Execution Chart

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

Trace from the execution

Formatting '/local/x2003239/mcc2019-input.r189-csrt-155225079800022.qcow2', fmt=qcow2 size=4294967296 backing_file=/local/x2003239/mcc2019-input.qcow2 encryption=off cluster_size=65536 lazy_refcounts=off refcount_bits=16
Waiting for the VM to be ready (probing ssh)
...................
=====================================================================
Generated by BenchKit 2-3954
Executing tool itstoolsm
Input is Angiogenesis-PT-10, examination is CTLCardinality
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r189-csrt-155225079800022
=====================================================================

--------------------
preparation of the directory to be used:
/home/mcc/execution
total 184K
-rw-r--r-- 1 mcc users 3.2K Feb 9 06:49 CTLCardinality.txt
-rw-r--r-- 1 mcc users 15K Feb 9 06:49 CTLCardinality.xml
-rw-r--r-- 1 mcc users 2.3K Feb 5 03:33 CTLFireability.txt
-rw-r--r-- 1 mcc users 16K Feb 5 03:33 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K Mar 10 17:31 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 6.0K Mar 10 17:31 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 105 Feb 24 15:05 GlobalProperties.txt
-rw-r--r-- 1 mcc users 343 Feb 24 15:05 GlobalProperties.xml
-rw-r--r-- 1 mcc users 2.5K Feb 4 22:52 LTLCardinality.txt
-rw-r--r-- 1 mcc users 11K Feb 4 22:52 LTLCardinality.xml
-rw-r--r-- 1 mcc users 1.8K Feb 4 22:32 LTLFireability.txt
-rw-r--r-- 1 mcc users 7.5K Feb 4 22:32 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.2K Feb 2 00:14 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 14K Feb 2 00:14 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 2.5K Jan 29 11:28 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 15K Jan 29 11:28 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.7K Feb 4 22:18 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.7K Feb 4 22:18 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 Jan 29 09:34 equiv_col
-rw-r--r-- 1 mcc users 3 Jan 29 09:34 instance
-rw-r--r-- 1 mcc users 6 Jan 29 09:34 iscolored
-rw-r--r-- 1 mcc users 33K 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 Angiogenesis-PT-10-CTLCardinality-00
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-01
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-02
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-03
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-04
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-05
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-06
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-07
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-08
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-09
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-10
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-11
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-12
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-13
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-14
FORMULA_NAME Angiogenesis-PT-10-CTLCardinality-15

=== Now, execution of the tool begins

BK_START 1553581364409

Running greatSPN : CommandLine [args=[/home/mcc/BenchKit//greatspn//bin/pinvar, /home/mcc/execution/gspn], workingDir=/home/mcc/execution]
Run of greatSPN captured in /home/mcc/execution/outPut.txt
Running greatSPN : CommandLine [args=[/home/mcc/BenchKit//greatspn//bin/RGMEDD2, /home/mcc/execution/gspn, -META, -varord-only], workingDir=/home/mcc/execution]
Run of greatSPN captured in /home/mcc/execution/outPut.txt
Using order generated by GreatSPN with heuristic : META
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLCardinality.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLCardinality.ctl, --load-order, /home/mcc/execution/model.ord], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLCardinality.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLCardinality.ctl --load-order /home/mcc/execution/model.ord
Successfully loaded order from file /home/mcc/execution/model.ord
No direction supplied, using forward translation only.
Parsed 16 CTL formulae.
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,8.22646e+11,21.9638,393852,2,55270,5,2.21064e+06,6,0,220,2.26021e+06,0


