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 272K
-rw-r--r-- 1 mcc users 3.0K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 16K 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 19K 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 5.6K May 15 18:50 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 2.4K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 9.8K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 2.0K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 8.9K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.7K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 20K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 115 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 353 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 3.3K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 20K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.7K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.7K 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 12 May 15 18:50 instance
-rw-r--r-- 1 mcc users 6 May 15 18:50 iscolored
-rw-r--r-- 1 mcc users 108K May 15 18:50 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool itstoolsl
Input is DNAwalker-PT-06track28RL, examination is ReachabilityDeadlock
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r069-smll-152649742100265
=====================================================================

--------------------
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 DNAwalker-PT-06track28RL-ReachabilityDeadlock-0

=== Now, execution of the tool begins

BK_START 1527370704276

Flatten gal took : 117 ms
Applied a total of 0 rules in 8 ms. Remains 34 /34 variables (removed 0) and now considering 250/250 (removed 0) transitions.
Normalized transition count is 247
// Phase 1: matrix 247 rows 34 cols
Using solver Z3 to compute partial order matrices.
Built C files in :
/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/graph1141982310282293653.txt, -o, /tmp/graph1141982310282293653.bin, -w, /tmp/graph1141982310282293653.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/graph1141982310282293653.bin, -l, -1, -v, -w, /tmp/graph1141982310282293653.weights, -q, 0, -e, 0.001], workingDir=null]
Presburger conditions satisfied. Using coverability to approximate state space in K-Induction.
Normalized transition count is 247
// Phase 1: matrix 247 rows 34 cols
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.
Model ,|S| ,Time ,Mem(kb) ,fin. SDD ,fin. DDD ,peak SDD ,peak DDD ,SDD Hom ,SDD cache peak ,DDD Hom ,DDD cachepeak ,SHom cache
reachable,4.35341e+08,0.553692,17024,2,1996,5,52549,6,0,421,60297,0


Model ,|S| ,Time ,Mem(kb) ,fin. SDD ,fin. DDD ,peak SDD ,peak DDD ,SDD Hom ,SDD cache peak ,DDD Hom ,DDD cachepeak ,SHom cache
dead,106288,1.00096,22304,2,594,7,121503,9,1,1467,80989,2

System contains 106288 deadlocks (shown below if less than --print-limit option) !
FORMULA DNAwalker-PT-06track28RL-ReachabilityDeadlock-0 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL USE_NUPN
[ 106288 states ] showing 10 first states
[ A28=1 A25=1 A20=1 A17=1 A2=2 ]
[ A28=1 A25=1 A20=1 A17=1 A3=2 ]
[ A28=1 A25=1 A20=1 A17=1 A4=2 ]
[ A28=1 A25=1 A20=1 A17=1 A5=2 ]
[ A28=1 A25=1 A20=1 A17=1 A6=2 ]
[ A28=1 A25=1 A20=1 A17=1 A9=2 ]
[ A28=1 A25=1 A20=1 A17=1 A7=1 A2=2 ]
[ A28=1 A25=1 A20=1 A17=1 A7=2 ]
[ A28=1 A25=1 A20=1 A17=1 A7=2 A2=1 ]
[ A28=1 A25=1 A20=1 A17=1 A8=1 A2=2 ]
ITS tools runner thread asked to quit. Dying gracefully.
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]
WARNING : LTS min runner thread was asked to interrupt. Dying gracefully.

BK_STOP 1527370710040

--------------------
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 26, 2018 9:38:26 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 26, 2018 9:38:26 PM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
May 26, 2018 9:38:26 PM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 85 ms
May 26, 2018 9:38:26 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 34 places.
May 26, 2018 9:38:26 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 250 transitions.
May 26, 2018 9:38:26 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.img.gal : 21 ms
May 26, 2018 9:38:26 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 113 ms
May 26, 2018 9:38:26 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.simple.gal : 6 ms
May 26, 2018 9:38:27 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 250 transitions.
May 26, 2018 9:38:27 PM fr.lip6.move.gal.application.MccTranslator applyOrder
INFO: Applying decomposition
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 70 ms
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 68 ms
May 26, 2018 9:38:27 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 250 transitions.
Begin: Sat May 26 21:38:27 2018

