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-C1000N0000000010, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r021-blw3-149440255300571
=====================================================================

--------------------
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-C1000N0000000010-CTLFireability-0
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-1
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-10
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-11
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-12
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-13
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-14
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-15
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-2
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-3
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-4
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-5
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-6
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-7
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-8
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1494465820931

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_C1000N0000000010
(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 1.223sec

parse successfull
net created successfully

Net: GPPP_PT_C1000N0000000010
(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 3.610sec


RS generation: 0m 0.389sec


-> reachability set: #nodes 19855 (2.0e+04) #states 14,184,612,091 (10)



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

checking: EF [AF [EF [IS_FIREABLE [Enolase]]]]
normalized: E [true U ~ [EG [~ [E [true U IS_FIREABLE [Enolase]]]]]]

.
EG iterations: 1
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.839sec

checking: AG [~ [~ [EF [IS_FIREABLE [G6P_dehydrogenase]]]]]
normalized: ~ [E [true U ~ [E [true U IS_FIREABLE [G6P_dehydrogenase]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.013sec

checking: AG [EX [AF [IS_FIREABLE [TIM_forward]]]]
normalized: ~ [E [true U ~ [EX [~ [EG [~ [IS_FIREABLE [TIM_forward]]]]]]]]

.........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 345
.-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m26.879sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.934sec

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

.........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 345
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.063sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.020sec

checking: ~ [AG [AG [~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]
normalized: E [true U E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.933sec

checking: EF [E [[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Transketolase2]] U IS_FIREABLE [Enolase]]]
normalized: E [true U E [[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Transketolase2]] U IS_FIREABLE [Enolase]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-6 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.687sec

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

...........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 347
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-10 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m27.755sec

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

.-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.096sec

checking: [E [EF [IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Enolase]] | E [AF [IS_FIREABLE [Glutathione_reductose]] U ~ [~ [IS_FIREABLE [Phosphoglycerate_kinase]]]]]
normalized: [E [~ [EG [~ [IS_FIREABLE [Glutathione_reductose]]]] U IS_FIREABLE [Phosphoglycerate_kinase]] | E [E [true U IS_FIREABLE [Glutathione_oxidation]] U IS_FIREABLE [Enolase]]]

........................................................................................................
EG iterations: 104
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-7 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m19.017sec

checking: A [E [IS_FIREABLE [remove] U IS_FIREABLE [Lactate_dehydrogenase]] U EF [[IS_FIREABLE [Transaldolase] & IS_FIREABLE [GAP_dehydrogenase]]]]
normalized: [~ [EG [~ [E [true U [IS_FIREABLE [Transaldolase] & IS_FIREABLE [GAP_dehydrogenase]]]]]] & ~ [E [~ [E [true U [IS_FIREABLE [Transaldolase] & IS_FIREABLE [GAP_dehydrogenase]]]] U [~ [E [IS_FIREABLE [remove] U IS_FIREABLE [Lactate_dehydrogenase]]] & ~ [E [true U [IS_FIREABLE [Transaldolase] & IS_FIREABLE [GAP_dehydrogenase]]]]]]]]


EG iterations: 0
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-8 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.628sec

checking: EF [E [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Phosphofructokinase]] U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Aldolase]]]]
normalized: E [true U E [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Phosphofructokinase]] U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Aldolase]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-12 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.961sec

checking: [~ [[EG [IS_FIREABLE [Glutathione_reductose]] | ~ [AX [IS_FIREABLE [Phosphoglycerate_kinase]]]]] | AG [[EG [IS_FIREABLE [Pyruvate_kinase]] | ~ [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [TIM_backward]]]]]]
normalized: [~ [E [true U ~ [[~ [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [TIM_backward]]] | EG [IS_FIREABLE [Pyruvate_kinase]]]]]] | ~ [[EX [~ [IS_FIREABLE [Phosphoglycerate_kinase]]] | EG [IS_FIREABLE [Glutathione_reductose]]]]]

........................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 376
...............................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 366
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m29.945sec

checking: ~ [A [[~ [IS_FIREABLE [GAP_dehydrogenase]] | [IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [generate]]] U [~ [IS_FIREABLE [Ru5P_epimerase]] & [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Pyruvate_kinase]]]]]
normalized: ~ [[~ [EG [~ [[[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Ru5P_epimerase]]]]]] & ~ [E [~ [[[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Ru5P_epimerase]]]] U [~ [[[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [generate]] | ~ [IS_FIREABLE [GAP_dehydrogenase]]]] & ~ [[[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Ru5P_epimerase]]]]]]]]]

...........................................................
EG iterations: 59
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-11 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.498sec

checking: [AX [[[IS_FIREABLE [Glutathione_oxidation] | [IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [TIM_backward]]] & IS_FIREABLE [G6P_dehydrogenase]]] | AF [[EF [IS_FIREABLE [Transketolase2]] | [IS_FIREABLE [Glutathione_oxidation] & [IS_FIREABLE [generate] | IS_FIREABLE [Hexokinase]]]]]]
normalized: [~ [EG [~ [[[IS_FIREABLE [Glutathione_oxidation] & [IS_FIREABLE [generate] | IS_FIREABLE [Hexokinase]]] | E [true U IS_FIREABLE [Transketolase2]]]]]] | ~ [EX [~ [[IS_FIREABLE [G6P_dehydrogenase] & [IS_FIREABLE [Glutathione_oxidation] | [IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [TIM_backward]]]]]]]]

..
EG iterations: 1
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-15 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.238sec

totally nodes used: 25625933 (2.6e+07)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 67427131 44620295 112047426
used/not used/entry size/cache size: 41316978 25791886 16 1024MB
basic ops cache: hits/miss/sum: 14504193 8728424 23232617
used/not used/entry size/cache size: 10816347 5960869 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: 40276 19855 60131
used/not used/entry size/cache size: 19855 8368753 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 46865938
1 16441024
2 3204211
3 485692
4 73629
5 14763
6 4827
7 3139
8 1623
9 1086
>= 10 12932

Total processing time: 2m 6.391sec


BK_STOP 1494465947543

--------------------
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:1727 (78), effective:414 (18)

initing FirstDep: 0m 0.000sec


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

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

iterations count:120 (5), effective:24 (1)

iterations count:1490 (67), effective:331 (15)

iterations count:396 (18), effective:75 (3)

iterations count:183 (8), effective:28 (1)

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

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

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

iterations count:53 (2), effective:7 (0)

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

iterations count:396 (18), effective:70 (3)

iterations count:170 (7), effective:25 (1)

iterations count:512 (23), effective:101 (4)

iterations count:127 (5), effective:22 (1)

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

iterations count:157 (7), effective:24 (1)

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

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

iterations count:105 (4), effective:13 (0)

iterations count:168 (7), effective:31 (1)

iterations count:243 (11), effective:44 (2)

iterations count:130 (5), effective:17 (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="GPPP-PT-C1000N0000000010"
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-C1000N0000000010.tgz
mv GPPP-PT-C1000N0000000010 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-C1000N0000000010, 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-blw3-149440255300571"
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 ;