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-C0100N0000001000, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599100544
=====================================================================

--------------------
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-C0100N0000001000-CTLFireability-0
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-1
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-10
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-11
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-12
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-13
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-14
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-15
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-2
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-3
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-4
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-5
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-6
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-7
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-8
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1494883783678

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_C0100N0000001000
(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 1.071sec

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000001000
(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 3.688sec


RS generation: 4m52.986sec


-> reachability set: #nodes 713713 (7.1e+05) #states 20,292,531,036,711,574 (16)



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

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-10 CANNOT_COMPUTE

MC time: 1m 3.628sec

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


before gc: list nodes free: 70

after gc: idd nodes used:713735, unused:63286265; list nodes free:546806790
MC time: 3m36.191sec

checking: E [~ [~ [~ [IS_FIREABLE [TIM_backward]]]] U AG [~ [IS_FIREABLE [remove]]]]
normalized: E [~ [IS_FIREABLE [TIM_backward]] U ~ [E [true U IS_FIREABLE [remove]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000001000-CTLFireability-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m31.904sec

checking: ~ [~ [[~ [[IS_FIREABLE [Hexokinase] & ~ [IS_FIREABLE [TIM_backward]]]] & ~ [EF [IS_FIREABLE [Transketolase2]]]]]]
normalized: [~ [E [true U IS_FIREABLE [Transketolase2]]] & ~ [[IS_FIREABLE [Hexokinase] & ~ [IS_FIREABLE [TIM_backward]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000001000-CTLFireability-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m43.033sec

checking: AF [[[AF [IS_FIREABLE [Phosphofructokinase]] | EF [IS_FIREABLE [Phosphoglycerate_mutase]]] & ~ [EX [IS_FIREABLE [Aldolase]]]]]
normalized: ~ [EG [~ [[~ [EX [IS_FIREABLE [Aldolase]]] & [E [true U IS_FIREABLE [Phosphoglycerate_mutase]] | ~ [EG [~ [IS_FIREABLE [Phosphofructokinase]]]]]]]]]

.
before gc: list nodes free: 58285411

after gc: idd nodes used:2458362, unused:61541638; list nodes free:532302838
......................................................................................MC time: 3m47.141sec

checking: EF [[IS_FIREABLE [Transketolase2] & [AF [IS_FIREABLE [Transaldolase]] & EF [IS_FIREABLE [Lactate_dehydrogenase]]]]]
normalized: E [true U [IS_FIREABLE [Transketolase2] & [E [true U IS_FIREABLE [Lactate_dehydrogenase]] & ~ [EG [~ [IS_FIREABLE [Transaldolase]]]]]]]

.......................................................................................................MC time: 3m30.282sec

checking: [AF [AF [IS_FIREABLE [TIM_backward]]] | EG [[IS_FIREABLE [Phosphoclucose_isomerase] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Aldolase]]]]]
normalized: [EG [[IS_FIREABLE [Phosphoclucose_isomerase] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Aldolase]]]] | ~ [EG [EG [~ [IS_FIREABLE [TIM_backward]]]]]]

.....................................................................................................
FORMULA GPPP-PT-C0100N0000001000-CTLFireability-2 CANNOT_COMPUTE

MC time: 3m 6.492sec

checking: A [EF [IS_FIREABLE [Hexokinase]] U [[~ [IS_FIREABLE [Lactate_dehydrogenase]] & ~ [IS_FIREABLE [Phosphoglycerate_kinase]]] & EG [IS_FIREABLE [TIM_backward]]]]
normalized: [~ [EG [~ [[EG [IS_FIREABLE [TIM_backward]] & [~ [IS_FIREABLE [Phosphoglycerate_kinase]] & ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]]] & ~ [E [~ [[EG [IS_FIREABLE [TIM_backward]] & [~ [IS_FIREABLE [Phosphoglycerate_kinase]] & ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]] U [~ [E [true U IS_FIREABLE [Hexokinase]]] & ~ [[EG [IS_FIREABLE [TIM_backward]] & [~ [IS_FIREABLE [Phosphoglycerate_kinase]] & ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-8 CANNOT_COMPUTE

