Execution Chart

We display below the execution chart for this examination (boot time has been removed).

Trace from the execution

Waiting for the VM to be ready (probing ssh)
...................
/home/mcc/execution
total 29M
-rw-r--r-- 1 mcc users 3.8K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 21K May 15 18:54 CTLCardinality.xml
-rw-r--r-- 1 mcc users 2.8K May 15 18:54 CTLFireability.txt
-rw-r--r-- 1 mcc users 18K May 15 18:54 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K May 15 18:50 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 5.7K May 15 18:50 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 2.7K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 12K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 1.9K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 7.8K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.5K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 17K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 114 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 352 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 2.5K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 12K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.8K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.8K May 15 18:54 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 May 15 18:50 equiv_col
-rw-r--r-- 1 mcc users 5 May 15 18:50 instance
-rw-r--r-- 1 mcc users 6 May 15 18:50 iscolored
-rw-r--r-- 1 mcc users 29M May 15 18:50 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool itstoolsl
Input is JoinFreeModules-PT-5000, examination is ReachabilityDeadlock
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r105-smll-152658635500307
=====================================================================

--------------------
content from stdout:

=== Data for post analysis generated by BenchKit (invocation template)

The expected result is a vector of booleans
BOOL_VECTOR

here is the order used to build the result vector(from text file)
FORMULA_NAME JoinFreeModules-PT-5000-ReachabilityDeadlock-0

=== Now, execution of the tool begins

BK_START 1527460327866

Flatten gal took : 4303 ms
Applied a total of 0 rules in 20819 ms. Remains 25000 /25000 variables (removed 0) and now considering 40001/40001 (removed 0) transitions.
// Phase 1: matrix 40001 rows 25000 cols
Using solver Z3 to compute partial order matrices.
Built C files in :
/home/mcc/execution
Running compilation step : CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution]
Converted graph to binary with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.201805241334/bin/convert-linux64, -i, /tmp/graph362382146422919982.txt, -o, /tmp/graph362382146422919982.bin, -w, /tmp/graph362382146422919982.weights], workingDir=null]
Built communities with : CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.louvain.binaries_1.0.0.201805241334/bin/louvain-linux64, /tmp/graph362382146422919982.bin, -l, -1, -v, -w, /tmp/graph362382146422919982.weights, -q, 0, -e, 0.001], workingDir=null]
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201805241334/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/ReachabilityDeadlock.pnml.gal, -t, CGAL, -ctl, DEADLOCK], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201805241334/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/ReachabilityDeadlock.pnml.gal -t CGAL -ctl DEADLOCK
No direction supplied, using forward translation only.
built 1 ordering constraints for composite.
WARNING : LTS min runner thread failed on error :java.lang.RuntimeException: Compilation or link of executable timed out.java.util.concurrent.TimeoutException: Subprocess running CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution] killed by timeout after 400 SECONDS

BK_TIME_CONFINEMENT_REACHED

--------------------
content from stderr:

+ export BINDIR=/home/mcc/BenchKit/
+ BINDIR=/home/mcc/BenchKit/
++ pwd
+ export MODEL=/home/mcc/execution
+ MODEL=/home/mcc/execution
+ /home/mcc/BenchKit//runeclipse.sh /home/mcc/execution ReachabilityDeadlock -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -louvain -smt
+ ulimit -s 65536
+ [[ -z '' ]]
+ export LTSMIN_MEM_SIZE=8589934592
+ LTSMIN_MEM_SIZE=8589934592
+ /home/mcc/BenchKit//itstools/its-tools -consoleLog -data /home/mcc/execution/workspace -pnfolder /home/mcc/execution -examination ReachabilityDeadlock -z3path /home/mcc/BenchKit//z3/bin/z3 -yices2path /home/mcc/BenchKit//yices/bin/yices -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -louvain -smt -vmargs -Dosgi.locking=none -Declipse.stateSaveDelayInterval=-1 -Dosgi.configuration.area=/tmp/.eclipse -Xss8m -Xms40m -Xmx8192m -Dfile.encoding=UTF-8 -Dosgi.requiredJavaVersion=1.6
May 27, 2018 10:32:10 PM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-pnfolder, /home/mcc/execution, -examination, ReachabilityDeadlock, -z3path, /home/mcc/BenchKit//z3/bin/z3, -yices2path, /home/mcc/BenchKit//yices/bin/yices, -its, -ltsminpath, /home/mcc/BenchKit//lts_install_dir/, -louvain, -smt]
May 27, 2018 10:32:10 PM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
May 27, 2018 10:32:12 PM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 1628 ms
May 27, 2018 10:32:12 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 25001 places.
May 27, 2018 10:32:12 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 40001 transitions.
May 27, 2018 10:32:15 PM fr.lip6.move.gal.instantiate.DomainAnalyzer computeVariableDomains
INFO: Found a total of 1 fixed domain variables (out of 25001 variables) in GAL type JoinFreeModules_PT_5000
May 27, 2018 10:32:15 PM fr.lip6.move.gal.instantiate.Simplifier printConstantVars
INFO: Found a total of 1 constant array cells/variables (out of 25001 variables) in type JoinFreeModules_PT_5000
May 27, 2018 10:32:15 PM fr.lip6.move.gal.instantiate.Simplifier printConstantVars
INFO: p,
May 27, 2018 10:32:16 PM fr.lip6.move.gal.instantiate.Simplifier simplifyConstantVariables
INFO: Removed 1 constant variables :p=1
May 27, 2018 10:32:16 PM fr.lip6.move.gal.instantiate.Simplifier simplifyConstantVariables
INFO: Simplified 1 expressions due to constant valuations.
May 27, 2018 10:32:17 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 4299 ms
May 27, 2018 10:32:17 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.simple.gal : 213 ms
May 27, 2018 10:32:19 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 40001 transitions.
May 27, 2018 10:44:24 PM fr.lip6.move.gal.application.MccTranslator applyOrder
INFO: Applying decomposition
May 27, 2018 10:44:26 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 40001 transitions.
May 27, 2018 10:44:26 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Too many transitions (40001) to apply POR reductions. Disabling POR matrices.
May 27, 2018 10:44:28 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 3679 ms
May 27, 2018 10:44:29 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 5433ms conformant to PINS in folder :/home/mcc/execution
May 27, 2018 10:44:30 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 2764 ms
Begin: Sun May 27 22:44:33 2018

