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 204K
-rw-r--r-- 1 mcc users 4.3K 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 2.6K 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 18:49 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 6.0K May 15 18:49 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 2.7K May 26 09:26 LTLCardinality.txt
-rw-r--r-- 1 mcc users 12K May 26 09:26 LTLCardinality.xml
-rw-r--r-- 1 mcc users 1.9K May 26 09:26 LTLFireability.txt
-rw-r--r-- 1 mcc users 11K May 26 09:26 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.4K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 16K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 109 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 347 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 15K 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 18:49 equiv_col
-rw-r--r-- 1 mcc users 3 May 15 18:49 instance
-rw-r--r-- 1 mcc users 6 May 15 18:49 iscolored
-rw-r--r-- 1 mcc users 33K May 15 18:49 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool irma4mcc-structural
Input is Angiogenesis-PT-15, examination is LTLCardinality
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r199-qhx1-152732196000007
=====================================================================

--------------------
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 Angiogenesis-PT-15-LTLCardinality-00
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-01
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-02
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-03
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-04
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-05
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-06
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-07
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-08
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-09
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-10
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-11
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-12
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-13
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-14
FORMULA_NAME Angiogenesis-PT-15-LTLCardinality-15

=== Now, execution of the tool begins

BK_START 1527372500858


BK_TIME_CONFINEMENT_REACHED

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

Prefix is 75f5f979.
Reading known information in /usr/share/mcc4mcc/75f5f979-known.json.
Reading learned information in /usr/share/mcc4mcc/75f5f979-learned.json.
Reading value translations in /usr/share/mcc4mcc/75f5f979-values.json.
Using directory /home/mcc/execution for input, as it contains a model.pnml file.
Using Angiogenesis-PT-15 as instance name.
Using Angiogenesis as model name.
Using algorithm or tool bmdt.
Model characteristics are: {'Examination': 'LTLCardinality', 'Place/Transition': True, 'Colored': False, 'Relative-Time': 1, 'Relative-Memory': 1, 'Ordinary': True, 'Simple Free Choice': False, 'Extended Free Choice': False, 'State Machine': False, 'Marked Graph': False, 'Connected': True, 'Strongly Connected': False, 'Source Place': False, 'Sink Place': True, 'Source Transition': False, 'Sink Transition': False, 'Loop Free': True, 'Conservative': False, 'Sub-Conservative': False, 'Nested Units': False, 'Safe': None, 'Deadlock': True, 'Reversible': False, 'Quasi Live': False, 'Live': False}.
Known tools are: [{'Time': 25337, 'Memory': 767.85, 'Tool': 'itstools'}, {'Time': 25718, 'Memory': 779.22, 'Tool': 'itstools'}, {'Time': 306628, 'Memory': 15926.22, 'Tool': 'lola'}, {'Time': 319260, 'Memory': 15936.52, 'Tool': 'lola'}].
Learned tools are: [{'Tool': 'lola'}].
Learned tool lola is 12.10198523897857x far from the best tool itstools.
LTLCardinality itstools Angiogenesis-PT-15...
May 26, 2018 10:08:55 PM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-z3path, /usr/bin/z3, -yices2path, /usr/bin/yices, -ltsminpath, /usr/bin, -smt, -its, -pnfolder, /mcc-data, -examination, LTLCardinality]
May 26, 2018 10:08:55 PM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /mcc-data/model.pnml
May 26, 2018 10:08:55 PM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 77 ms
May 26, 2018 10:08:56 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 39 places.
May 26, 2018 10:08:56 PM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 64 transitions.
May 26, 2018 10:08:56 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /mcc-data/model.pnml.img.gal : 19 ms
May 26, 2018 10:08:56 PM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 119 ms
Using solver Z3 to compute partial order matrices.
Built C files in :
May 26, 2018 10:08:56 PM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /mcc-data/LTLCardinality.pnml.gal : 3 ms
/mcc-data
May 26, 2018 10:08:56 PM fr.lip6.move.serialization.SerializationUtil serializePropertiesForITSLTLTools
INFO: Time to serialize properties into /mcc-data/LTLCardinality.ltl : 30 ms
Invoking ITS tools like this :CommandLine [args=[/usr/share/itscl/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201804131302/bin/its-ltl-linux64, --gc-threshold, 2000000, -i, /mcc-data/LTLCardinality.pnml.gal, -t, CGAL, -LTL, /mcc-data/LTLCardinality.ltl, -c, -stutter-deadlock], workingDir=/mcc-data]

its-ltl command run as :

