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-C1000N0000000100, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599200585
=====================================================================

--------------------
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-C1000N0000000100-ReachabilityFireability-0
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-1
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-10
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-11
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-12
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-13
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-14
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-15
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-2
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-3
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-4
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-5
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-6
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-7
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-8
FORMULA_NAME GPPP-PT-C1000N0000000100-ReachabilityFireability-9

=== Now, execution of the tool begins

BK_START 1494884925886

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=ReachabilityFireability.xml --memory=6

parse successfull
net created successfully

Net: GPPP_PT_C1000N0000000100
(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 1.099sec

parse successfull
net created successfully

Net: GPPP_PT_C1000N0000000100
(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 3.644sec


RS generation: 1m17.205sec


-> reachability set: #nodes 561475 (5.6e+05) #states 1,140,616,996,412,371 (15)



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

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

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.090sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-8 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m 4.169sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m50.570sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-12 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.574sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.268sec

checking: EF [~ [[~ [~ [IS_FIREABLE [TIM_backward]]] | ~ [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [GAP_dehydrogenase]]]]]]
normalized: E [true U ~ [[IS_FIREABLE [TIM_backward] | ~ [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [GAP_dehydrogenase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.793sec

checking: EF [~ [[~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [TIM_forward]]] | [~ [IS_FIREABLE [Lactate_dehydrogenase]] & IS_FIREABLE [Ru5P_isomerase]]]]]
normalized: E [true U ~ [[[IS_FIREABLE [Ru5P_isomerase] & ~ [IS_FIREABLE [Lactate_dehydrogenase]]] | ~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [TIM_forward]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m 6.145sec

checking: EF [[~ [IS_FIREABLE [Ru5P_isomerase]] & [[~ [IS_FIREABLE [TIM_backward]] | ~ [IS_FIREABLE [Phosphofructokinase]]] & IS_FIREABLE [Pyruvate_kinase]]]]
normalized: E [true U [[IS_FIREABLE [Pyruvate_kinase] & [~ [IS_FIREABLE [Phosphofructokinase]] | ~ [IS_FIREABLE [TIM_backward]]]] & ~ [IS_FIREABLE [Ru5P_isomerase]]]]


before gc: list nodes free: 1540121

after gc: idd nodes used:1456970, unused:62543030; list nodes free:460618384
MC time: 6m11.024sec

checking: EF [~ [[~ [IS_FIREABLE [Phosphoglycerate_mutase]] | [~ [IS_FIREABLE [Phosphoclucose_isomerase]] | [IS_FIREABLE [generate] & IS_FIREABLE [TIM_backward]]]]]]
normalized: E [true U ~ [[[[IS_FIREABLE [generate] & IS_FIREABLE [TIM_backward]] | ~ [IS_FIREABLE [Phosphoclucose_isomerase]]] | ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 5.554sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m 1.542sec

checking: EF [~ [[[[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Pyruvate_kinase]] & IS_FIREABLE [Glutathione_oxidation]] | ~ [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Glutathione_reductose]]]]]]
normalized: E [true U ~ [[~ [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Glutathione_reductose]]] | [IS_FIREABLE [Glutathione_oxidation] & [IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Pyruvate_kinase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 5.525sec

checking: EF [~ [[[~ [IS_FIREABLE [TIM_backward]] | ~ [IS_FIREABLE [remove]]] | [[IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Glutathione_oxidation]] | IS_FIREABLE [Pyruvate_kinase]]]]]
normalized: E [true U ~ [[[IS_FIREABLE [Pyruvate_kinase] | [IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Glutathione_oxidation]]] | [~ [IS_FIREABLE [remove]] | ~ [IS_FIREABLE [TIM_backward]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-14 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 8.330sec

checking: EF [[~ [IS_FIREABLE [Transketolase1]] & [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [generate]] | [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Transaldolase]]] & IS_FIREABLE [Pyruvate_kinase]]]]
normalized: E [true U [[IS_FIREABLE [Pyruvate_kinase] & [[IS_FIREABLE [Transaldolase] & IS_FIREABLE [Transaldolase]] | [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [generate]]]] & ~ [IS_FIREABLE [Transketolase1]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-0 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.865sec

