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 14M
-rw-r--r-- 1 mcc users 5.1K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 23K May 15 18:54 CTLCardinality.xml
-rw-r--r-- 1 mcc users 4.0K May 15 18:54 CTLFireability.txt
-rw-r--r-- 1 mcc users 20K 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 5.9K May 15 18:50 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 3.0K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 11K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 2.6K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 11K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 6.3K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 28K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 118 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 356 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 5.0K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 22K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 2.0K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 4.0K 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 10 May 15 18:50 instance
-rw-r--r-- 1 mcc users 6 May 15 18:50 iscolored
-rwxr-xr-x 1 mcc users 14M May 15 18:50 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool itstoolsl
Input is HypertorusGrid-PT-d5k3p2b10, examination is ReachabilityDeadlock
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r105-smll-152658635400167
=====================================================================

--------------------
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 HypertorusGrid-PT-d5k3p2b10-ReachabilityDeadlock-0

=== Now, execution of the tool begins

BK_START 1527391484519

Flatten gal took : 3512 ms
Applied a total of 0 rules in 3215 ms. Remains 7533 /7533 variables (removed 0) and now considering 24300/24300 (removed 0) transitions.
// Phase 1: matrix 24300 rows 7533 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/graph5476687356818954435.txt, -o, /tmp/graph5476687356818954435.bin, -w, /tmp/graph5476687356818954435.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/graph5476687356818954435.bin, -l, -1, -v, -w, /tmp/graph5476687356818954435.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 767 ordering constraints for composite.
built 110 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 324 ordering constraints for composite.
built 110 ordering constraints for composite.
built 324 ordering constraints for composite.
built 218 ordering constraints for composite.
built 218 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
terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc

BK_STOP 1527392487285

--------------------
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 3:24:46 AM 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 3:24:46 AM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
May 27, 2018 3:24:47 AM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 1084 ms
May 27, 2018 3:24:47 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 7533 places.
May 27, 2018 3:24:48 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 24300 transitions.
May 27, 2018 3:24:52 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 3507 ms
May 27, 2018 3:24:52 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.simple.gal : 232 ms
May 27, 2018 3:24:54 AM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 24300 transitions.
May 27, 2018 3:26:45 AM fr.lip6.move.gal.application.MccTranslator applyOrder
INFO: Applying decomposition
May 27, 2018 3:26:48 AM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 24300 transitions.
May 27, 2018 3:26:48 AM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Too many transitions (24300) to apply POR reductions. Disabling POR matrices.
May 27, 2018 3:26:49 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 3136 ms
May 27, 2018 3:26:50 AM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 4323ms conformant to PINS in folder :/home/mcc/execution
May 27, 2018 3:26:51 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 2516 ms
Begin: Sun May 27 03:26:54 2018

Computation of communities with the Newman-Girvan Modularity quality function

level 0:
start computation: Sun May 27 03:26:54 2018
network size: 7533 nodes, 68040 links, 48600 weight
quality increased from -0.000334362 to 0.498868
end computation: Sun May 27 03:26:54 2018
level 1:
start computation: Sun May 27 03:26:54 2018
network size: 2673 nodes, 12393 links, 48600 weight
quality increased from 0.498868 to 0.945885
end computation: Sun May 27 03:26:54 2018
level 2:
start computation: Sun May 27 03:26:54 2018
network size: 243 nodes, 2673 links, 48600 weight
quality increased from 0.945885 to 0.947509
end computation: Sun May 27 03:26:54 2018
level 3:
start computation: Sun May 27 03:26:54 2018
network size: 89 nodes, 1461 links, 48600 weight
quality increased from 0.947509 to 0.947516
end computation: Sun May 27 03:26:54 2018
level 4:
start computation: Sun May 27 03:26:54 2018
network size: 88 nodes, 1446 links, 48600 weight
quality increased from 0.947516 to 0.947516
end computation: Sun May 27 03:26:54 2018
End: Sun May 27 03:26:54 2018
Total duration: 0 sec
0.947516
May 27, 2018 3:26:54 AM fr.lip6.move.gal.instantiate.CompositeBuilder decomposeWithOrder
INFO: Decomposing Gal with order
May 27, 2018 3:26:57 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 2810 ms
May 27, 2018 3:26:58 AM fr.lip6.move.gal.instantiate.CompositeBuilder rewriteArraysToAllowPartition
INFO: Rewriting arrays to variables to allow decomposition.
May 27, 2018 3:27:18 AM fr.lip6.move.gal.instantiate.Instantiator fuseIsomorphicEffects
INFO: Removed a total of 38880 redundant transitions.
May 27, 2018 3:27:18 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/ReachabilityDeadlock.pnml.gal : 216 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)
ITS-tools command line returned an error code 134

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="HypertorusGrid-PT-d5k3p2b10"
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/HypertorusGrid-PT-d5k3p2b10.tgz
mv HypertorusGrid-PT-d5k3p2b10 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 HypertorusGrid-PT-d5k3p2b10, 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-152658635400167"
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 ;