/usr/share/itscl/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201804131302/bin/its-ltl-linux64 --gc-threshold 2000000 -i /mcc-data/LTLCardinality.pnml.gal -t CGAL -LTL /mcc-data/LTLCardinality.ltl -c -stutter-deadlock
Read 16 LTL properties
Checking formula 0 : !((X("(GP3<=KdStarGStarPgStar)")))
Formula 0 simplified : !X"(GP3<=KdStarGStarPgStar)"
May 26, 2018 10:08:57 PM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 64 transitions.
Presburger conditions satisfied. Using coverability to approximate state space in K-Induction.
// Phase 1: matrix 64 rows 39 cols
invariant :GStarP3kP3 + KdStarGStarP3k + KdStarGStarP3kP3 + KdStarGStarP3kStar + KdStarGStarP3kStarP2 + KdStarGStarP3kStarP3 + KdStarGStarP3kStarP3P2 + P3k = 15
invariant :Pten + PtP2 + PtP3 + PtP3P2 = 15
invariant :Akt + AktP3 + AktStar = 15
invariant :DAGE + Enz = 15
invariant :Gab1 + GP3 + GStarP3 + KdStarG + KdStarGP3 + KdStarGStar + KdStarGStarP3 + -1'KdStarPg + -1'KdStarPgStar + -1'KdStarPgStarP2 + -1'P3k + -1'Pg = -15
invariant :GStarPgP3 + KdStarGStarPg + KdStarGStarPgP3 + KdStarGStarPgStar + KdStarGStarPgStarP2 + KdStarGStarPgStarP3 + KdStarGStarPgStarP3P2 + KdStarPg + KdStarPgStar + KdStarPgStarP2 + Pg = 15
invariant :KdStar + KdStarG + KdStarGP3 + KdStarGStar + KdStarGStarP3 + KdStarGStarP3k + KdStarGStarP3kP3 + KdStarGStarP3kStar + KdStarGStarP3kStarP2 + KdStarGStarP3kStarP3 + KdStarGStarP3kStarP3P2 + KdStarGStarPg + KdStarGStarPgP3 + KdStarGStarPgStar + KdStarGStarPgStarP2 + KdStarGStarPgStarP3 + KdStarGStarPgStarP3P2 + KdStarPg + KdStarPgStar + KdStarPgStarP2 = 15
invariant :AktP3 + DAG + -1'Enz + -1'Gab1 + -1'KdStarG + -1'KdStarGStar + -1'KdStarGStarP3k + -1'KdStarGStarP3kStar + KdStarGStarP3kStarP3P2 + -1'KdStarGStarPg + -1'KdStarGStarPgStar + KdStarGStarPgStarP3P2 + KdStarPgStarP2 + Pip2 + Pip3 + PtP2 + PtP3 + 2'PtP3P2 = -15
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.KInductionSolver computeAndDeclareInvariants
INFO: Computed 8 place invariants in 85 ms
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.KInductionSolver init
INFO: Proved 39 variables to be positive in 401 ms
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeAblingMatrix
INFO: Computing symmetric may disable matrix : 64 transitions.
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of disable matrix completed :0/64 took 6 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Complete disable matrix. took 12 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeAblingMatrix
INFO: Computing symmetric may enable matrix : 64 transitions.
May 26, 2018 10:08:58 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Complete enable matrix. took 14 ms. Total solver calls (SAT/UNSAT): 0(0/0)
May 26, 2018 10:09:03 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeCoEnablingMatrix
INFO: Computing symmetric co enabling matrix : 64 transitions.
May 26, 2018 10:09:03 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of co-enabling matrix(0/64) took 227 ms. Total solver calls (SAT/UNSAT): 59(59/0)
May 26, 2018 10:09:06 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of co-enabling matrix(16/64) took 3293 ms. Total solver calls (SAT/UNSAT): 710(710/0)
May 26, 2018 10:09:09 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of co-enabling matrix(34/64) took 6307 ms. Total solver calls (SAT/UNSAT): 1214(1214/0)
May 26, 2018 10:09:12 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of co-enabling matrix(50/64) took 9322 ms. Total solver calls (SAT/UNSAT): 1407(1407/0)
May 26, 2018 10:09:13 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Finished co-enabling matrix. took 10430 ms. Total solver calls (SAT/UNSAT): 1437(1437/0)
May 26, 2018 10:09:13 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver computeDoNotAccord
INFO: Computing Do-Not-Accords matrix : 64 transitions.
May 26, 2018 10:09:17 PM fr.lip6.move.gal.gal2smt.bmc.NecessaryEnablingsolver printStats
