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 2-2265
Executing tool marcie
Input is S_Angiogenesis-PT-05, examination is ReachabilityCardinality
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r120st-ebro-143297419300035
=====================================================================

--------------------
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-05-ReachabilityCardinality-0
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-1
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-10
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-11
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-12
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-13
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-14
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-15
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-2
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-3
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-4
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-5
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-6
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-7
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-8
FORMULA_NAME Angiogenesis-PT-05-ReachabilityCardinality-9

=== Now, execution of the tool begins

BK_START 1433155603842

Model: S_Angiogenesis-PT-05
reachability algorithm:
Saturation-based algorithm
variable ordering algorithm:
Calculated like in [Noa99]
--memory=6 --suppress --rs-algorithm=3 --place-order=5

Marcie rev. 1429:1432M (built: crohr on 2014-10-22)
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=ReachabilityCardinality.xml --memory=6 --suppress --rs-algorithm=3 --place-order=5

parse successfull
net created successfully

(NrP: 39 NrTr: 64 NrArc: 185)

net check time: 0m0sec

parse formulas successfull
formulas created successfully
place and transition orderings generation:0m0sec

init dd package: 0m6sec


RS generation: 0m0sec


-> reachability set: #nodes 5306 (5.3e+03) #states 42,734,935 (7)



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

checking: AG [[~ [[3<=GStarP3kP3 | Akt<=KdStarGStarP3kP3]] | ~ [[3<=KdStarPgStar & KdStarGStarPgStar<=AktStar]]]]
normalized: ~ [E [true U ~ [[~ [[3<=GStarP3kP3 | Akt<=KdStarGStarP3kP3]] | ~ [[3<=KdStarPgStar & KdStarGStarPgStar<=AktStar]]]]]]

abstracting: (KdStarGStarPgStar<=AktStar) states: 39,882,275 (7)
abstracting: (3<=KdStarPgStar) states: 1,170,290 (6)
abstracting: (Akt<=KdStarGStarP3kP3) states: 8,450,646 (6)
abstracting: (3<=GStarP3kP3) states: 115,195 (5)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-0 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m3sec

checking: AG [[[~ [2<=KdStarGStarP3k] | [KdStarGStarP3kStarP3P2<=KdStarGStarP3kStarP3P2 & KdStarGStarPgP3<=KdStarGStarPgStarP3P2]] & [~ [3<=KdStarGStarPgStarP3] & [GStarP3<=KdStarG | 1<=KdStarGStarP3kStar]]]]
normalized: ~ [E [true U ~ [[[[GStarP3<=KdStarG | 1<=KdStarGStarP3kStar] & ~ [3<=KdStarGStarPgStarP3]] & [[KdStarGStarP3kStarP3P2<=KdStarGStarP3kStarP3P2 & KdStarGStarPgP3<=KdStarGStarPgStarP3P2] | ~ [2<=KdStarGStarP3k]]]]]]

abstracting: (2<=KdStarGStarP3k) states: 2,965,900 (6)
abstracting: (KdStarGStarPgP3<=KdStarGStarPgStarP3P2) states: 38,637,967 (7)
abstracting: (KdStarGStarP3kStarP3P2<=KdStarGStarP3kStarP3P2) states: 42,734,935 (7)
abstracting: (3<=KdStarGStarPgStarP3) states: 15,826 (4)
abstracting: (1<=KdStarGStarP3kStar) states: 12,688,021 (7)
abstracting: (GStarP3<=KdStarG) states: 36,219,220 (7)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 2m11sec

checking: EF [[Gab1<=PtP3 & ~ [GStarP3<=KdStarGStarP3kStarP3P2]]]
normalized: E [true U [Gab1<=PtP3 & ~ [GStarP3<=KdStarGStarP3kStarP3P2]]]

abstracting: (GStarP3<=KdStarGStarP3kStarP3P2) states: 34,284,482 (7)
abstracting: (Gab1<=PtP3) states: 22,802,022 (7)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 2m4sec

checking: AG [~ [3<=KdStarGStarPgStarP3]]
normalized: ~ [E [true U 3<=KdStarGStarPgStarP3]]

abstracting: (3<=KdStarGStarPgStarP3) states: 15,826 (4)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m2sec

checking: EF [Enz<=GP3]
normalized: E [true U Enz<=GP3]

abstracting: (Enz<=GP3) states: 19,052 (4)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m28sec

