Execution Chart

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

Trace from the execution

Formatting '/data/fkordon/mcc2019-input.r074-smll-155234739000084.qcow2', fmt=qcow2 size=4294967296 backing_file='/data/fkordon/mcc2019-input.qcow2' encryption=off cluster_size=65536 lazy_refcounts=off
Waiting for the VM to be ready (probing ssh)
..................
=====================================================================
Generated by BenchKit 2-3957
Executing tool itstools
Input is EGFr-PT-02010, examination is GlobalProperties
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r074-smll-155234739000084
=====================================================================

--------------------
preparation of the directory to be used:
/home/mcc/execution
total 228K
-rw-r--r-- 1 mcc users 3.6K Feb 10 22:52 CTLCardinality.txt
-rw-r--r-- 1 mcc users 18K Feb 10 22:52 CTLCardinality.xml
-rw-r--r-- 1 mcc users 5.6K Feb 6 20:16 CTLFireability.txt
-rw-r--r-- 1 mcc users 20K Feb 6 20:16 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K Mar 10 17:31 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 100 Feb 24 15:05 GlobalProperties.txt
-rw-r--r-- 1 mcc users 338 Feb 24 15:05 GlobalProperties.xml
-rw-r--r-- 1 mcc users 2.7K Feb 4 23:39 LTLCardinality.txt
-rw-r--r-- 1 mcc users 11K Feb 4 23:39 LTLCardinality.xml
-rw-r--r-- 1 mcc users 3.1K Feb 4 22:35 LTLFireability.txt
-rw-r--r-- 1 mcc users 11K Feb 4 22:35 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.9K Feb 3 07:41 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 17K Feb 3 07:41 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 6.2K Jan 31 00:31 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 20K Jan 31 00:31 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.7K Feb 4 22:20 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.8K Feb 4 22:20 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 Jan 29 09:34 equiv_col
-rw-r--r-- 1 mcc users 6 Jan 29 09:34 instance
-rw-r--r-- 1 mcc users 6 Jan 29 09:34 iscolored
-rw------- 1 mcc users 57K Mar 10 17:31 model.pnml

--------------------
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 EGFr-PT-02010-GlobalProperties-0

=== Now, execution of the tool begins

BK_START 1552708173589

Working with output stream class java.io.PrintStream
Flatten gal took : 121 ms
Applied a total of 0 rules in 7 ms. Remains 40 /40 variables (removed 0) and now considering 68/68 (removed 0) transitions.
Normalized transition count is 39
// Phase 1: matrix 39 rows 40 cols
Using solver Z3 to compute partial order matrices.
Built C files in :
/home/mcc/execution
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903111103/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/GlobalProperties.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_1.0.0.201903111103/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/GlobalProperties.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,4200,0.021758,4892,2,155,5,744,6,0,228,538,0


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,1,0.034722,4892,2,41,7,3403,9,1,1051,1749,2

System contains 1 deadlocks (shown below if less than --print-limit option) !
FORMULA EGFr-PT-02010-GlobalProperties-0 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
[ CDK2_equals_1=1 CyclinE1_equals_1=1 p27_equals_0=1 p21_equals_0=1 CDK4_equals_1=1 pRB1_equals_1=1 MYC_equals_1=1 CDK6_equals_1=1 CyclinD1_equals_1=1 ERalpha_equals_1=1 AKT1_equals_1=1 MEK1_equals_1=1 IGF1R_equals_0=1 ERBB2_3_equals_1=1 ERBB1_3_equals_1=1 ERBB1_2_equals_1=1 ERBB1_equals_1=1 ERBB3_equals_1=1 ERBB2_equals_1=1 EGF_equals_1=1 ]
Presburger conditions satisfied. Using coverability to approximate state space in K-Induction.
Normalized transition count is 39
// Phase 1: matrix 39 rows 40 cols
invariant :p27_equals_0 + p27_equals_1 = 1
invariant :pRB1_equals_0 + pRB1_equals_1 = 1
invariant :p21_equals_0 + p21_equals_1 = 1
invariant :MYC_equals_0 + MYC_equals_1 = 1
invariant :ERBB1_equals_0 + ERBB1_equals_1 = 1
invariant :ERBB2_equals_0 + ERBB2_equals_1 = 1
invariant :MEK1_equals_0 + MEK1_equals_1 = 1
invariant :IGF1R_equals_0 + IGF1R_equals_1 = 1
invariant :CyclinD1_equals_0 + CyclinD1_equals_1 = 1
invariant :CDK4_equals_0 + CDK4_equals_1 = 1
invariant :AKT1_0 + AKT1_equals_1 = 1
invariant :ERBB1_3_equals_0 + ERBB1_3_equals_1 = 1
invariant :ERalpha_equals_0 + ERalpha_equals_1 = 1
invariant :EGF_equals_0 + EGF_equals_1 = 1
invariant :ERBB3_equals_0 + ERBB3_equals_1 = 1
invariant :ERBB1_2_equals_0 + ERBB1_2_equals_1 = 1
invariant :CDK6_equals_0 + CDK6_equals_1 = 1
invariant :ERBB2_3_equals_0 + ERBB2_3_equals_1 = 1
invariant :CDK2_equals_0 + CDK2_equals_1 = 1
invariant :CyclinE1_equals_0 + CyclinE1_equals_1 = 1
Running compilation step : CommandLine [args=[gcc, -c, -I/home/mcc/BenchKit//lts_install_dir//include, -I., -std=c99, -fPIC, -O2, model.c], workingDir=/home/mcc/execution]
WARNING : LTS min runner thread was asked to interrupt. Dying gracefully.

