noheader" && optPARtwo != "noheader" && optPARthree != "noheader" && optPARfour != "noheader"){
|
|
||||||
print "TITLE" >> outfile
|
|
||||||
print ">>>Put your title here<<<\n" >> outfile
|
|
||||||
print "Abstract" >> outfile
|
|
||||||
print ">>>Put your abstract here<<<\n" >> outfile
|
|
||||||
print "LABELS" >> outfile
|
|
||||||
print "T [K]" >> outfile
|
|
||||||
print "Tr [kV]" >> outfile
|
|
||||||
print "E [keV]" >> outfile
|
|
||||||
print "RAL-RAR [kV]" >> outfile
|
|
||||||
print "RAT-RAB [kV]" >> outfile
|
|
||||||
|
|
||||||
for(k=1;k<i+4;k++){
|
|
||||||
print parArray[k] >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
$1 = "Data"
|
|
||||||
$2 = "T"
|
|
||||||
$3 = "Tr"
|
|
||||||
$4 = "E"
|
|
||||||
$5 = "RALRAR"
|
|
||||||
$6 = "RATRAB"
|
|
||||||
for(k=1;k<i+4;k++){
|
|
||||||
$(k+6)=parArray[k]
|
|
||||||
}
|
|
||||||
print "\n" $0 >> outfile
|
|
||||||
print "\\-e" >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
print "T = " "'"$TEMPERATURE"'" ",,,\\" >> outfile
|
|
||||||
print "Tr = " "'"$TRANSPORT"'" ",,,\\" >> outfile
|
|
||||||
if ("'"$ENERGY"'" != "") print "E = " "'"$ENERGY"'" ",,,\\" >> outfile
|
|
||||||
else print "E = -999,,,\\" >> outfile
|
|
||||||
if ("'"$RALRAR"'" != "") print "RALRAR = " "'"$RALRAR"'" ",,,\\" >> outfile
|
|
||||||
else print "RALRAR = -999,,,\\" >> outfile
|
|
||||||
if ("'"$RATRAB"'" != "") print "RATRAB = " "'"$RATRAB"'" ",,,\\" >> outfile
|
|
||||||
else print "RATRAB = -999,,,\\" >> outfile
|
|
||||||
|
|
||||||
for(l=1;l<i+3;l++){
|
|
||||||
print parArray[l] " = " dataArray[l] ", " posErrArray[l] ", " negErrArray[l] ",\\" >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
print dataArray[i+3] ",,, " "'"$TITLE"'" >> outfile
|
|
||||||
|
|
||||||
if("'"$COUNT"'" == "'"${RUNARRAY[$LASTRUN]}"'") print "\n" >> outfile
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
# If we do not have the information from the summary file
|
|
||||||
|
|
||||||
else {
|
|
||||||
if("'"$COUNT"'" == "'"${RUNARRAY[0]}"'" && optPARone != "noheader" && optPARtwo != "noheader" && optPARthree != "noheader" && optPARfour != "noheader"){
|
|
||||||
print "TITLE" >> outfile
|
|
||||||
print ">>>Put your title here<<<\n" >> outfile
|
|
||||||
print "Abstract" >> outfile
|
|
||||||
print ">>>Put your abstract here<<<\n" >> outfile
|
|
||||||
print "LABELS" >> outfile
|
|
||||||
print "T [K]" >> outfile
|
|
||||||
|
|
||||||
for(k=1;k<i+4;k++){
|
|
||||||
print parArray[k] >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
$1 = "Data"
|
|
||||||
$2 = "T"
|
|
||||||
for(k=1;k<i+4;k++){
|
|
||||||
$(k+2)=parArray[k]
|
|
||||||
}
|
|
||||||
print "\n" $0 >> outfile
|
|
||||||
print "\\-e" >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
print "T = 000,,,\\" >> outfile
|
|
||||||
|
|
||||||
for(l=1;l<i+3;l++){
|
|
||||||
print parArray[l] " = " dataArray[l] ", " posErrArray[l] ", " negErrArray[l] ",\\" >> outfile
|
|
||||||
}
|
|
||||||
|
|
||||||
print dataArray[i+3] ",,, " title >> outfile
|
|
||||||
|
|
||||||