checking: AG [[~ [[~ [IS_FIREABLE [Enolase]] & IS_FIREABLE [Lactate_dehydrogenase]]] & [[~ [IS_FIREABLE [Lactate_dehydrogenase]] | ~ [IS_FIREABLE [Hexokinase]]] & ~ [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Enolase]]]]]]
normalized: ~ [E [true U ~ [[[~ [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Enolase]]] & [~ [IS_FIREABLE [Hexokinase]] | ~ [IS_FIREABLE [Lactate_dehydrogenase]]]] & ~ [[IS_FIREABLE [Lactate_dehydrogenase] & ~ [IS_FIREABLE [Enolase]]]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m52.396sec

checking: AG [~ [[[~ [IS_FIREABLE [Hexokinase]] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Glutathione_reductose]]] & [IS_FIREABLE [Pyruvate_kinase] | [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Lactate_dehydrogenase]]]]]]
normalized: ~ [E [true U [[IS_FIREABLE [Pyruvate_kinase] | [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Lactate_dehydrogenase]]] & [[IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Glutathione_reductose]] & ~ [IS_FIREABLE [Hexokinase]]]]]]


FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-10 CANNOT_COMPUTE

MC time: 1m 5.961sec

checking: EF [[[IS_FIREABLE [GAP_dehydrogenase] & ~ [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Phosphoglycerate_kinase]]]] & [IS_FIREABLE [Ru5P_epimerase] & [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Ru5P_epimerase]] & IS_FIREABLE [Ru5P_isomerase]]]]]
normalized: E [true U [[IS_FIREABLE [Ru5P_epimerase] & [IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Ru5P_epimerase]]]] & [IS_FIREABLE [GAP_dehydrogenase] & ~ [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]]


before gc: list nodes free: 563

after gc: idd nodes used:561498, unused:63438502; list nodes free:547351880
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m19.575sec

checking: EF [[~ [IS_FIREABLE [Ru5P_isomerase]] & [[~ [IS_FIREABLE [TIM_backward]] | ~ [IS_FIREABLE [Phosphofructokinase]]] & IS_FIREABLE [Pyruvate_kinase]]]]
normalized: E [true U [[IS_FIREABLE [Pyruvate_kinase] & [~ [IS_FIREABLE [Phosphofructokinase]] | ~ [IS_FIREABLE [TIM_backward]]]] & ~ [IS_FIREABLE [Ru5P_isomerase]]]]


before gc: list nodes free: 1505

after gc: idd nodes used:1445836, unused:62554164; list nodes free:534878319
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000100-ReachabilityFireability-7 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 8m59.159sec

totally nodes used: 187041813 (1.9e+08)
number of garbage collections: 3
fire ops cache: hits/miss/sum: 2002668217 832612068 2835280285
used/not used/entry size/cache size: 28082727 39026137 16 1024MB
basic ops cache: hits/miss/sum: 532582979 205845520 738428499
used/not used/entry size/cache size: 6316831 10460385 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: 3559404 567811 4127215
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 61364747
1 5225328
2 341085
3 19692
4 73961
5 41594
6 3518
7 35793
8 3027
9 117
>= 10 2

Total processing time: 24m25.048sec


BK_STOP 1494886391310

--------------------
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:12167 (553), effective:2934 (133)

initing FirstDep: 0m 0.000sec


iterations count:186 (8), effective:28 (1)

iterations count:185 (8), effective:28 (1)

iterations count:185 (8), effective:28 (1)

iterations count:205 (9), effective:33 (1)

sat_reach.icc:155: Timeout: after 370 sec


iterations count:194 (8), effective:33 (1)

iterations count:204 (9), effective:37 (1)
std::bad_alloc


iterations count:2192 (99), effective:430 (19)

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-C1000N0000000100"
export BK_EXAMINATION="ReachabilityFireability"
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-C1000N0000000100.tgz
mv S_GPPP-PT-C1000N0000000100 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-C1000N0000000100, examination is ReachabilityFireability"
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-blw3-149441599200585"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "ReachabilityFireability" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "ReachabilityFireability" != "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 "ReachabilityFireability.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property ReachabilityFireability.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "ReachabilityFireability.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 '' ReachabilityFireability.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 ;