checking: AG [~ [[~ [GStarP3<=KdStarGStarP3kStarP3P2] & ~ [P3k<=GStarP3kP3]]]]
normalized: ~ [E [true U [~ [P3k<=GStarP3kP3] & ~ [GStarP3<=KdStarGStarP3kStarP3P2]]]]

abstracting: (GStarP3<=KdStarGStarP3kStarP3P2) states: 34,284,482 (7)
abstracting: (P3k<=GStarP3kP3) states: 1,281,221 (6)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m9sec

checking: EF [[1<=Akt & ~ [~ [2<=PtP3]]]]
normalized: E [true U [1<=Akt & 2<=PtP3]]

abstracting: (2<=PtP3) states: 3,536,082 (6)
abstracting: (1<=Akt) states: 35,091,434 (7)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-6 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m1sec

checking: AG [~ [[~ [KdStarGStarP3kStarP2<=Pg] | [Enz<=KdStarGStarP3kStarP3P2 & GStarP3kP3<=Akt]]]]
normalized: ~ [E [true U [[Enz<=KdStarGStarP3kStarP3P2 & GStarP3kP3<=Akt] | ~ [KdStarGStarP3kStarP2<=Pg]]]]

abstracting: (KdStarGStarP3kStarP2<=Pg) states: 42,653,028 (7)
abstracting: (GStarP3kP3<=Akt) states: 40,980,913 (7)
abstracting: (Enz<=KdStarGStarP3kStarP3P2) states: 7,442 (3)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m20sec

checking: AG [~ [[~ [GStarPgP3<=Pg] & [Akt<=KdStarGStarPgStarP2 | 2<=DAG]]]]
normalized: ~ [E [true U [~ [GStarPgP3<=Pg] & [Akt<=KdStarGStarPgStarP2 | 2<=DAG]]]]

abstracting: (2<=DAG) states: 3,537,642 (6)
abstracting: (Akt<=KdStarGStarPgStarP2) states: 8,436,324 (6)
abstracting: (GStarPgP3<=Pg) states: 40,824,104 (7)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-8 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m19sec

checking: AG [[[KdStarGStarPg<=Akt | 2<=KdStarGStarPgStarP3P2] | ~ [KdStarGP3<=KdStarGStarP3]]]
normalized: ~ [E [true U ~ [[~ [KdStarGP3<=KdStarGStarP3] | [KdStarGStarPg<=Akt | 2<=KdStarGStarPgStarP3P2]]]]]

abstracting: (2<=KdStarGStarPgStarP3P2) states: 11,715 (4)
abstracting: (KdStarGStarPg<=Akt) states: 39,882,275 (7)
abstracting: (KdStarGP3<=KdStarGStarP3) states: 38,897,888 (7)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-9 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m25sec

checking: AG [[[KdStarGStar<=KdStar | 1<=KdStarGStarP3kStar] | [[3<=KdStarPgStarP2 | 1<=Enz] | [Pten<=DAGE & 2<=KdStarPgStar]]]]
normalized: ~ [E [true U ~ [[[[3<=KdStarPgStarP2 | 1<=Enz] | [Pten<=DAGE & 2<=KdStarPgStar]] | [KdStarGStar<=KdStar | 1<=KdStarGStarP3kStar]]]]]

abstracting: (1<=KdStarGStarP3kStar) states: 12,688,021 (7)
abstracting: (KdStarGStar<=KdStar) states: 33,967,947 (7)
abstracting: (2<=KdStarPgStar) states: 5,349,501 (6)
abstracting: (Pten<=DAGE) states: 155,442 (5)
abstracting: (1<=Enz) states: 42,727,493 (7)
abstracting: (3<=KdStarPgStarP2) states: 19,920 (4)
-> the formula is FALSE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-10 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m7sec

checking: EF [[[[1<=KdStarGStarPgP3 & 3<=KdStarPgStarP2] & [3<=KdStarGStarPgP3 | GStarPgP3<=GP3]] & AktP3<=DAG]]
normalized: E [true U [AktP3<=DAG & [[3<=KdStarGStarPgP3 | GStarPgP3<=GP3] & [1<=KdStarGStarPgP3 & 3<=KdStarPgStarP2]]]]

abstracting: (3<=KdStarPgStarP2) states: 19,920 (4)
abstracting: (1<=KdStarGStarPgP3) states: 4,166,196 (6)
abstracting: (GStarPgP3<=GP3) states: 35,803,614 (7)
abstracting: (3<=KdStarGStarPgP3) states: 15,826 (4)
abstracting: (AktP3<=DAG) states: 34,117,343 (7)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-11 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m35sec

