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)
.......
=====================================================================
Generated by BenchKit 2-3254
Executing tool marcie
Input is S_Angiogenesis-PT-01, examination is CTLCardinality
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r081-csrt-149441064100111
=====================================================================

--------------------
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-01-CTLCardinality-0
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-1
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-10
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-11
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-12
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-13
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-14
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-15
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-2
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-3
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-4
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-5
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-6
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-7
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-8
FORMULA_NAME Angiogenesis-PT-01-CTLCardinality-9

=== Now, execution of the tool begins

BK_START 1494883852740

timeout --kill-after=10s --signal=SIGINT 1m for testing only

Marcie rev. 8852M (built: crohr on 2017-05-03)
A model checker for Generalized Stochastic Petri nets

authors: Alex Tovchigrechko (IDD package and CTL model checking)

Martin Schwarick (Symbolic numerical analysis and CSL model checking)

Christian Rohr (Simulative and approximative numerical model checking)

marcie@informatik.tu-cottbus.de

called as: marcie --net-file=model.pnml --mcc-file=CTLCardinality.xml --memory=6

parse successfull
net created successfully

Net: Angiogenesis_PT_01
(NrP: 39 NrTr: 64 NrArc: 185)

parse formulas
formulas created successfully
place and transition orderings generation:0m 0.000sec

net check time: 0m 0.000sec

init dd package: 0m 1.399sec


RS generation: 0m 0.002sec


-> reachability set: #nodes 80 (8.0e+01) #states 110



starting MCC model checker
--------------------------

checking: EX [~ [1<=KdStarGStarP3kStarP2]]
normalized: EX [~ [1<=KdStarGStarP3kStarP2]]

abstracting: (1<=KdStarGStarP3kStarP2)
states: 2
.-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: AG [1<=GStarP3kP3]
normalized: ~ [E [true U ~ [1<=GStarP3kP3]]]

abstracting: (1<=GStarP3kP3)
states: 6
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: 2<=KdStarGStarPgP3
normalized: 2<=KdStarGStarPgP3

abstracting: (2<=KdStarGStarPgP3)
states: 0
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: AG [1<=PtP3P2]
normalized: ~ [E [true U ~ [1<=PtP3P2]]]

abstracting: (1<=PtP3P2)
states: 0
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: ~ [AG [AX [GP3<=AktStar]]]
normalized: E [true U EX [~ [GP3<=AktStar]]]

abstracting: (GP3<=AktStar)
states: 110
.-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: Pg<=KdStarGStarPgStarP3P2
normalized: Pg<=KdStarGStarPgStarP3P2

abstracting: (Pg<=KdStarGStarPgStarP3P2)
states: 51
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: AF [KdStarPg<=KdStarGStarP3]
normalized: ~ [EG [~ [KdStarPg<=KdStarGStarP3]]]

abstracting: (KdStarPg<=KdStarGStarP3)
states: 102
.
EG iterations: 1
-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: [KdStarG<=KdStarPgStar & AF [1<=KdStarGStar]]
normalized: [~ [EG [~ [1<=KdStarGStar]]] & KdStarG<=KdStarPgStar]

abstracting: (KdStarG<=KdStarPgStar)
states: 106
abstracting: (1<=KdStarGStar)
states: 13
.
EG iterations: 1
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-8 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: A [EF [2<=KdStarGStarP3kStarP3] U [~ [3<=GStarP3] | 2<=Pten]]
normalized: [~ [EG [~ [[2<=Pten | ~ [3<=GStarP3]]]]] & ~ [E [~ [[2<=Pten | ~ [3<=GStarP3]]] U [~ [E [true U 2<=KdStarGStarP3kStarP3]] & ~ [[2<=Pten | ~ [3<=GStarP3]]]]]]]

abstracting: (3<=GStarP3)
states: 0
abstracting: (2<=Pten)
states: 0
abstracting: (2<=KdStarGStarP3kStarP3)
states: 0
abstracting: (3<=GStarP3)
states: 0
abstracting: (2<=Pten)
states: 0
abstracting: (3<=GStarP3)
states: 0
abstracting: (2<=Pten)
states: 0
.
EG iterations: 1
-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-12 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: ~ [[EX [~ [3<=KdStarGP3]] | [~ [~ [2<=DAG]] & Pg<=KdStarG]]]
normalized: ~ [[[2<=DAG & Pg<=KdStarG] | EX [~ [3<=KdStarGP3]]]]