if("'"$COUNT"'" == "'"${RUNARRAY[LASTRUN]}"'") print "\n" >> outfile
|
|
||||||
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
}
|
|
||||||
}' $COUNT$EXTENSION.mlog
|
|
||||||
|
|
||||||
done
|
|
||||||
|
|
||||||
|
if($1 ~ /^chi/ && X==2){
|
||||||
|
parArray[i] = "CHISQ"
|
||||||
|
parArray[i+1] = "NDF"
|
||||||
|
parArray[i+2] = "CHISQred"
|
||||||
|
parArray[i+3] = "RUN"
|
||||||
|
|
||||||
|
sub(/,/, "", $3); sub(/,/, "", $6);
|
||||||
|
|
||||||
|
dataArray[i] = $3
|
||||||
|
dataArray[i+1] = $6
|
||||||
|
dataArray[i+2] = $9
|
||||||
|
|
||||||
|
for (j in runNumber) {
|
||||||
|
if ( runNumber[j] ~ /^0/ ) {
|
||||||
|
sub(/0+/, "", runNumber[j])
|
||||||
|
}
|
||||||
|
if (int(runNumber[j]) == runNumber[j]) {
|
||||||
|
dataArray[i+3] = runNumber[j]
|
||||||
|
break
|
||||||
|
}
|
||||||
|
else dataArray[i+3] = "0000"
|
||||||
|
}
|
||||||
|
|
||||||
|
negErrArray[i] = ""
|
||||||
|
negErrArray[i+1] = ""
|
||||||
|
negErrArray[i+2] = ""
|
||||||
|
negErrArray[i+3] = ""
|
||||||
|
|
||||||
|
posErrArray[i] = ""
|
||||||
|
posErrArray[i+1] = ""
|
||||||
|
posErrArray[i+2] = ""
|
||||||
|
posErrArray[i+3] = ""
|
||||||
|
|
||||||
|
# Read in the runlist-variable names
|
||||||
|
if(runList == 1){
|
||||||
|
getline line < "'"$1"'"
|
||||||
|
split(line, indVar, " ")
|
||||||
|
}
|
||||||
|
|
||||||
|
# Output to file in the case, the LEM summary file is accessible and the option "nosummary" is not set
|
||||||
|
|
||||||
|
if("'"$TEMPERATURE"'" != "") {
|
||||||
|
|
||||||
|
# Write the db-header
|
||||||
|
if("'"$COUNT"'" == "'"${RUNARRAY[0]}"'" && optPARone != "noheader" && optPARtwo != "noheader" && optPARthree != "noheader" && optPARfour != "noheader" && optPARfive != "noheader"){
|
||||||
|
|
||||||
|
print "TITLE" >> outfile
|
||||||
|
print ">>>Put your title here<<<\n" >> outfile
|
||||||
|
print "Abstract" >> outfile
|
||||||
|
print ">>>Put your abstract here<<<\n" >> outfile
|
||||||
|
print "LABELS" >> outfile
|
||||||
|
print "T [K]" >> outfile
|
||||||
|
print "Tr [kV]" >> outfile
|
||||||
|
print "E [keV]" >> outfile
|
||||||
|
print "RAL-RAR [kV]" >> outfile
|
||||||
|
print "RAT-RAB [kV]" >> outfile
|
||||||
|
|
||||||
|
if(runList == 1){
|
||||||
|
for(k=2;k<=numIndVar;k++){print indVar[k] >> outfile}
|
||||||
|
}
|
||||||
|
|
||||||
|
for(k=1;k<i+4;k++){
|
||||||
|
print parArray[k] >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
$1 = "Data"
|
||||||
|
$2 = "T"
|
||||||
|
$3 = "Tr"
|
||||||
|
$4 = "E"
|
||||||
|
$5 = "RALRAR"
|
||||||
|
$6 = "RATRAB"
|
||||||
|
|
||||||
|
for(k=1;k<numIndVar;k++){
|
||||||
|
$(k+6)=indVar[k+1]
|
||||||
|
}
|
||||||
|
|
||||||
|
for(k=1;k<i+4;k++){
|
||||||
|
$(k+6+numIndVar-1)=parArray[k]
|
||||||
|
}
|
||||||
|
|
||||||
|
print "\n" $0 >> outfile
|
||||||
|
print "\\-e" >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
# Write the data-block
|
||||||
|
print "T = " "'"$TEMPERATURE"'" ",,,\\" >> outfile
|
||||||
|
print "Tr = " "'"$TRANSPORT"'" ",,,\\" >> outfile
|
||||||
|
