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 GPPP-PT-C0100N0000000100, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r021-blw3-149440255300535
=====================================================================

--------------------
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 GPPP-PT-C0100N0000000100-CTLFireability-0
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-1
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-10
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-11
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-12
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-13
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-14
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-15
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-2
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-3
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-4
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-5
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-6
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-7
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-8
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1494464574508

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=CTLFireability.xml --memory=6

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000000100
(NrP: 33 NrTr: 22 NrArc: 83)

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

net check time: 0m 0.000sec

init dd package: 0m 1.241sec

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000000100
(NrP: 33 NrTr: 22 NrArc: 83)

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

net check time: 0m 0.000sec

init dd package: 0m 3.692sec


RS generation: 1m24.996sec


-> reachability set: #nodes 562750 (5.6e+05) #states 2,454,033,179,726,092 (15)



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

checking: AX [EF [AG [IS_FIREABLE [Ru5P_epimerase]]]]
normalized: ~ [EX [~ [E [true U ~ [E [true U ~ [IS_FIREABLE [Ru5P_epimerase]]]]]]]]

.-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000000100-CTLFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m14.712sec

checking: AF [EX [AF [IS_FIREABLE [TIM_forward]]]]
normalized: ~ [EG [~ [EX [~ [EG [~ [IS_FIREABLE [TIM_forward]]]]]]]]

....................................................................................................................................................MC time: 3m49.062sec

checking: ~ [~ [EF [EX [IS_FIREABLE [Pyruvate_kinase]]]]]
normalized: E [true U EX [IS_FIREABLE [Pyruvate_kinase]]]

.MC time: 3m34.288sec

checking: [EX [~ [AF [IS_FIREABLE [Phosphofructokinase]]]] | IS_FIREABLE [Transaldolase]]
normalized: [IS_FIREABLE [Transaldolase] | EX [EG [~ [IS_FIREABLE [Phosphofructokinase]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-0 CANNOT_COMPUTE

MC time: 0m 2.531sec

checking: ~ [EF [[AF [IS_FIREABLE [Pyruvate_kinase]] & IS_FIREABLE [Phosphoclucose_isomerase]]]]
normalized: ~ [E [true U [IS_FIREABLE [Phosphoclucose_isomerase] & ~ [EG [~ [IS_FIREABLE [Pyruvate_kinase]]]]]]]


before gc: list nodes free: 380

after gc: idd nodes used:562799, unused:63437201; list nodes free:548164839
.........................................................................................................................MC time: 3m34.084sec

checking: E [~ [IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Lactate_dehydrogenase]]
normalized: E [~ [IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Lactate_dehydrogenase]]

MC time: 3m19.136sec

checking: EF [[~ [EF [IS_FIREABLE [Enolase]]] & EF [IS_FIREABLE [remove]]]]
normalized: E [true U [E [true U IS_FIREABLE [remove]] & ~ [E [true U IS_FIREABLE [Enolase]]]]]

MC time: 3m 4.079sec

checking: AF [EG [~ [[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [TIM_forward]]]]]
normalized: ~ [EG [~ [EG [~ [[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [TIM_forward]]]]]]]

...................................................................................................
FORMULA GPPP-PT-C0100N0000000100-CTLFireability-13 CANNOT_COMPUTE

MC time: 2m20.731sec

checking: EG [~ [[IS_FIREABLE [Phosphoglycerate_kinase] | EG [IS_FIREABLE [TIM_backward]]]]]
normalized: EG [~ [[IS_FIREABLE [Phosphoglycerate_kinase] | EG [IS_FIREABLE [TIM_backward]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-15 CANNOT_COMPUTE