BK_STOP 1552708178428

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

+ export BINDIR=/home/mcc/BenchKit/
+ BINDIR=/home/mcc/BenchKit/
++ pwd
+ export MODEL=/home/mcc/execution
+ MODEL=/home/mcc/execution
+ [[ GlobalProperties = StateSpace ]]
+ /home/mcc/BenchKit//runeclipse.sh /home/mcc/execution GlobalProperties -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -smt
+ ulimit -s 65536
+ [[ -z '' ]]
+ export LTSMIN_MEM_SIZE=8589934592
+ LTSMIN_MEM_SIZE=8589934592
+ /home/mcc/BenchKit//itstools/its-tools -data /home/mcc/execution/workspace -pnfolder /home/mcc/execution -examination GlobalProperties -z3path /home/mcc/BenchKit//z3/bin/z3 -yices2path /home/mcc/BenchKit//yices/bin/yices -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -smt -vmargs -Dosgi.locking=none -Declipse.stateSaveDelayInterval=-1 -Dosgi.configuration.area=/tmp/.eclipse -Xss8m -Xms40m -Xmx8192m -Dfile.encoding=UTF-8 -Dosgi.requiredJavaVersion=1.6
Mar 16, 2019 3:49:35 AM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-pnfolder, /home/mcc/execution, -examination, GlobalProperties, -z3path, /home/mcc/BenchKit//z3/bin/z3, -yices2path, /home/mcc/BenchKit//yices/bin/yices, -its, -ltsminpath, /home/mcc/BenchKit//lts_install_dir/, -smt]
Mar 16, 2019 3:49:35 AM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 80 ms
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 40 places.
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 68 transitions.
Mar 16, 2019 3:49:36 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.img.gal : 20 ms
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.instantiate.PropertySimplifier evalInInitialState
WARNING: Unexpected boolean logic operator in evalInInitialState fr.lip6.move.gal.impl.EXImpl
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.instantiate.PropertySimplifier rewriteWithInitialState
INFO: Reachable property EGFr-PT-02010-GlobalProperties-0 is trivially true : it is verified in initial state.
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 115 ms
Mar 16, 2019 3:49:36 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.simple.gal : 5 ms
Mar 16, 2019 3:49:36 AM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 68 transitions.
Mar 16, 2019 3:49:37 AM fr.lip6.move.gal.instantiate.PropertySimplifier rewriteWithInitialState
INFO: Reachable property EGFr-PT-02010-GlobalProperties-0 is trivially true : it is verified in initial state.
Mar 16, 2019 3:49:37 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 30 ms
Mar 16, 2019 3:49:37 AM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 68 transitions.
Mar 16, 2019 3:49:37 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/GlobalProperties.pnml.gal : 2 ms
Mar 16, 2019 3:49:37 AM fr.lip6.move.gal.gal2smt.bmc.KInductionSolver computeAndDeclareInvariants
INFO: Computed 20 place invariants in 10 ms
Skipping mayMatrices nes/nds SMT solver raised an exception :(error "Failed to assert expression: java.io.IOException: Stream closed (or (tr0 0) (tr1 0) (tr2 0) (tr3 0) (tr4 0) (tr5 0))")
java.lang.RuntimeException: SMT solver raised an exception :(error "Failed to assert expression: java.io.IOException: Stream closed (or (tr0 0) (tr1 0) (tr2 0) (tr3 0) (tr4 0) (tr5 0))")
at fr.lip6.move.gal.gal2smt.bmc.KInductionSolver.assertCouldModifyNext(KInductionSolver.java:212)
at fr.lip6.move.gal.gal2smt.bmc.KInductionSolver.init(KInductionSolver.java:90)
at fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver.init(NecessaryEnablingsolver.java:71)
at fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext.printLabels(Gal2PinsTransformerNext.java:471)
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)
Mar 16, 2019 3:49:37 AM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 149ms 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="EGFr-PT-02010"
export BK_EXAMINATION="GlobalProperties"
export BK_TOOL="itstools"
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

# this is for BenchKit: explicit launching of the test
echo "====================================================================="
echo " Generated by BenchKit 2-3957"
echo " Executing tool itstools"
echo " Input is EGFr-PT-02010, examination is GlobalProperties"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r074-smll-155234739000084"
echo "====================================================================="
echo
echo "--------------------"
echo "preparation of the directory to be used:"

tar xzf /home/mcc/BenchKit/INPUTS/EGFr-PT-02010.tgz
mv EGFr-PT-02010 execution
cd execution
if [ "GlobalProperties" = "GlobalProperties" ] ; then
rm -f GenericPropertiesVerdict.xml
fi
if [ "GlobalProperties" = "UpperBounds" ] ; then
rm -f GenericPropertiesVerdict.xml
fi
pwd
ls -lh

echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "GlobalProperties" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "GlobalProperties" != "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 "GlobalProperties.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property GlobalProperties.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "GlobalProperties.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 '' GlobalProperties.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 ;