if ("'"$ENERGY"'" != "") print "E = " "'"$ENERGY"'" ",,,\\" >> outfile
|
||||||
|
else print "E = -999,,,\\" >> outfile
|
||||||
|
if ("'"$RALRAR"'" != "") print "RALRAR = " "'"$RALRAR"'" ",,,\\" >> outfile
|
||||||
|
else print "RALRAR = -999,,,\\" >> outfile
|
||||||
|
if ("'"$RATRAB"'" != "") print "RATRAB = " "'"$RATRAB"'" ",,,\\" >> outfile
|
||||||
|
else print "RATRAB = -999,,,\\" >> outfile
|
||||||
|
|
||||||
|
if(runList == 1) { # process the "independent variables" from the file
|
||||||
|
while((getline line < "'"$1"'") > 0){
|
||||||
|
split(line, indVarValue, " ")
|
||||||
|
if (indVarValue[1] == "'"$COUNT"'"){
|
||||||
|
for(k=2;k<=numIndVar;k++){print indVar[k] " = " indVarValue[k] ",,,\\" >> outfile}
|
||||||
|
break
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
for(l=1;l<i+3;l++){
|
||||||
|
print parArray[l] " = " dataArray[l] ", " posErrArray[l] ", " negErrArray[l] ",\\" >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
print dataArray[i+3] ",,, " "'"$TITLE"'" >> outfile
|
||||||
|
|
||||||
|
if("'"$COUNT"'" == "'"${RUNARRAY[$LASTRUN]}"'") print "\n" >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
# If we do not have the information from the summary file or "nosummary" is set
|
||||||
|
else {
|
||||||
|
if("'"$COUNT"'" == "'"${RUNARRAY[0]}"'" && optPARone != "noheader" && optPARtwo != "noheader" && optPARthree != "noheader" && optPARfour != "noheader" && optPARfive != "noheader"){
|
||||||
|
|
||||||
|
print "TITLE" >> outfile
|
||||||
|
print ">>>Put your title here<<<\n" >> outfile
|
||||||
|
print "Abstract" >> outfile
|
||||||
|
print ">>>Put your abstract here<<<\n" >> outfile
|
||||||
|
print "LABELS" >> outfile
|
||||||
|
|
||||||
|
if(runList == 1){
|
||||||
|
for(k=2;k<=numIndVar;k++){print indVar[k] >> outfile}
|
||||||
|
}
|
||||||
|
|
||||||
|
for(k=1;k<i+4;k++){
|
||||||
|
print parArray[k] >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
$1 = "Data"
|
||||||
|
|
||||||
|
for(k=1;k<numIndVar;k++){
|
||||||
|
$(k+1)=indVar[k+1]
|
||||||
|
}
|
||||||
|
|
||||||
|
for(k=1;k<i+4;k++){
|
||||||
|
$(k+1+numIndVar-1)=parArray[k]
|
||||||
|
}
|
||||||
|
|
||||||
|
print "\n" $0 >> outfile
|
||||||
|
print "\\-e" >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
if(runList == 1) {
|
||||||
|
while((getline line < "'"$1"'") > 0){
|
||||||
|
split(line, indVarValue, " ")
|
||||||
|
if (indVarValue[1] == "'"$COUNT"'"){
|
||||||
|
for(k=2;k<=numIndVar;k++){print indVar[k] " = " indVarValue[k] ",,,\\" >> outfile}
|
||||||
|
break
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
for(l=1;l<i+3;l++){
|
||||||
|
print parArray[l] " = " dataArray[l] ", " posErrArray[l] ", " negErrArray[l] ",\\" >> outfile
|
||||||
|
}
|
||||||
|
|
||||||
|
print dataArray[i+3] ",,, " title >> outfile
|
||||||
|
|
||||||
|
if("'"$COUNT"'" == "'"${RUNARRAY[$LASTRUN]}"'") print "\n" >> outfile
|
||||||
|
}
|
||||||
|
}
|
||||||
|
}' $COUNT$EXTENSION.mlog
|
||||||
|
done
|
||||||
fi
|
fi
|
||||||
|
|||||||
Loading…
x
Reference in New Issue
Block a user