abstracting: (3<=KdStarGP3)
states: 0
.abstracting: (Pg<=KdStarG)
states: 55
abstracting: (2<=DAG)
states: 0
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: [~ [[[1<=Akt | 1<=Pten] & [~ [KdStarGStarP3kStarP2<=PtP3] & 1<=KdStarPg]]] | EX [EF [1<=AktP3]]]
normalized: [EX [E [true U 1<=AktP3]] | ~ [[[1<=KdStarPg & ~ [KdStarGStarP3kStarP2<=PtP3]] & [1<=Akt | 1<=Pten]]]]

abstracting: (1<=Pten)
states: 86
abstracting: (1<=Akt)
states: 61
abstracting: (KdStarGStarP3kStarP2<=PtP3)
states: 108
abstracting: (1<=KdStarPg)
states: 8
abstracting: (1<=AktP3)
states: 5
.-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.005sec

checking: AF [[[Enz<=KdStarGStar | [Gab1<=KdStar & GStarP3kP3<=Pip2]] & AX [GStarP3<=PtP3P2]]]
normalized: ~ [EG [~ [[~ [EX [~ [GStarP3<=PtP3P2]]] & [Enz<=KdStarGStar | [Gab1<=KdStar & GStarP3kP3<=Pip2]]]]]]

abstracting: (GStarP3kP3<=Pip2)
states: 104
abstracting: (Gab1<=KdStar)
states: 101
abstracting: (Enz<=KdStarGStar)
states: 25
abstracting: (GStarP3<=PtP3P2)
states: 104
....
EG iterations: 3
-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: [[[~ [[KdStarPgStar<=P3k | 1<=KdStarGStarP3kStarP3]] | AF [2<=PtP3P2]] | AG [[1<=PtP2 | 2<=KdStarPg]]] & AX [[1<=Akt & [2<=GStarP3kP3 | KdStarGP3<=Enz]]]]
normalized: [~ [EX [~ [[1<=Akt & [2<=GStarP3kP3 | KdStarGP3<=Enz]]]]] & [~ [E [true U ~ [[1<=PtP2 | 2<=KdStarPg]]]] | [~ [EG [~ [2<=PtP3P2]]] | ~ [[KdStarPgStar<=P3k | 1<=KdStarGStarP3kStarP3]]]]]

abstracting: (1<=KdStarGStarP3kStarP3)
states: 2
abstracting: (KdStarPgStar<=P3k)
states: 108
abstracting: (2<=PtP3P2)
states: 0

EG iterations: 0
abstracting: (2<=KdStarPg)
states: 0
abstracting: (1<=PtP2)
states: 14
abstracting: (KdStarGP3<=Enz)
states: 110
abstracting: (2<=GStarP3kP3)
states: 0
abstracting: (1<=Akt)
states: 61
.-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.002sec

checking: [[[EX [2<=KdStar] & AX [AktP3<=P3k]] & [KdStarGStarPgP3<=KdStar & KdStarGStarPgStarP3<=KdStarPgStar]] | [EF [[Enz<=KdStarGP3 | 2<=KdStarGStarPgStarP2]] & EG [2<=Pten]]]
normalized: [[EG [2<=Pten] & E [true U [Enz<=KdStarGP3 | 2<=KdStarGStarPgStarP2]]] | [[KdStarGStarPgP3<=KdStar & KdStarGStarPgStarP3<=KdStarPgStar] & [~ [EX [~ [AktP3<=P3k]]] & EX [2<=KdStar]]]]

abstracting: (2<=KdStar)
states: 0
.abstracting: (AktP3<=P3k)
states: 108
.abstracting: (KdStarGStarPgStarP3<=KdStarPgStar)
states: 108
abstracting: (KdStarGStarPgP3<=KdStar)
states: 108
abstracting: (2<=KdStarGStarPgStarP2)
states: 0
abstracting: (Enz<=KdStarGP3)
states: 14
abstracting: (2<=Pten)
states: 0
.
EG iterations: 1
-> the formula is FALSE

FORMULA Angiogenesis-PT-01-CTLCardinality-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.004sec

checking: [A [~ [P3k<=KdStar] U [1<=AktP3 | KdStarGStarP3kStarP3P2<=KdStarGP3]] & ~ [~ [[[KdStarGStarP3kStarP3P2<=KdStarGStarP3k & KdStarGStarPgStarP2<=KdStar] & KdStarGStar<=KdStarGStarPgStarP2]]]]
normalized: [[KdStarGStar<=KdStarGStarPgStarP2 & [KdStarGStarP3kStarP3P2<=KdStarGStarP3k & KdStarGStarPgStarP2<=KdStar]] & [~ [EG [~ [[1<=AktP3 | KdStarGStarP3kStarP3P2<=KdStarGP3]]]] & ~ [E [~ [[1<=AktP3 | KdStarGStarP3kStarP3P2<=KdStarGP3]] U [P3k<=KdStar & ~ [[1<=AktP3 | KdStarGStarP3kStarP3P2<=KdStarGP3]]]]]]]