INFO: Computation of Completed DNA matrix. took 3839 ms. Total solver calls (SAT/UNSAT): 371(0/371)
May 26, 2018 10:09:17 PM fr.lip6.move.gal.gal2pins.Gal2PinsTransformerNext transform
INFO: Built C files in 20468ms conformant to PINS in folder :/mcc-data
Running compilation step : CommandLine [args=[gcc, -c, -I/usr/bin/include, -I., -std=c99, -fPIC, -O3, model.c], workingDir=/mcc-data]
java.io.IOException: Cannot run program "gcc" (in directory "/mcc-data"): error=2, No such file or directory
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1048)
at fr.lip6.move.gal.process.Runner.runTool(Runner.java:46)
at fr.lip6.move.gal.process.Runner.runTool(Runner.java:27)
at fr.lip6.move.gal.application.LTSminRunner.compilePINS(LTSminRunner.java:235)
at fr.lip6.move.gal.application.LTSminRunner.access$6(LTSminRunner.java:220)
at fr.lip6.move.gal.application.LTSminRunner$1.run(LTSminRunner.java:75)
at java.lang.Thread.run(Thread.java:748)
Caused by: java.io.IOException: error=2, No such file or directory
at java.lang.UNIXProcess.forkAndExec(Native Method)
at java.lang.UNIXProcess.(UNIXProcess.java:247)
at java.lang.ProcessImpl.start(ProcessImpl.java:134)
at java.lang.ProcessBuilder.start(ProcessBuilder.java:1029)
... 6 more
Reverse transition relation is NOT exact ! Due to transitions k2, k55, k60, k7, Intersection with reachable at each step enabled. (destroyed/reverse/intersect/total) :0/60/4/64
Computing Next relation with stutter on 256 deadlock states
2 unique states visited
0 strongly connected components in search stack
1 transitions explored
2 items max in DFS search stack
155534 ticks for the emptiness check
Model ,|S| ,Time ,Mem(kb) ,fin. SDD ,fin. DDD ,peak SDD ,peak DDD ,SDD Hom ,SDD cache peak ,DDD Hom ,DDD cachepeak ,SHom cache
STATS,0,1555.56,6512520,1,0,79,3.1316e+07,148,53,1984,2.8544e+07,139
no accepting run found
Formula 0 is TRUE no accepting run found.
FORMULA Angiogenesis-PT-15-LTLCardinality-00 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Checking formula 1 : !((X("(KdStarGStarPgStar>=3)")))
Formula 1 simplified : !X"(KdStarGStarPgStar>=3)"
Computing Next relation with stutter on 256 deadlock states
4 unique states visited
4 strongly connected components in search stack
4 transitions explored
4 items max in DFS search stack
84156 ticks for the emptiness check
Model ,|S| ,Time ,Mem(kb) ,fin. SDD ,fin. DDD ,peak SDD ,peak DDD ,SDD Hom ,SDD cache peak ,DDD Hom ,DDD cachepeak ,SHom cache
STATS,0,2397.12,9408716,1,0,80,4.97053e+07,17,56,1188,5.01736e+07,10
an accepting run exists (use option '-e' to print it)
Formula 1 is FALSE accepting run found.
FORMULA Angiogenesis-PT-15-LTLCardinality-01 FALSE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Checking formula 2 : !(((F(X("(KdStarPgStar<=Gab1)")))U(("(KdStarPgStarP2>=1)")U("(GStarPgP3>=2)"))))
Formula 2 simplified : !(FX"(KdStarPgStar<=Gab1)" U ("(KdStarPgStarP2>=1)" U "(GStarPgP3>=2)"))
Computing Next relation with stutter on 256 deadlock states

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="Angiogenesis-PT-15"
export BK_EXAMINATION="LTLCardinality"
export BK_TOOL="irma4mcc-structural"
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/Angiogenesis-PT-15.tgz
mv Angiogenesis-PT-15 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 irma4mcc-structural"
echo " Input is Angiogenesis-PT-15, examination is LTLCardinality"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r199-qhx1-152732196000007"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "LTLCardinality" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "LTLCardinality" != "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 "LTLCardinality.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property LTLCardinality.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "LTLCardinality.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 '' LTLCardinality.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 ;