MC time: 0m 0.020sec

checking: EF [[[AX [IS_FIREABLE [Transketolase1]] | IS_FIREABLE [Pyruvate_kinase]] | [EG [IS_FIREABLE [Phosphofructokinase]] & AG [IS_FIREABLE [Transketolase2]]]]]
normalized: E [true U [[~ [E [true U ~ [IS_FIREABLE [Transketolase2]]]] & EG [IS_FIREABLE [Phosphofructokinase]]] | [IS_FIREABLE [Pyruvate_kinase] | ~ [EX [~ [IS_FIREABLE [Transketolase1]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-9 CANNOT_COMPUTE

MC time: 0m 0.011sec

checking: ~ [EF [[[IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [generate] | IS_FIREABLE [generate]]] & [IS_FIREABLE [Phosphofructokinase] | [IS_FIREABLE [Enolase] & IS_FIREABLE [Transketolase2]]]]]]
normalized: ~ [E [true U [[IS_FIREABLE [Phosphofructokinase] | [IS_FIREABLE [Enolase] & IS_FIREABLE [Transketolase2]]] & [IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [generate] | IS_FIREABLE [generate]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-0 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: A [~ [[[IS_FIREABLE [Enolase] & IS_FIREABLE [Hexokinase]] | [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Ru5P_isomerase]]]] U EF [[IS_FIREABLE [Transketolase2] & IS_FIREABLE [Lactate_dehydrogenase]]]]
normalized: [~ [EG [~ [E [true U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Lactate_dehydrogenase]]]]]] & ~ [E [~ [E [true U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Lactate_dehydrogenase]]]] U [[[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Ru5P_isomerase]] | [IS_FIREABLE [Enolase] & IS_FIREABLE [Hexokinase]]] & ~ [E [true U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-7 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: A [~ [~ [~ [IS_FIREABLE [TIM_backward]]]] U [[[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Transketolase2]] | [IS_FIREABLE [Transaldolase] | IS_FIREABLE [remove]]] | AG [IS_FIREABLE [Hexokinase]]]]
normalized: [~ [EG [~ [[~ [E [true U ~ [IS_FIREABLE [Hexokinase]]]] | [[IS_FIREABLE [Transaldolase] | IS_FIREABLE [remove]] | [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Transketolase2]]]]]]] & ~ [E [~ [[~ [E [true U ~ [IS_FIREABLE [Hexokinase]]]] | [[IS_FIREABLE [Transaldolase] | IS_FIREABLE [remove]] | [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Transketolase2]]]]] U [IS_FIREABLE [TIM_backward] & ~ [[~ [E [true U ~ [IS_FIREABLE [Hexokinase]]]] | [[IS_FIREABLE [Transaldolase] | IS_FIREABLE [remove]] | [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Transketolase2]]]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-14 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [[[~ [IS_FIREABLE [TIM_backward]] & [EF [IS_FIREABLE [Pyruvate_kinase]] & [~ [IS_FIREABLE [Pyruvate_kinase]] | [IS_FIREABLE [Transketolase1] & IS_FIREABLE [Transketolase1]]]]] | ~ [EF [[IS_FIREABLE [Transketolase1] & IS_FIREABLE [Hexokinase]]]]] | AF [~ [~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]
normalized: [~ [EG [~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Lactate_dehydrogenase]]]]] | [~ [E [true U [IS_FIREABLE [Transketolase1] & IS_FIREABLE [Hexokinase]]]] | [[[[IS_FIREABLE [Transketolase1] & IS_FIREABLE [Transketolase1]] | ~ [IS_FIREABLE [Pyruvate_kinase]]] & E [true U IS_FIREABLE [Pyruvate_kinase]]] & ~ [IS_FIREABLE [TIM_backward]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-4 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: EF [[[[IS_FIREABLE [remove] | ~ [IS_FIREABLE [Glutathione_reductose]]] | ~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [Phosphofructokinase]]]] & [[IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Phosphoglycerate_mutase]]] & [IS_FIREABLE [Phosphoglycerate_mutase] | ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]]
normalized: E [true U [[[IS_FIREABLE [Phosphoglycerate_mutase] | ~ [IS_FIREABLE [Phosphoglycerate_mutase]]] & [IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Phosphoglycerate_mutase]]]] & [~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [Phosphofructokinase]]] | [IS_FIREABLE [remove] | ~ [IS_FIREABLE [Glutathione_reductose]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-13 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [EF [[~ [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Glutathione_oxidation]]] & [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [GAP_dehydrogenase]]]]] | [[AF [IS_FIREABLE [Transaldolase]] & A [IS_FIREABLE [generate] U IS_FIREABLE [Glutathione_reductose]]] & IS_FIREABLE [Lactate_dehydrogenase]]]
normalized: [[IS_FIREABLE [Lactate_dehydrogenase] & [[~ [EG [~ [IS_FIREABLE [Glutathione_reductose]]]] & ~ [E [~ [IS_FIREABLE [Glutathione_reductose]] U [~ [IS_FIREABLE [generate]] & ~ [IS_FIREABLE [Glutathione_reductose]]]]]] & ~ [EG [~ [IS_FIREABLE [Transaldolase]]]]]] | E [true U [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [GAP_dehydrogenase]] & [IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Pyruvate_kinase]]] & ~ [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Glutathione_oxidation]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-15 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [[IS_FIREABLE [Glutathione_reductose] | AF [[[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [Ru5P_isomerase]] & [IS_FIREABLE [Aldolase] & IS_FIREABLE [TIM_backward]]]]] | [[~ [~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [TIM_forward]]]] | [[[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Enolase]] | [IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [GAP_dehydrogenase]]] & IS_FIREABLE [G6P_dehydrogenase]]] | [IS_FIREABLE [Transketolase2] | [EF [IS_FIREABLE [Enolase]] & ~ [IS_FIREABLE [Phosphofructokinase]]]]]]
normalized: [[[IS_FIREABLE [Transketolase2] | [~ [IS_FIREABLE [Phosphofructokinase]] & E [true U IS_FIREABLE [Enolase]]]] | [[IS_FIREABLE [G6P_dehydrogenase] & [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [GAP_dehydrogenase]] | [IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Enolase]]]] | [IS_FIREABLE [Enolase] & IS_FIREABLE [TIM_forward]]]] | [IS_FIREABLE [Glutathione_reductose] | ~ [EG [~ [[[IS_FIREABLE [Aldolase] & IS_FIREABLE [TIM_backward]] & [IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [Ru5P_isomerase]]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-3 CANNOT_COMPUTE