Converting to forward existential form...Done !
original formula: E(!((KdStar<=PtP3P2)) U ((Akt<=KdStarGStarPgStarP3)&&(DAG<=GStarP3)))
=> equivalent forward existential formula: [(FwdU(Init,!((KdStar<=PtP3P2))) * ((Akt<=KdStarGStarPgStarP3)&&(DAG<=GStarP3)))] != FALSE
Hit Full ! (commute/partial/dont) 49/0/15
(forward)formula 0,1,96.7684,1453972,1,0,10,7.76845e+06,16,1,786,9.15292e+06,4
FORMULA Angiogenesis-PT-10-CTLCardinality-00 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: !(AG(EF((Pip2>=1))))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !(E(TRUE U (Pip2>=1))))] != FALSE
Reverse transition relation is NOT exact ! Due to transitions t12, t51, t57, t61, Intersection with reachable at each step enabled. (destroyed/reverse/intersect/total) :0/60/4/64
(forward)formula 1,1,179.736,2220340,1,0,83,1.15955e+07,14,52,1035,1.32394e+07,6
FORMULA Angiogenesis-PT-10-CTLCardinality-01 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: E(!(((GStarP3kP3>=1)&&(PtP2>=2))) U ((!(GStarPgP3>=1))&&(AktP3>=3)))
=> equivalent forward existential formula: [(FwdU(Init,!(((GStarP3kP3>=1)&&(PtP2>=2)))) * ((!(GStarPgP3>=1))&&(AktP3>=3)))] != FALSE
Hit Full ! (commute/partial/dont) 55/0/9
(forward)formula 2,1,212.292,2220340,1,0,83,1.15955e+07,23,52,1145,1.32394e+07,10
FORMULA Angiogenesis-PT-10-CTLCardinality-02 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: EF(AX(((KdStarGStarP3kStarP2>=2)||(KdStarGStarPgStarP2>=3))))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !(EX(!(((KdStarGStarP3kStarP2>=2)||(KdStarGStarPgStarP2>=3))))))] != FALSE
(forward)formula 3,1,218.368,2220340,1,0,83,1.15955e+07,25,52,1166,1.32394e+07,15
FORMULA Angiogenesis-PT-10-CTLCardinality-03 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: EF((GStarPgP3>=3))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * (GStarPgP3>=3))] != FALSE
(forward)formula 4,1,218.436,2220340,1,0,83,1.15955e+07,26,52,1167,1.32394e+07,16
FORMULA Angiogenesis-PT-10-CTLCardinality-04 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: !(AG((Akt>=3)))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !((Akt>=3)))] != FALSE
(forward)formula 5,1,218.982,2220340,1,0,83,1.15955e+07,28,52,1169,1.32394e+07,17
FORMULA Angiogenesis-PT-10-CTLCardinality-05 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: AG((((KdStarGStarP3kStarP2<=PtP3)||(Pg>=1))&&(Pten>=2)))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !((((KdStarGStarP3kStarP2<=PtP3)||(Pg>=1))&&(Pten>=2))))] = FALSE
(forward)formula 6,0,219.798,2220340,1,0,83,1.15955e+07,30,52,1199,1.32394e+07,18
FORMULA Angiogenesis-PT-10-CTLCardinality-06 FALSE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is FALSE !

***************************************

original formula: EF((DAG>=3))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * (DAG>=3))] != FALSE
(forward)formula 7,1,219.798,2220340,1,0,83,1.15955e+07,31,52,1200,1.32394e+07,19
FORMULA Angiogenesis-PT-10-CTLCardinality-07 TRUE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is TRUE !

***************************************

original formula: AG(((!((KdStarGStar>=3)&&(Pip3<=Akt)))||((!(KdStarGP3>=1))||((KdStarPgStarP2<=KdStarGStarP3kStarP3P2)&&(KdStarGStarP3k<=KdStarGStarPgStarP3P2)))))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !(((!((KdStarGStar>=3)&&(Pip3<=Akt)))||((!(KdStarGP3>=1))||((KdStarPgStarP2<=KdStarGStarP3kStarP3P2)&&(KdStarGStarP3k<=KdStarGStarPgStarP3P2))))))] = FALSE
(forward)formula 8,0,223.35,2220340,1,0,83,1.15955e+07,33,52,1270,1.32394e+07,20
FORMULA Angiogenesis-PT-10-CTLCardinality-08 FALSE TECHNIQUES DECISION_DIAGRAMS TOPOLOGICAL
Formula is FALSE !
Detected timeout of ITS tools.
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLCardinality.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLCardinality.ctl], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLCardinality.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLCardinality.ctl
No direction supplied, using forward translation only.
Parsed 7 CTL formulae.
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,8.22646e+11,30.2979,537500,2,131436,5,3.11559e+06,6,0,220,3.0591e+06,0


Converting to forward existential form...Done !
original formula: AG(!(AF((PtP3>=3))))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !(EG(!((PtP3>=3)))))] = FALSE
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
terminate called after throwing an instance of 'std::bad_alloc'
what(): std::bad_alloc
Invoking ITS tools like this :CommandLine [args=[/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64, --gc-threshold, 2000000, --quiet, -i, /home/mcc/execution/CTLCardinality.pnml.gal, -t, CGAL, -ctl, /home/mcc/execution/CTLCardinality.ctl], workingDir=/home/mcc/execution]

its-ctl command run as :

/home/mcc/BenchKit/itstools/plugins/fr.lip6.move.gal.itstools.binaries_1.0.0.201903251645/bin/its-ctl-linux64 --gc-threshold 2000000 --quiet -i /home/mcc/execution/CTLCardinality.pnml.gal -t CGAL -ctl /home/mcc/execution/CTLCardinality.ctl
No direction supplied, using forward translation only.
Parsed 7 CTL formulae.
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,8.22646e+11,29.7589,537476,2,131436,5,3.11559e+06,6,0,220,3.0591e+06,0


Converting to forward existential form...Done !
original formula: AG(!(AF((PtP3>=3))))
=> equivalent forward existential formula: [(FwdU(Init,TRUE) * !(EG(!((PtP3>=3)))))] = FALSE
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
sparsehash FATAL ERROR: failed to allocate 33 groups