MC time: 0m 0.001sec

checking: AF [A [[IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Phosphoglycerate_kinase]] U IS_FIREABLE [Phosphofructokinase]]]
normalized: ~ [EG [~ [[~ [EG [~ [IS_FIREABLE [Phosphofructokinase]]]] & ~ [E [~ [IS_FIREABLE [Phosphofructokinase]] U [~ [[IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Phosphoglycerate_kinase]]] & ~ [IS_FIREABLE [Phosphofructokinase]]]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-12 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: AG [[AX [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Lactate_dehydrogenase]]] | [EF [IS_FIREABLE [TIM_backward]] | IS_FIREABLE [Transaldolase]]]]
normalized: ~ [E [true U ~ [[[IS_FIREABLE [Transaldolase] | E [true U IS_FIREABLE [TIM_backward]]] | ~ [EX [~ [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-11 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [AG [~ [[IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [Hexokinase] & IS_FIREABLE [GAP_dehydrogenase]]]]] | AX [EF [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Ru5P_isomerase]]]]]
normalized: [~ [EX [~ [E [true U [IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Ru5P_isomerase]]]]]] | ~ [E [true U [IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [Hexokinase] & IS_FIREABLE [GAP_dehydrogenase]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-10 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [[AG [~ [~ [IS_FIREABLE [Lactate_dehydrogenase]]]] & [EX [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [TIM_backward]]] & AF [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Enolase]]]]] | ~ [EF [IS_FIREABLE [Transketolase2]]]]
normalized: [~ [E [true U IS_FIREABLE [Transketolase2]]] | [[~ [EG [~ [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Enolase]]]]] & EX [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [TIM_backward]]]] & ~ [E [true U ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-1 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [~ [[~ [[[IS_FIREABLE [Transaldolase] & IS_FIREABLE [Enolase]] | ~ [IS_FIREABLE [Glutathione_oxidation]]]] | EF [[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]]]]] & ~ [AG [EX [IS_FIREABLE [remove]]]]]
normalized: [E [true U ~ [EX [IS_FIREABLE [remove]]]] & ~ [[E [true U [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]]] | ~ [[~ [IS_FIREABLE [Glutathione_oxidation]] | [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Enolase]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-9 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: AX [[EG [~ [IS_FIREABLE [Phosphofructokinase]]] | [[~ [IS_FIREABLE [Phosphoglycerate_mutase]] & [IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Phosphoglycerate_kinase]]] | [IS_FIREABLE [Transaldolase] | [IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Enolase]]]]]]
normalized: ~ [EX [~ [[[[IS_FIREABLE [Transaldolase] | [IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Enolase]]] | [[IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Phosphoglycerate_kinase]] & ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]] | EG [~ [IS_FIREABLE [Phosphofructokinase]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-3 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [[[IS_FIREABLE [Transaldolase] & [[[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]] & IS_FIREABLE [Transaldolase]] | [~ [IS_FIREABLE [Phosphoglycerate_kinase]] | [IS_FIREABLE [Enolase] | IS_FIREABLE [Transaldolase]]]]] | [[~ [IS_FIREABLE [Ru5P_isomerase]] | IS_FIREABLE [Phosphoclucose_isomerase]] & AG [~ [IS_FIREABLE [remove]]]]] | [~ [[~ [[IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Phosphoglycerate_kinase]]] | ~ [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphofructokinase]]]]] & ~ [IS_FIREABLE [Transketolase1]]]]
normalized: [[~ [IS_FIREABLE [Transketolase1]] & ~ [[~ [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphofructokinase]]] | ~ [[IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]] | [[~ [E [true U IS_FIREABLE [remove]]] & [IS_FIREABLE [Phosphoclucose_isomerase] | ~ [IS_FIREABLE [Ru5P_isomerase]]]] | [IS_FIREABLE [Transaldolase] & [[[IS_FIREABLE [Enolase] | IS_FIREABLE [Transaldolase]] | ~ [IS_FIREABLE [Phosphoglycerate_kinase]]] | [IS_FIREABLE [Transaldolase] & [IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-7 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: AF [EX [AF [IS_FIREABLE [TIM_forward]]]]
normalized: ~ [EG [~ [EX [~ [EG [~ [IS_FIREABLE [TIM_forward]]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-6 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: ~ [~ [EF [EX [IS_FIREABLE [Pyruvate_kinase]]]]]
normalized: E [true U EX [IS_FIREABLE [Pyruvate_kinase]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-14 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: ~ [EF [[AF [IS_FIREABLE [Pyruvate_kinase]] & IS_FIREABLE [Phosphoclucose_isomerase]]]]
normalized: ~ [E [true U [IS_FIREABLE [Phosphoclucose_isomerase] & ~ [EG [~ [IS_FIREABLE [Pyruvate_kinase]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-2 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: E [~ [IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Lactate_dehydrogenase]]
normalized: E [~ [IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Lactate_dehydrogenase]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-5 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: EF [[~ [EF [IS_FIREABLE [Enolase]]] & EF [IS_FIREABLE [remove]]]]
normalized: E [true U [E [true U IS_FIREABLE [remove]] & ~ [E [true U IS_FIREABLE [Enolase]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-8 CANNOT_COMPUTE

MC time: 0m 0.000sec

totally nodes used: 91899011 (9.2e+07)
number of garbage collections: 1
fire ops cache: hits/miss/sum: 1281769470 276142454 1557911924
used/not used/entry size/cache size: 60360890 6747974 16 1024MB
basic ops cache: hits/miss/sum: 343622649 59613373 403236022
used/not used/entry size/cache size: 15763641 1013575 12 192MB
unary ops cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 16777216 8 128MB
abstract ops cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 16777216 12 192MB
state nr cache: hits/miss/sum: 3968761 570551 4539312
used/not used/entry size/cache size: 0 8388608 32 256MB
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 36793330
1 20953831
2 6795290
3 1697112
4 493784
5 185237
6 64047
7 54531
8 32335
9 17018
>= 10 22349

Total processing time: 22m41.738sec


BK_STOP 1494465936666

--------------------
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

ptnet_zbdd.cc:255: Boundedness exception: net is not 1-bounded!

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:11981 (544), effective:2887 (131)

initing FirstDep: 0m 0.001sec


iterations count:622 (28), effective:200 (9)

net_ddint.h:596: Timeout: after 228 sec


sat_reach.icc:155: Timeout: after 213 sec

std::bad_alloc


net_ddint.h:596: Timeout: after 213 sec


sat_reach.icc:155: Timeout: after 198 sec


sat_reach.icc:155: Timeout: after 183 sec

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

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="GPPP-PT-C0100N0000000100"
export BK_EXAMINATION="CTLFireability"
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/GPPP-PT-C0100N0000000100.tgz
mv GPPP-PT-C0100N0000000100 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 GPPP-PT-C0100N0000000100, examination is CTLFireability"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 1"
echo " Run identifier is r021-blw3-149440255300535"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "CTLFireability" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "CTLFireability" != "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 "CTLFireability.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property CTLFireability.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "CTLFireability.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 '' CTLFireability.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 ;