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-C0100N0000010000, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r021-blw3-149440255300553
=====================================================================

--------------------
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-C0100N0000010000-CTLFireability-0
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-1
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-10
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-11
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-12
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-13
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-14
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-15
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-2
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-3
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-4
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-5
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-6
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-7
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-8
FORMULA_NAME GPPP-PT-C0100N0000010000-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1494465335770

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_C0100N0000010000
(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 1.217sec

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000010000
(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 3.766sec


RS generation: 5m 3.541sec


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



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

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


FORMULA GPPP-PT-C0100N0000010000-CTLFireability-0 CANNOT_COMPUTE

MC time: 1m 2.822sec

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


FORMULA GPPP-PT-C0100N0000010000-CTLFireability-12 CANNOT_COMPUTE

MC time: 0m 0.088sec

checking: ~ [[IS_FIREABLE [Transketolase1] | ~ [~ [AF [IS_FIREABLE [TIM_backward]]]]]]
normalized: ~ [[IS_FIREABLE [Transketolase1] | ~ [EG [~ [IS_FIREABLE [TIM_backward]]]]]]


FORMULA GPPP-PT-C0100N0000010000-CTLFireability-1 CANNOT_COMPUTE

MC time: 0m 0.013sec

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


FORMULA GPPP-PT-C0100N0000010000-CTLFireability-10 CANNOT_COMPUTE

MC time: 0m 0.014sec

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


before gc: list nodes free: 2

after gc: idd nodes used:713734, unused:63286266; list nodes free:546873569
-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000010000-CTLFireability-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m55.897sec

checking: EF [AX [[[IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_isomerase]] & IS_FIREABLE [Transketolase1]]]]
normalized: E [true U ~ [EX [~ [[IS_FIREABLE [Transketolase1] & [IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_isomerase]]]]]]]

.MC time: 4m49.327sec

checking: [AF [E [IS_FIREABLE [Phosphoglycerate_kinase] U IS_FIREABLE [Phosphofructokinase]]] | IS_FIREABLE [Glutathione_reductose]]
normalized: [IS_FIREABLE [Glutathione_reductose] | ~ [EG [~ [E [IS_FIREABLE [Phosphoglycerate_kinase] U IS_FIREABLE [Phosphofructokinase]]]]]]

MC time: 4m23.869sec

checking: EF [EX [[[IS_FIREABLE [Transketolase2] & IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Transketolase1]]]]]
normalized: E [true U EX [[~ [IS_FIREABLE [Transketolase1]] & [IS_FIREABLE [Transketolase2] & IS_FIREABLE [Pyruvate_kinase]]]]]

.
before gc: list nodes free: 21655652

after gc: idd nodes used:1734915, unused:62265085; list nodes free:538453478
MC time: 3m58.668sec

checking: EG [EF [[[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]] & IS_FIREABLE [Hexokinase]]]]
normalized: EG [E [true U [IS_FIREABLE [Hexokinase] & [IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]]]]]

MC time: 3m37.188sec

checking: ~ [EF [[EX [IS_FIREABLE [Pyruvate_kinase]] & [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Transketolase2]] & [IS_FIREABLE [Aldolase] | IS_FIREABLE [Phosphoglucose_isomerase]]]]]]
normalized: ~ [E [true U [[[IS_FIREABLE [Aldolase] | IS_FIREABLE [Phosphoglucose_isomerase]] & [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Transketolase2]]] & EX [IS_FIREABLE [Pyruvate_kinase]]]]]


before gc: list nodes free: 41770163

after gc: idd nodes used:1904350, unused:62095650; list nodes free:534165623
.MC time: 3m17.554sec

checking: [AF [[IS_FIREABLE [Ru5P_isomerase] | [IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Glutathione_oxidation]]]]] | AF [IS_FIREABLE [Phosphofructokinase]]]
normalized: [~ [EG [~ [IS_FIREABLE [Phosphofructokinase]]]] | ~ [EG [~ [[IS_FIREABLE [Ru5P_isomerase] | [IS_FIREABLE [Pyruvate_kinase] & [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Glutathione_oxidation]]]]]]]]

..................................................................MC time: 2m59.085sec