MC time: 0m 0.000sec

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-11 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: AF [[[AF [IS_FIREABLE [Phosphofructokinase]] | EF [IS_FIREABLE [Phosphoglycerate_mutase]]] & ~ [EX [IS_FIREABLE [Aldolase]]]]]
normalized: ~ [EG [~ [[~ [EX [IS_FIREABLE [Aldolase]]] & [E [true U IS_FIREABLE [Phosphoglycerate_mutase]] | ~ [EG [~ [IS_FIREABLE [Phosphofructokinase]]]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-6 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: EF [[IS_FIREABLE [Transketolase2] & [AF [IS_FIREABLE [Transaldolase]] & EF [IS_FIREABLE [Lactate_dehydrogenase]]]]]
normalized: E [true U [IS_FIREABLE [Transketolase2] & [E [true U IS_FIREABLE [Lactate_dehydrogenase]] & ~ [EG [~ [IS_FIREABLE [Transaldolase]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-12 CANNOT_COMPUTE

MC time: 0m 0.009sec

totally nodes used: 120674399 (1.2e+08)
number of garbage collections: 2
fire ops cache: hits/miss/sum: 1074284698 239121931 1313406629
used/not used/entry size/cache size: 46419308 20689556 16 1024MB
basic ops cache: hits/miss/sum: 311240546 92168812 403409358
used/not used/entry size/cache size: 11928167 4849049 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: 4311971 721170 5033141
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 41491016
1 18747025
2 5012096
3 1212132
4 370646
5 137774
6 64676
7 29061
8 14650
9 5888
>= 10 23900

Total processing time: 21m26.976sec


BK_STOP 1494885071039

--------------------
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:11921 (541), effective:2875 (130)

initing FirstDep: 0m 0.000sec

std::bad_alloc


sat_reach.icc:155: Timeout: after 215 sec


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

iterations count:130 (5), effective:17 (0)

net_ddint.h:596: Timeout: after 226 sec


net_ddint.h:596: Timeout: after 209 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

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-C0100N0000001000"
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-C0100N0000001000.tgz
mv S_GPPP-PT-C0100N0000001000 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-C0100N0000001000, 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-blw3-149441599100544"
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 ;