abstracting: (KdStarGStarP3kStarP3P2<=KdStarGP3)
states: 110
abstracting: (1<=AktP3)
states: 5
abstracting: (P3k<=KdStar)
states: 46
abstracting: (KdStarGStarP3kStarP3P2<=KdStarGP3)
states: 110
abstracting: (1<=AktP3)
states: 5
abstracting: (KdStarGStarP3kStarP3P2<=KdStarGP3)
states: 110
abstracting: (1<=AktP3)
states: 5
.
EG iterations: 1
abstracting: (KdStarGStarPgStarP2<=KdStar)
states: 108
abstracting: (KdStarGStarP3kStarP3P2<=KdStarGStarP3k)
states: 110
abstracting: (KdStarGStar<=KdStarGStarPgStarP2)
states: 97
-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: [[EX [[Pg<=KdStarGStarPgStarP2 | 1<=Pip2]] | [EG [2<=AktP3] | EG [1<=Gab1]]] & [~ [AF [2<=GStarP3]] & [AktStar<=AktP3 | [[3<=GStarP3kP3 | 3<=GP3] & ~ [KdStarGP3<=PtP2]]]]]
normalized: [[[AktStar<=AktP3 | [~ [KdStarGP3<=PtP2] & [3<=GStarP3kP3 | 3<=GP3]]] & EG [~ [2<=GStarP3]]] & [[EG [1<=Gab1] | EG [2<=AktP3]] | EX [[Pg<=KdStarGStarPgStarP2 | 1<=Pip2]]]]

abstracting: (1<=Pip2)
states: 14
abstracting: (Pg<=KdStarGStarPgStarP2)
states: 51
.abstracting: (2<=AktP3)
states: 0
.
EG iterations: 1
abstracting: (1<=Gab1)
states: 13
.
EG iterations: 1
abstracting: (2<=GStarP3)
states: 0

EG iterations: 0
abstracting: (3<=GP3)
states: 0
abstracting: (3<=GStarP3kP3)
states: 0
abstracting: (KdStarGP3<=PtP2)
states: 110
abstracting: (AktStar<=AktP3)
states: 66
-> the formula is TRUE

FORMULA Angiogenesis-PT-01-CTLCardinality-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

totally nodes used: 11533(1.2e+04)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 14383 27445 41828
used/not used/entry size/cache size: 23544 67085320 16 1024MB
basic ops cache: hits/miss/sum: 9025 24268 33293
used/not used/entry size/cache size: 48170 16729046 12 192MB
unary ops cache: hits/miss/sum: 0 28 28
used/not used/entry size/cache size: 28 8388580 8 64MB
abstract ops cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 8388608 12 96MB
state nr cache: hits/miss/sum: 390 485 875
used/not used/entry size/cache size: 485 2096667 32 64MB
max state cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 8388608 32 256MB
uniqueHash elements/entry size/size: 67108864 4 256MB
0 67097336
1 11523
2 5
3 0
4 0
5 0
6 0
7 0
8 0
9 0
>= 10 0

Total processing time: 0m 2.216sec


BK_STOP 1494883854986

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

check for maximal unmarked siphon
ok
check for constant places
ok
check if there are places and transitions
ok
check if there are transitions without pre-places
ok
check if at least one transition is enabled in m0
ok
check if there are transitions that can never fire
ok


initing FirstDep: 0m 0.000sec


iterations count:833 (13), effective:55 (0)

initing FirstDep: 0m 0.000sec


iterations count:75 (1), effective:2 (0)

iterations count:64 (1), effective:0 (0)

iterations count:534 (8), effective:28 (0)

iterations count:83 (1), effective:1 (0)

iterations count:487 (7), effective:28 (0)

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="S_Angiogenesis-PT-01"
export BK_EXAMINATION="CTLCardinality"
export BK_TOOL="marcie"
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/S_Angiogenesis-PT-01.tgz
mv S_Angiogenesis-PT-01 execution

# this is for BenchKit: explicit launching of the test

cd execution
echo "====================================================================="
echo " Generated by BenchKit 2-3254"
echo " Executing tool marcie"
echo " Input is S_Angiogenesis-PT-01, examination is CTLCardinality"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 1"
echo " Run identifier is r081-csrt-149441064100111"
echo "====================================================================="
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 ;