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


FORMULA GPPP-PT-C0100N0000010000-CTLFireability-4 CANNOT_COMPUTE

MC time: 0m16.368sec

checking: ~ [[[[IS_FIREABLE [Transketolase2] | EF [IS_FIREABLE [remove]]] & [~ [[IS_FIREABLE [Phosphoglucose_isomerase] & IS_FIREABLE [Aldolase]]] | AF [IS_FIREABLE [Lactate_dehydrogenase]]]] | [A [IS_FIREABLE [Phosphoglucose_isomerase] U IS_FIREABLE [Enolase]] & IS_FIREABLE [TIM_forward]]]]
normalized: ~ [[[IS_FIREABLE [TIM_forward] & [~ [EG [~ [IS_FIREABLE [Enolase]]]] & ~ [E [~ [IS_FIREABLE [Enolase]] U [~ [IS_FIREABLE [Phosphoglucose_isomerase]] & ~ [IS_FIREABLE [Enolase]]]]]]] | [[~ [EG [~ [IS_FIREABLE [Lactate_dehydrogenase]]]] | ~ [[IS_FIREABLE [Phosphoglucose_isomerase] & IS_FIREABLE [Aldolase]]]] & [IS_FIREABLE [Transketolase2] | E [true U IS_FIREABLE [remove]]]]]]


before gc: list nodes free: 1069

after gc: idd nodes used:713762, unused:63286238; list nodes free:547062041
....................................................................MC time: 2m57.189sec

checking: E [EF [IS_FIREABLE [generate]] U [[[IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]] & [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Pyruvate_kinase]]] | [[IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [G6P_dehydrogenase]] & [IS_FIREABLE [Transketolase1] | IS_FIREABLE [Glutathione_reductose]]]]]
normalized: E [E [true U IS_FIREABLE [generate]] U [[[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Glutathione_reductose]] & [IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [G6P_dehydrogenase]]] | [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000010000-CTLFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m 9.268sec

checking: [[EF [AG [IS_FIREABLE [Aldolase]]] | AG [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Pyruvate_kinase]] | ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]] | [AG [[[IS_FIREABLE [Transketolase1] & IS_FIREABLE [TIM_forward]] & [IS_FIREABLE [TIM_backward] | IS_FIREABLE [Phosphoglycerate_kinase]]]] | IS_FIREABLE [Transaldolase]]]
normalized: [[IS_FIREABLE [Transaldolase] | ~ [E [true U ~ [[[IS_FIREABLE [TIM_backward] | IS_FIREABLE [Phosphoglycerate_kinase]] & [IS_FIREABLE [Transketolase1] & IS_FIREABLE [TIM_forward]]]]]]] | [~ [E [true U ~ [[~ [IS_FIREABLE [Lactate_dehydrogenase]] | [IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Pyruvate_kinase]]]]]] | E [true U ~ [E [true U ~ [IS_FIREABLE [Aldolase]]]]]]]

MC time: 2m50.498sec

checking: ~ [[AF [[[IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Phosphofructokinase]] | [IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Phosphoglycerate_mutase]]]] | [[IS_FIREABLE [Hexokinase] | [IS_FIREABLE [generate] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [G6P_dehydrogenase]]]] | AG [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Phosphoglycerate_mutase]]]]]]
normalized: ~ [[[~ [E [true U ~ [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Phosphoglycerate_mutase]]]]] | [IS_FIREABLE [Hexokinase] | [IS_FIREABLE [generate] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [G6P_dehydrogenase]]]]] | ~ [EG [~ [[[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Phosphoglycerate_mutase]] | [IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Phosphofructokinase]]]]]]]]

.........................
before gc: list nodes free: 2581

after gc: idd nodes used:2725019, unused:61274981; list nodes free:530012390
..................MC time: 2m31.086sec

checking: EF [AX [[[IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_isomerase]] & IS_FIREABLE [Transketolase1]]]]
normalized: E [true U ~ [EX [~ [[IS_FIREABLE [Transketolase1] & [IS_FIREABLE [Enolase] & IS_FIREABLE [Ru5P_isomerase]]]]]]]

.
BK_TIME_CONFINEMENT_REACHED

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

initing FirstDep: 0m 0.000sec

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc


iterations count:42 (1), effective:10 (0)

sat_reach.icc:155: Timeout: after 288 sec


sat_reach.icc:155: Timeout: after 261 sec


sat_reach.icc:155: Timeout: after 237 sec


sat_reach.icc:155: Timeout: after 216 sec


sat_reach.icc:155: Timeout: after 196 sec


net_ddint.h:596: Timeout: after 178 sec

std::bad_alloc


net_ddint.h:596: Timeout: after 176 sec


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

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

iterations count:38 (1), effective:4 (0)

sat_reach.icc:155: Timeout: after 169 sec


net_ddint.h:596: Timeout: after 150 sec


iterations count:11920 (541), effective:2876 (130)

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-C0100N0000010000"
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-C0100N0000010000.tgz
mv GPPP-PT-C0100N0000010000 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-C0100N0000010000, 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-blw3-149440255300553"
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 ;