BK_STOP 1553584776474

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

+ export BINDIR=/home/mcc/BenchKit/
+ BINDIR=/home/mcc/BenchKit/
++ pwd
+ export MODEL=/home/mcc/execution
+ MODEL=/home/mcc/execution
+ [[ CTLCardinality = StateSpace ]]
+ /home/mcc/BenchKit//runeclipse.sh /home/mcc/execution CTLCardinality -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -greatspnpath /home/mcc/BenchKit//greatspn/ -order META -manyOrder -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 CTLCardinality -z3path /home/mcc/BenchKit//z3/bin/z3 -yices2path /home/mcc/BenchKit//yices/bin/yices -its -ltsminpath /home/mcc/BenchKit//lts_install_dir/ -greatspnpath /home/mcc/BenchKit//greatspn/ -order META -manyOrder -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 26, 2019 6:22:46 AM fr.lip6.move.gal.application.Application start
INFO: Running its-tools with arguments : [-pnfolder, /home/mcc/execution, -examination, CTLCardinality, -z3path, /home/mcc/BenchKit//z3/bin/z3, -yices2path, /home/mcc/BenchKit//yices/bin/yices, -its, -ltsminpath, /home/mcc/BenchKit//lts_install_dir/, -greatspnpath, /home/mcc/BenchKit//greatspn/, -order, META, -manyOrder, -smt]
Mar 26, 2019 6:22:46 AM fr.lip6.move.gal.application.MccTranslator transformPNML
INFO: Parsing pnml file : /home/mcc/execution/model.pnml
Mar 26, 2019 6:22:46 AM fr.lip6.move.gal.nupn.PTNetReader loadFromXML
INFO: Load time of PNML (sax parser for PT used): 51 ms
Mar 26, 2019 6:22:46 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 39 places.
Mar 26, 2019 6:22:46 AM fr.lip6.move.gal.pnml.togal.PTGALTransformer handlePage
INFO: Transformed 64 transitions.
Mar 26, 2019 6:22:46 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/model.pnml.img.gal : 13 ms
Mar 26, 2019 6:22:47 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 120 ms
Mar 26, 2019 6:22:47 AM fr.lip6.move.gal.semantics.DeterministicNextBuilder getDeterministicNext
INFO: Input system was already deterministic with 64 transitions.
Mar 26, 2019 6:22:47 AM fr.lip6.move.gal.application.StructuralToGreatSPN handlePage
INFO: Transformed 39 places.
Mar 26, 2019 6:22:47 AM fr.lip6.move.gal.application.StructuralToGreatSPN handlePage
INFO: Transformed 64 transitions.
Mar 26, 2019 6:22:47 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/CTLCardinality.pnml.gal : 15 ms
Mar 26, 2019 6:22:47 AM fr.lip6.move.serialization.SerializationUtil serializePropertiesForITSCTLTools
INFO: Time to serialize properties into /home/mcc/execution/CTLCardinality.ctl : 4 ms
Mar 26, 2019 6:42:48 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 25 ms
Mar 26, 2019 6:42:48 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/CTLCardinality.pnml.gal : 7 ms
Mar 26, 2019 6:42:48 AM fr.lip6.move.serialization.SerializationUtil serializePropertiesForITSCTLTools
INFO: Time to serialize properties into /home/mcc/execution/CTLCardinality.ctl : 1 ms
ITS-tools command line returned an error code 134
Mar 26, 2019 7:01:17 AM fr.lip6.move.gal.instantiate.GALRewriter flatten
INFO: Flatten gal took : 13 ms
Mar 26, 2019 7:01:17 AM fr.lip6.move.serialization.SerializationUtil systemToFile
INFO: Time to serialize gal into /home/mcc/execution/CTLCardinality.pnml.gal : 2 ms
Mar 26, 2019 7:01:17 AM fr.lip6.move.serialization.SerializationUtil serializePropertiesForITSCTLTools
INFO: Time to serialize properties into /home/mcc/execution/CTLCardinality.ctl : 0 ms
ITS-tools command line returned an error code 1

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-10"
export BK_EXAMINATION="CTLCardinality"
export BK_TOOL="itstoolsm"
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 2-3954"
echo " Executing tool itstoolsm"
echo " Input is Angiogenesis-PT-10, examination is CTLCardinality"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r189-csrt-155225079800022"
echo "====================================================================="
echo
echo "--------------------"
echo "preparation of the directory to be used:"

tar xzf /home/mcc/BenchKit/INPUTS/Angiogenesis-PT-10.tgz
mv Angiogenesis-PT-10 execution
cd execution
if [ "CTLCardinality" = "GlobalProperties" ] ; then
rm -f GenericPropertiesVerdict.xml
fi
if [ "CTLCardinality" = "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 [ "CTLCardinality" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "CTLCardinality" != "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 "CTLCardinality.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property CTLCardinality.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "CTLCardinality.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 '' CTLCardinality.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 ;