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_GPPP-PT-C0001N0000000100, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599100526
=====================================================================

--------------------
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-C0001N0000000100-CTLFireability-0
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-1
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-10
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-11
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-12
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-13
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-14
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-15
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-2
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-3
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-4
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-5
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-6
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-7
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-8
FORMULA_NAME GPPP-PT-C0001N0000000100-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1494883519725

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_C0001N0000000100
(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 1.254sec

parse successfull
net created successfully

Net: GPPP_PT_C0001N0000000100
(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 3.578sec


RS generation: 0m 0.158sec


-> reachability set: #nodes 1358 (1.4e+03) #states 145,476,966 (8)



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

checking: EF [AX [AX [IS_FIREABLE [Transketolase1]]]]
normalized: E [true U ~ [EX [EX [~ [IS_FIREABLE [Transketolase1]]]]]]

..-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.020sec

checking: EF [IS_FIREABLE [Lactate_dehydrogenase]]
normalized: E [true U IS_FIREABLE [Lactate_dehydrogenase]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.043sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-12 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.020sec

checking: EF [EG [AG [IS_FIREABLE [Hexokinase]]]]
normalized: E [true U EG [~ [E [true U ~ [IS_FIREABLE [Hexokinase]]]]]]

.
EG iterations: 1
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-14 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.009sec

checking: ~ [AG [EF [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]
normalized: E [true U ~ [E [true U [IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-7 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.005sec

checking: EG [[AF [IS_FIREABLE [Aldolase]] | IS_FIREABLE [generate]]]
normalized: EG [[~ [EG [~ [IS_FIREABLE [Aldolase]]]] | IS_FIREABLE [generate]]]

...............................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 527
................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 528
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 6.826sec

checking: [EF [IS_FIREABLE [remove]] | AG [EX [[IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [remove]]]]]
normalized: [~ [E [true U ~ [EX [[IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [remove]]]]]] | E [true U IS_FIREABLE [remove]]]

.-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.154sec

checking: EG [[~ [~ [~ [IS_FIREABLE [TIM_forward]]]] | E [IS_FIREABLE [Aldolase] U IS_FIREABLE [Phosphoclucose_isomerase]]]]
normalized: EG [[E [IS_FIREABLE [Aldolase] U IS_FIREABLE [Phosphoclucose_isomerase]] | ~ [IS_FIREABLE [TIM_forward]]]]

.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 581
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.302sec

checking: AG [E [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]] U ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]
normalized: ~ [E [true U ~ [E [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]] U ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-10 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.036sec

checking: E [AX [~ [IS_FIREABLE [Glutathione_reductose]]] U EX [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Lactate_dehydrogenase]]]]
normalized: E [~ [EX [IS_FIREABLE [Glutathione_reductose]]] U EX [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Lactate_dehydrogenase]]]]

..-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.049sec

checking: EF [[[AG [IS_FIREABLE [Phosphoglycerate_mutase]] & EG [IS_FIREABLE [Ru5P_epimerase]]] & AX [[IS_FIREABLE [Glutathione_reductose] | IS_FIREABLE [generate]]]]]
normalized: E [true U [~ [EX [~ [[IS_FIREABLE [Glutathione_reductose] | IS_FIREABLE [generate]]]]] & [EG [IS_FIREABLE [Ru5P_epimerase]] & ~ [E [true U ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]]]

..........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 522
.-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-0 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.744sec

checking: EF [AG [[[IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [Transketolase1] & IS_FIREABLE [Enolase]]]]]
normalized: E [true U ~ [E [true U ~ [[[IS_FIREABLE [Transketolase1] & IS_FIREABLE [Enolase]] & [IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Pyruvate_kinase]]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.003sec

checking: AF [E [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Hexokinase]] U [IS_FIREABLE [TIM_backward] | IS_FIREABLE [Transketolase1]]]]
normalized: ~ [EG [~ [E [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Hexokinase]] U [IS_FIREABLE [TIM_backward] | IS_FIREABLE [Transketolase1]]]]]]