checking: EF [[[[3<=KdStarGStarPgStarP2 | GP3<=GStarP3] | ~ [PtP3P2<=Pip3]] & [~ [KdStarGStarP3kStarP3P2<=DAG] & [2<=KdStar & KdStarGStarP3kStarP3P2<=Akt]]]]
normalized: E [true U [[[2<=KdStar & KdStarGStarP3kStarP3P2<=Akt] & ~ [KdStarGStarP3kStarP3P2<=DAG]] & [~ [PtP3P2<=Pip3] | [3<=KdStarGStarPgStarP2 | GP3<=GStarP3]]]]

abstracting: (GP3<=GStarP3) states: 35,418,847 (7)
abstracting: (3<=KdStarGStarPgStarP2) states: 15,826 (4)
abstracting: (PtP3P2<=Pip3) states: 39,910,167 (7)
abstracting: (KdStarGStarP3kStarP3P2<=DAG) states: 41,810,516 (7)
abstracting: (KdStarGStarP3kStarP3P2<=Akt) states: 42,528,199 (7)
abstracting: (2<=KdStar) states: 5,647,476 (6)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-12 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m38sec

checking: EF [2<=GP3]
normalized: E [true U 2<=GP3]

abstracting: (2<=GP3) states: 1,170,129 (6)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-13 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m0sec

checking: EF [2<=PtP3P2]
normalized: E [true U 2<=PtP3P2]

abstracting: (2<=PtP3P2) states: 100,991 (5)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m0sec

checking: EF [[KdStarGStarP3kStarP2<=KdStarGStarP3 & [[GP3<=Pg & 2<=AktStar] & ~ [2<=KdStarGStarP3]]]]
normalized: E [true U [KdStarGStarP3kStarP2<=KdStarGStarP3 & [[GP3<=Pg & 2<=AktStar] & ~ [2<=KdStarGStarP3]]]]

abstracting: (2<=KdStarGStarP3) states: 314,760 (5)
abstracting: (2<=AktStar) states: 27,444,286 (7)
abstracting: (GP3<=Pg) states: 41,855,646 (7)
abstracting: (KdStarGStarP3kStarP2<=KdStarGStarP3) states: 38,793,091 (7)
-> the formula is TRUE

FORMULA Angiogenesis-PT-05-ReachabilityCardinality-15 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m42sec


Total processing time: 14m25sec


BK_STOP 1433156468918

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

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: 0m0sec

2693 3141 4748 5865 5965
iterations count:5828 (91), effective:482 (7)

initing FirstDep: 0m0sec

7016 8209 8434
iterations count:3214 (50), effective:230 (3)
9068 8155
iterations count:2585 (40), effective:178 (2)
8966 7160
iterations count:2148 (33), effective:139 (2)
13698 5715
iterations count:2017 (31), effective:127 (1)
4420 6618 8283 10305
iterations count:4881 (76), effective:333 (5)
5391
iterations count:1096 (17), effective:62 (0)
8029
iterations count:1503 (23), effective:93 (1)
8319 7278 6650
iterations count:3422 (53), effective:228 (3)
9350 8046 6733
iterations count:3080 (48), effective:225 (3)
8124
iterations count:1848 (28), effective:130 (2)
6005 8827 5748
iterations count:3317 (51), effective:199 (3)
4391 5888
iterations count:2369 (37), effective:141 (2)
18296 8952
iterations count:2354 (36), effective:161 (2)
4432
iterations count:1538 (24), effective:93 (1)
5283 8128
iterations count:2923 (45), effective:181 (2)
6824
iterations count:1470 (22), effective:103 (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="S_Angiogenesis-PT-05"
export BK_EXAMINATION="ReachabilityCardinality"
export BK_TOOL="marcie"
export BK_RESULT_DIR="/users/gast00/fkordon/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-05.tgz
mv S_Angiogenesis-PT-05 execution

# this is for BenchKit: explicit launching of the test

cd execution
echo "====================================================================="
echo " Generated by BenchKit 2-2265"
echo " Executing tool marcie"
echo " Input is S_Angiogenesis-PT-05, examination is ReachabilityCardinality"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 1"
echo " Run identifier is r120st-ebro-143297419300035"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "ReachabilityCardinality" = "ReachabilityComputeBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "ReachabilityCardinality" != "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 "ReachabilityCardinality.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property ReachabilityCardinality.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "ReachabilityCardinality.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 '' ReachabilityCardinality.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 ;