|
Last change
on this file was
8369,
checked in by rempel, 16 years ago
|
|
scripts for functional test of sbml import:
import and simulation of all biomodels
|
-
Property svn:executable set to
*
|
|
File size:
1.2 KB
|
| Rev | Line | |
|---|
| [8369] | 1 | directory=$1 |
|---|
| 2 | extension=$2 |
|---|
| 3 | #outputdir=$3 #is created |
|---|
| 4 | logdir=$4 |
|---|
| 5 | if [ ! -d $logdir ]; then mkdir -p $logdir; fi |
|---|
| 6 | logfile="sbml2mdl-runner.log" |
|---|
| 7 | scriptfile="sbml2mdl-runner.sh" |
|---|
| 8 | #reset scriptfile |
|---|
| 9 | echo "">$scriptfile |
|---|
| 10 | #reset logfile, otherwise logs will be always appended |
|---|
| 11 | echo "running $0 $*">$logfile |
|---|
| 12 | sbml2mdlscript=`dirname $0`/sbml2mdl |
|---|
| 13 | |
|---|
| 14 | for file in $directory/*$extension |
|---|
| 15 | do |
|---|
| 16 | #echo "$file" |
|---|
| 17 | #replace xml extension to mdl, in output dir $3 |
|---|
| 18 | outputdir=$3/`basename $file $extension` |
|---|
| 19 | outfilename=$outputdir/`basename $file $extension`.mdl |
|---|
| 20 | #make directory for outfile if necessary |
|---|
| 21 | # if [ ! -d $outputdir ]; then mkdir -p $outputdir; fi |
|---|
| 22 | #echo "$outfilename" |
|---|
| 23 | #replace xml extension to log, in log dir $4 |
|---|
| 24 | logfilename=$4/`basename $file $extension`.log |
|---|
| 25 | #echo "$logfilename" |
|---|
| 26 | #log found and generated filenames |
|---|
| 27 | echo "found: $file -> $outfilename $logfilename" >> $logfile |
|---|
| 28 | echo "$sbml2mdlscript $file $outfilename >> $logfilename" >> $logfile |
|---|
| 29 | echo "$sbml2mdlscript $file $outfilename >> $logfilename" >> $scriptfile |
|---|
| 30 | #start sbml2mdl with given args (write own log) |
|---|
| 31 | # exec $sbml2mdlscript $file $outfilename >> $logfilename#only one started (the one has errors though) |
|---|
| 32 | done |
|---|
| 33 | `chmod +x $scriptfile` |
|---|
| 34 | exec $scriptfile |
|---|
Note: See
TracBrowser
for help on using the repository browser.
