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-C0001N0000000010, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r021-blw3-149440255300522
=====================================================================

--------------------
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-C0001N0000000010-ReachabilityFireability-0
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-1
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-10
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-11
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-12
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-13
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-14
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-15
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-2
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-3
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-4
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-5
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-6
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-7
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-8
FORMULA_NAME GPPP-PT-C0001N0000000010-ReachabilityFireability-9

=== Now, execution of the tool begins

BK_START 1494464514692

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_C0001N0000000010
(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 1.187sec

parse successfull
net created successfully

Net: GPPP_PT_C0001N0000000010
(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 4.072sec


RS generation: 0m 0.023sec


-> reachability set: #nodes 1088 (1.1e+03) #states 1,655,346 (6)



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

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.024sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-9 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.017sec

checking: EF [[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Ru5P_epimerase]]]
normalized: E [true U [IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [Ru5P_epimerase]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: EF [[IS_FIREABLE [Transketolase1] & IS_FIREABLE [Enolase]]]
normalized: E [true U [IS_FIREABLE [Transketolase1] & IS_FIREABLE [Enolase]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: EF [~ [~ [[[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Glutathione_reductose]] & IS_FIREABLE [Enolase]]]]]
normalized: E [true U [[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Glutathione_reductose]] & IS_FIREABLE [Enolase]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.031sec

checking: EF [~ [~ [[[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [TIM_forward]] & ~ [IS_FIREABLE [TIM_forward]]]]]]
normalized: E [true U [~ [IS_FIREABLE [TIM_forward]] & [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [TIM_forward]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.029sec

checking: AG [~ [[[IS_FIREABLE [generate] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [GAP_dehydrogenase]]] & IS_FIREABLE [Ru5P_isomerase]]]]
normalized: ~ [E [true U [IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [generate] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [GAP_dehydrogenase]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.016sec

checking: EF [[[IS_FIREABLE [Hexokinase] | [IS_FIREABLE [generate] | ~ [IS_FIREABLE [Glutathione_reductose]]]] & IS_FIREABLE [remove]]]
normalized: E [true U [[[~ [IS_FIREABLE [Glutathione_reductose]] | IS_FIREABLE [generate]] | IS_FIREABLE [Hexokinase]] & IS_FIREABLE [remove]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-15 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.007sec

checking: EF [[IS_FIREABLE [Phosphofructokinase] & [[[IS_FIREABLE [remove] & IS_FIREABLE [TIM_forward]] | ~ [IS_FIREABLE [Transketolase1]]] & IS_FIREABLE [Phosphoclucose_isomerase]]]]
normalized: E [true U [[[~ [IS_FIREABLE [Transketolase1]] | [IS_FIREABLE [remove] & IS_FIREABLE [TIM_forward]]] & IS_FIREABLE [Phosphoclucose_isomerase]] & IS_FIREABLE [Phosphofructokinase]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-12 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-8 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: EF [[IS_FIREABLE [Pyruvate_kinase] & [[~ [IS_FIREABLE [Phosphoglycerate_kinase]] | IS_FIREABLE [generate]] & [IS_FIREABLE [Phosphofructokinase] & [IS_FIREABLE [Transaldolase] | IS_FIREABLE [Ru5P_epimerase]]]]]]
normalized: E [true U [[[[IS_FIREABLE [Transaldolase] | IS_FIREABLE [Ru5P_epimerase]] & IS_FIREABLE [Phosphofructokinase]] & [~ [IS_FIREABLE [Phosphoglycerate_kinase]] | IS_FIREABLE [generate]]] & IS_FIREABLE [Pyruvate_kinase]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-11 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.016sec

checking: EF [[[IS_FIREABLE [Hexokinase] & [[IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [G6P_dehydrogenase]] & [IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Phosphoglycerate_kinase]]]] & IS_FIREABLE [Ru5P_isomerase]]]
normalized: E [true U [[[[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Phosphoglycerate_kinase]] & [IS_FIREABLE [G6P_dehydrogenase] & IS_FIREABLE [G6P_dehydrogenase]]] & IS_FIREABLE [Hexokinase]] & IS_FIREABLE [Ru5P_isomerase]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: EF [[[[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [TIM_backward]] & IS_FIREABLE [Transketolase2]] & [[[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Aldolase]] & [IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]]] | IS_FIREABLE [Glutathione_reductose]]]]
normalized: E [true U [[[[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]] & [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Aldolase]]] | IS_FIREABLE [Glutathione_reductose]] & [IS_FIREABLE [Transketolase2] & [IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [TIM_backward]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: EF [[[[[IS_FIREABLE [remove] & IS_FIREABLE [Phosphoclucose_isomerase]] & [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Pyruvate_kinase]]] | [[IS_FIREABLE [Transketolase2] & IS_FIREABLE [Phosphofructokinase]] & ~ [IS_FIREABLE [Ru5P_isomerase]]]] & [[IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_epimerase]] | [[IS_FIREABLE [Transketolase2] & IS_FIREABLE [generate]] & ~ [IS_FIREABLE [generate]]]]]]
normalized: E [true U [[[~ [IS_FIREABLE [generate]] & [IS_FIREABLE [Transketolase2] & IS_FIREABLE [generate]]] | [IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_epimerase]]] & [[~ [IS_FIREABLE [Ru5P_isomerase]] & [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Phosphofructokinase]]] | [[IS_FIREABLE [Transaldolase] & IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [remove] & IS_FIREABLE [Phosphoclucose_isomerase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-ReachabilityFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

totally nodes used: 40458 (4.0e+04)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 145243 147360 292603
used/not used/entry size/cache size: 177141 66931723 16 1024MB
basic ops cache: hits/miss/sum: 30878 47863 78741
used/not used/entry size/cache size: 91102 16686114 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: 568 1088 1656
used/not used/entry size/cache size: 1088 8387520 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 67070048
1 38388
2 300
3 45
4 19
5 5
6 28
7 3
8 2
9 2
>= 10 24

Total processing time: 0m 7.356sec


BK_STOP 1494464522158

--------------------
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:1795 (81), effective:420 (19)

initing FirstDep: 0m 0.000sec


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

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

iterations count:424 (19), effective:99 (4)

iterations count:244 (11), effective:55 (2)

iterations count:278 (12), effective:72 (3)

iterations count:601 (27), effective:119 (5)

iterations count:436 (19), effective:103 (4)

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-C0001N0000000010"
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/GPPP-PT-C0001N0000000010.tgz
mv GPPP-PT-C0001N0000000010 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-C0001N0000000010, 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 r021-blw3-149440255300522"
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 ;