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-C1000N0000000010, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599100576
=====================================================================

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

=== Now, execution of the tool begins

BK_START 1494884833728

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_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 1.220sec

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 3.840sec


RS generation: 0m 0.307sec


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



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

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.040sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.880sec

checking: EF [IS_FIREABLE [Transketolase2]]
normalized: E [true U IS_FIREABLE [Transketolase2]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.312sec

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

-> the formula is TRUE

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

MC time: 0m 1.036sec

checking: AG [[IS_FIREABLE [Glutathione_oxidation] | ~ [~ [~ [IS_FIREABLE [Transketolase2]]]]]]
normalized: ~ [E [true U ~ [[IS_FIREABLE [Glutathione_oxidation] | ~ [IS_FIREABLE [Transketolase2]]]]]]

-> the formula is FALSE

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

MC time: 0m 0.027sec

checking: AG [~ [~ [~ [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Enolase]]]]]]
normalized: ~ [E [true U [IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Enolase]]]]

-> the formula is TRUE

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

MC time: 0m 0.001sec

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

-> the formula is TRUE

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

MC time: 0m 0.025sec

checking: AG [[IS_FIREABLE [Phosphofructokinase] | ~ [[~ [IS_FIREABLE [Transaldolase]] & IS_FIREABLE [Phosphoglycerate_mutase]]]]]
normalized: ~ [E [true U ~ [[IS_FIREABLE [Phosphofructokinase] | ~ [[IS_FIREABLE [Phosphoglycerate_mutase] & ~ [IS_FIREABLE [Transaldolase]]]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-0 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.470sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-12 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.799sec

checking: EF [~ [~ [[[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Hexokinase]]]]]]
normalized: E [true U [[IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Hexokinase]] & [IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [Pyruvate_kinase]]]]

-> the formula is TRUE

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

MC time: 0m 1.173sec

checking: AG [[[IS_FIREABLE [Phosphoglycerate_mutase] & [IS_FIREABLE [TIM_forward] & ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]] | ~ [[~ [IS_FIREABLE [GAP_dehydrogenase]] & IS_FIREABLE [Enolase]]]]]
normalized: ~ [E [true U ~ [[~ [[IS_FIREABLE [Enolase] & ~ [IS_FIREABLE [GAP_dehydrogenase]]]] | [IS_FIREABLE [Phosphoglycerate_mutase] & [IS_FIREABLE [TIM_forward] & ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]]]]]]

-> the formula is FALSE

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

MC time: 0m 0.426sec

checking: EF [[[[~ [IS_FIREABLE [G6P_dehydrogenase]] & IS_FIREABLE [Pyruvate_kinase]] | [[IS_FIREABLE [Aldolase] | IS_FIREABLE [Ru5P_epimerase]] | ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]] & ~ [~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]
normalized: E [true U [IS_FIREABLE [Lactate_dehydrogenase] & [[~ [IS_FIREABLE [Phosphoclucose_isomerase]] | [IS_FIREABLE [Aldolase] | IS_FIREABLE [Ru5P_epimerase]]] | [IS_FIREABLE [Pyruvate_kinase] & ~ [IS_FIREABLE [G6P_dehydrogenase]]]]]]

-> the formula is TRUE

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

MC time: 0m 0.905sec

checking: EF [[IS_FIREABLE [Phosphoglycerate_mutase] | [[IS_FIREABLE [Phosphoglycerate_kinase] & [IS_FIREABLE [Transaldolase] & IS_FIREABLE [TIM_backward]]] & [IS_FIREABLE [Aldolase] & ~ [IS_FIREABLE [Glutathione_oxidation]]]]]]
normalized: E [true U [IS_FIREABLE [Phosphoglycerate_mutase] | [[IS_FIREABLE [Aldolase] & ~ [IS_FIREABLE [Glutathione_oxidation]]] & [IS_FIREABLE [Phosphoglycerate_kinase] & [IS_FIREABLE [Transaldolase] & IS_FIREABLE [TIM_backward]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.034sec

checking: EF [[[[[IS_FIREABLE [Enolase] & IS_FIREABLE [Phosphoglycerate_kinase]] | [IS_FIREABLE [Hexokinase] & IS_FIREABLE [G6P_dehydrogenase]]] & ~ [[IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [Phosphofructokinase]]]] & IS_FIREABLE [GAP_dehydrogenase]]]
normalized: E [true U [IS_FIREABLE [GAP_dehydrogenase] & [~ [[IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [Phosphofructokinase]]] & [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [G6P_dehydrogenase]] | [IS_FIREABLE [Enolase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.617sec

checking: EF [[[[[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Aldolase]] | [IS_FIREABLE [Transketolase1] | IS_FIREABLE [TIM_backward]]] & [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [G6P_dehydrogenase]] & [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]]]] & ~ [IS_FIREABLE [Transaldolase]]]]
normalized: E [true U [~ [IS_FIREABLE [Transaldolase]] & [[[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]] & [IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [G6P_dehydrogenase]]] & [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [TIM_backward]] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Aldolase]]]]]]

-> the formula is TRUE

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

MC time: 0m 1.562sec

checking: EF [[[[~ [IS_FIREABLE [generate]] | [IS_FIREABLE [generate] | IS_FIREABLE [Lactate_dehydrogenase]]] & [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Phosphoclucose_isomerase]] & [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [TIM_forward]]]] & [[[IS_FIREABLE [generate] & IS_FIREABLE [Transaldolase]] | IS_FIREABLE [Hexokinase]] & IS_FIREABLE [Ru5P_isomerase]]]]
normalized: E [true U [[IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [Hexokinase] | [IS_FIREABLE [generate] & IS_FIREABLE [Transaldolase]]]] & [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [TIM_forward]] & [IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Phosphoclucose_isomerase]]] & [[IS_FIREABLE [generate] | IS_FIREABLE [Lactate_dehydrogenase]] | ~ [IS_FIREABLE [generate]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-ReachabilityFireability-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.032sec

totally nodes used: 2245252 (2.2e+06)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 15203804 9954247 25158051
used/not used/entry size/cache size: 10786198 56322666 16 1024MB
basic ops cache: hits/miss/sum: 3313202 2628859 5942061
used/not used/entry size/cache size: 3505838 13271378 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 65035921
1 1966567
2 84723
3 5762
4 7107
5 3401
6 1875
7 1845
8 301
9 302
>= 10 1060

Total processing time: 0m23.463sec


BK_STOP 1494884857305

--------------------
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 0.001sec


iterations count:1727 (78), effective:414 (18)

initing FirstDep: 0m 0.000sec


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

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

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

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

iterations count:150 (6), effective:27 (1)

iterations count:405 (18), effective:72 (3)

iterations count:374 (17), effective:76 (3)

iterations count:359 (16), effective:77 (3)

iterations count:238 (10), effective:39 (1)

iterations count:187 (8), effective:29 (1)

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

iterations count:563 (25), effective:121 (5)

iterations count:254 (11), effective:51 (2)

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-C1000N0000000010"
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-C1000N0000000010.tgz
mv S_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 S_GPPP-PT-C1000N0000000010, 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-blw3-149441599100576"
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 ;