.................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 561
-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.531sec

checking: ~ [AF [[[~ [IS_FIREABLE [Phosphoclucose_isomerase]] | [IS_FIREABLE [Glutathione_reductose] | IS_FIREABLE [Transaldolase]]] & EF [IS_FIREABLE [remove]]]]]
normalized: EG [~ [[E [true U IS_FIREABLE [remove]] & [[IS_FIREABLE [Glutathione_reductose] | IS_FIREABLE [Transaldolase]] | ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]]]]

.........................................................................................................
EG iterations: 105
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.045sec

checking: [[A [IS_FIREABLE [G6P_dehydrogenase] U [IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Phosphofructokinase]]] & [~ [AX [IS_FIREABLE [Ru5P_epimerase]]] | IS_FIREABLE [Phosphofructokinase]]] | E [[[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Phosphoclucose_isomerase]] | ~ [IS_FIREABLE [remove]]] U EX [IS_FIREABLE [Pyruvate_kinase]]]]
normalized: [E [[~ [IS_FIREABLE [remove]] | [IS_FIREABLE [Transketolase1] | IS_FIREABLE [Phosphoclucose_isomerase]]] U EX [IS_FIREABLE [Pyruvate_kinase]]] | [[IS_FIREABLE [Phosphofructokinase] | EX [~ [IS_FIREABLE [Ru5P_epimerase]]]] & [~ [EG [~ [[IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Phosphofructokinase]]]]] & ~ [E [~ [[IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Phosphofructokinase]]] U [~ [IS_FIREABLE [G6P_dehydrogenase]] & ~ [[IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Phosphofructokinase]]]]]]]]]

........................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 536
..-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.309sec

checking: [[[IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Aldolase]] & ~ [E [IS_FIREABLE [TIM_forward] U IS_FIREABLE [Phosphofructokinase]]]] | [~ [EF [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphoglycerate_kinase]]]] & E [[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [TIM_forward]] U ~ [IS_FIREABLE [Pyruvate_kinase]]]]]
normalized: [[E [[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [TIM_forward]] U ~ [IS_FIREABLE [Pyruvate_kinase]]] & ~ [E [true U [IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]] | [~ [E [IS_FIREABLE [TIM_forward] U IS_FIREABLE [Phosphofructokinase]]] & [IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Aldolase]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000100-CTLFireability-8 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.055sec

totally nodes used: 6035406 (6.0e+06)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 19098753 8042856 27141609
used/not used/entry size/cache size: 12051405 55057459 16 1024MB
basic ops cache: hits/miss/sum: 3249143 962847 4211990
used/not used/entry size/cache size: 2089522 14687694 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: 838 1358 2196
used/not used/entry size/cache size: 1358 8387250 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 61387318
1 5467563
2 243680
3 8489
4 769
5 208
6 188
7 68
8 21
9 84
>= 10 476

Total processing time: 0m26.382sec


BK_STOP 1494883546229

--------------------
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:15790 (717), effective:3705 (168)

initing FirstDep: 0m 0.000sec


iterations count:168 (7), effective:32 (1)

iterations count:50 (2), effective:7 (0)

iterations count:22 (1), effective:0 (0)

iterations count:42 (1), effective:4 (0)

iterations count:22 (1), effective:0 (0)

iterations count:359 (16), effective:85 (3)

iterations count:1023 (46), effective:501 (22)

iterations count:22 (1), effective:0 (0)

iterations count:28 (1), effective:6 (0)

iterations count:192 (8), effective:38 (1)

iterations count:87 (3), effective:15 (0)

iterations count:29 (1), effective:7 (0)

iterations count:22 (1), effective:0 (0)

iterations count:53 (2), effective:5 (0)

iterations count:359 (16), effective:85 (3)

iterations count:61 (2), effective:3 (0)

iterations count:158 (7), effective:29 (1)

iterations count:105 (4), effective:19 (0)

iterations count:42 (1), effective:5 (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_GPPP-PT-C0001N0000000100"
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/S_GPPP-PT-C0001N0000000100.tgz
mv S_GPPP-PT-C0001N0000000100 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_GPPP-PT-C0001N0000000100, 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 r101-blw3-149441599100526"
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 ;