Computation of communities with the Newman-Girvan Modularity quality function

level 0:
start computation: Sat May 26 21:38:27 2018
network size: 33 nodes, 12 links, 12 weight
quality increased from -0.0833333 to 0.833333
end computation: Sat May 26 21:38:27 2018
level 1:
start computation: Sat May 26 21:38:27 2018
network size: 27 nodes, 6 links, 12 weight
quality increased from 0.833333 to 0.833333
end computation: Sat May 26 21:38:27 2018
End: Sat May 26 21:38:27 2018
Total duration: 0 sec
0.833333
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.CompositeBuilder decomposeWithOrder
INFO: Decomposing Gal with order
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 82 ms
May 26, 2018 9:38:27 PM fr.lip6.move.gal.gal2smt.bmc.KInductionSolver computeAndDeclareInvariants
INFO: Computed 0 place invariants in 9 ms
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.CompositeBuilder rewriteArraysToAllowPartition
INFO: Rewriting arrays to variables to allow decomposition.
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.CompositeBuilder$Partition getIndex
INFO: Could not find partition element corresponding to A1 in partition [A2],[A3],[A4],[A5, B5],[A6, B6],[A7],[A8],[A9],[A10],[A11],[A12],[A13],[A14],[A15],[A16],[A17],[A18, B18],[A19, B19],[A20],[A21],[A22],[A23],[A24],[A25],[A26, B26],[A27, B27],

May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.CompositeBuilder$Partition getIndex
INFO: Could not find partition element corresponding to A28 in partition [A2],[A3],[A4],[A5, B5],[A6, B6],[A7],[A8],[A9],[A10],[A11],[A12],[A13],[A14],[A15],[A16],[A17],[A18, B18],[A19, B19],[A20],[A21],[A22],[A23],[A24],[A25],[A26, B26],[A27, B27],

May 26, 2018 9:38:27 PM fr.lip6.move.gal.application.MccTranslator applyOrder
WARNING: Could not apply decomposition. Using flat GAL structure.
java.lang.ArrayIndexOutOfBoundsException: -1
at org.eclipse.emf.common.util.BasicEList.get(BasicEList.java:348)
at fr.lip6.move.gal.instantiate.CompositeBuilder.galToCompositeWithPartition(CompositeBuilder.java:434)
at fr.lip6.move.gal.instantiate.CompositeBuilder.decomposeWithOrder(CompositeBuilder.java:145)
at fr.lip6.move.gal.application.MccTranslator.applyOrder(MccTranslator.java:120)
at fr.lip6.move.gal.application.MccTranslator.flattenSpec(MccTranslator.java:147)
at fr.lip6.move.gal.application.Application.start(Application.java:288)
at fr.lip6.move.gal.itscl.application.Application.start(Application.java:40)
at org.eclipse.equinox.internal.app.EclipseAppHandle.run(EclipseAppHandle.java:196)
at org.eclipse.core.runtime.internal.adaptor.EclipseAppLauncher.runApplication(EclipseAppLauncher.java:134)
at org.eclipse.core.runtime.internal.adaptor.EclipseAppLauncher.start(EclipseAppLauncher.java:104)
at org.eclipse.core.runtime.adaptor.EclipseStarter.run(EclipseStarter.java:388)
at org.eclipse.core.runtime.adaptor.EclipseStarter.run(EclipseStarter.java:243)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
at org.eclipse.equinox.launcher.Main.invokeFramework(Main.java:653)
at org.eclipse.equinox.launcher.Main.basicRun(Main.java:590)
at org.eclipse.equinox.launcher.Main.run(Main.java:1499)
at org.eclipse.equinox.launcher.Main.main(Main.java:1472)
May 26, 2018 9:38:27 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 50 ms
May 26, 2018 9:38:27 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/ReachabilityDeadlock.pnml.gal : 2 ms
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.KInductionSolver init
INFO: Proved 34 variables to be positive in 352 ms
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeAblingMatrix
INFO: Computing symmetric may disable matrix : 250 transitions.
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of disable matrix completed :0/250 took 0 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Complete disable matrix. took 62 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeAblingMatrix
INFO: Computing symmetric may enable matrix : 250 transitions.
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Complete enable matrix. took 12 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeCoEnablingMatrix
INFO: Computing symmetric co enabling matrix : 250 transitions.
May 26, 2018 9:38:28 PM org.smtlib.impl.Script execute
WARNING: Script execution failed on command (assert (and (>= (select s0 6) 1) (>= (select s0 15) 2))) with error
Skipping mayMatrices nes/nds SMT solver raised an exception or timeout.
java.lang.RuntimeException: SMT solver raised an exception or timeout.
at fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver.computeCoEnablingMatrix(NecessaryEnablingsolver.java:480)
at fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext.printLabels(Gal2PinsTransformerNext.java:530)
at fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext.printDependencyMatrix(Gal2PinsTransformerNext.java:209)
at fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext.buildBodyFile(Gal2PinsTransformerNext.java:85)
at fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext.transform(Gal2PinsTransformerNext.java:830)
at fr.lip6.move.gal.application.LTSminRunner$1.run(LTSminRunner.java:71)
at java.lang.Thread.run(Thread.java:748)
May 26, 2018 9:38:28 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 1565ms conformant to PINS in folder :/home/mcc/execution

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="DNAwalker-PT-06track28RL"
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/DNAwalker-PT-06track28RL.tgz
mv DNAwalker-PT-06track28RL 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 DNAwalker-PT-06track28RL, 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 r069-smll-152649742100265"
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 ;