Computation of communities with the Newman-Girvan Modularity quality function

level 0:
start computation: Sun May 27 22:44:33 2018
network size: 25000 nodes, 80000 links, 80000 weight
quality increased from -4.08854e-05 to 0.9998
end computation: Sun May 27 22:44:33 2018
level 1:
start computation: Sun May 27 22:44:33 2018
network size: 5000 nodes, 5000 links, 80000 weight
quality increased from 0.9998 to 0.9998
end computation: Sun May 27 22:44:33 2018
End: Sun May 27 22:44:33 2018
Total duration: 0 sec
0.9998
May 27, 2018 10:44:34 PM fr.lip6.move.gal.instantiate.CompositeBuilder decomposeWithOrder
INFO: Decomposing Gal with order
May 27, 2018 10:44:36 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 2486 ms
May 27, 2018 10:44:41 PM fr.lip6.move.gal.instantiate.CompositeBuilder rewriteArraysToAllowPartition
INFO: Rewriting arrays to variables to allow decomposition.
May 27, 2018 10:46:18 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/ReachabilityDeadlock.pnml.gal : 180 ms
java.lang.RuntimeException: Compilation or link of executable timed out.java.util.concurrent.TimeoutException: Subprocess running CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/home/mcc/execution] killed by timeout after 400 SECONDS
at fr.lip6.move.gal.application.LTSminRunner$1.run(LTSminRunner.java:78)
at java.lang.Thread.run(Thread.java:748)

Sequence of Actions to be Executed by the VM

This is useful if one wants to reexecute the tool in the VM from the submitted image disk.

set -x
# this is for BenchKit: configuration of major elements for the test
export BK_INPUT="JoinFreeModules-PT-5000"
export BK_EXAMINATION="ReachabilityDeadlock"
export BK_TOOL="itstoolsl"
export BK_RESULT_DIR="/tmp/BK_RESULTS/OUTPUTS"
export BK_TIME_CONFINEMENT="3600"
export BK_MEMORY_CONFINEMENT="16384"

# this is specific to your benchmark or test

export BIN_DIR="$HOME/BenchKit/bin"

# remove the execution directoty if it exists (to avoid increse of .vmdk images)
if [ -d execution ] ; then
rm -rf execution
fi

tar xzf /home/mcc/BenchKit/INPUTS/JoinFreeModules-PT-5000.tgz
mv JoinFreeModules-PT-5000 execution
cd execution
pwd
ls -lh

# this is for BenchKit: explicit launching of the test
echo "====================================================================="
echo " Generated by BenchKit 2-3637"
echo " Executing tool itstoolsl"
echo " Input is JoinFreeModules-PT-5000, examination is ReachabilityDeadlock"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r105-smll-152658635500307"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "ReachabilityDeadlock" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "ReachabilityDeadlock" != "StateSpace" ] ; then
echo "The expected result is a vector of booleans"
echo BOOL_VECTOR
else
echo "no data necessary for post analysis"
fi
echo
if [ -f "ReachabilityDeadlock.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property ReachabilityDeadlock.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "ReachabilityDeadlock.xml" ] ; then # for cunf (txt files deleted;-)
echo echo "here is the order used to build the result vector(from xml file)"
for x in $(grep '' ReachabilityDeadlock.xml | cut -d '>' -f 2 | cut -d '<' -f 1 | sort -u) ; do
echo "FORMULA_NAME $x"
done
fi
echo
echo "=== Now, execution of the tool begins"
echo
echo -n "BK_START "
date -u +%s%3N
echo
timeout -s 9 $BK_TIME_CONFINEMENT bash -c "/home/mcc/BenchKit/BenchKit_head.sh 2> STDERR ; echo ; echo -n \"BK_STOP \" ; date -u +%s%3N"
if [ $? -eq 137 ] ; then
echo
echo "BK_TIME_CONFINEMENT_REACHED"
fi
echo
echo "--------------------"
echo "content from stderr:"
echo
cat STDERR ;