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-C0100N0000100000, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599100567
=====================================================================

--------------------
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-C0100N0000100000-ReachabilityFireability-0
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-1
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-10
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-11
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-12
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-13
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-14
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-15
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-2
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-3
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-4
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-5
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-6
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-7
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-8
FORMULA_NAME GPPP-PT-C0100N0000100000-ReachabilityFireability-9

=== Now, execution of the tool begins

BK_START 1494884758806

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_C0100N0000100000
(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 1.111sec

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000100000
(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 3.895sec


RS generation: 4m55.884sec


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



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

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

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-1 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.620sec

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


before gc: list nodes free: 768

after gc: idd nodes used:1782660, unused:62217340; list nodes free:535924704
MC time: 3m40.575sec

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


before gc: list nodes free: 52453949

after gc: idd nodes used:1712309, unused:62287691; list nodes free:537317056
MC time: 3m25.039sec

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

MC time: 3m12.393sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-15 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.465sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.847sec

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

MC time: 3m26.576sec

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


before gc: list nodes free: 22943270

after gc: idd nodes used:1757353, unused:62242647; list nodes free:537875172
MC time: 3m10.741sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 8.150sec

checking: EF [[~ [[IS_FIREABLE [Glutathione_reductose] | ~ [IS_FIREABLE [Transketolase2]]]] & IS_FIREABLE [Lactate_dehydrogenase]]]
normalized: E [true U [IS_FIREABLE [Lactate_dehydrogenase] & ~ [[IS_FIREABLE [Glutathione_reductose] | ~ [IS_FIREABLE [Transketolase2]]]]]]

MC time: 3m10.040sec

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

MC time: 2m54.374sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m41.593sec

checking: EF [[[~ [IS_FIREABLE [Enolase]] | [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Transaldolase]] | ~ [IS_FIREABLE [Aldolase]]]] & IS_FIREABLE [Enolase]]]
normalized: E [true U [IS_FIREABLE [Enolase] & [[~ [IS_FIREABLE [Aldolase]] | [IS_FIREABLE [TIM_forward] & IS_FIREABLE [Transaldolase]]] | ~ [IS_FIREABLE [Enolase]]]]]


before gc: list nodes free: 14266074

after gc: idd nodes used:2333244, unused:61666756; list nodes free:534184965
MC time: 2m50.359sec

checking: AG [~ [[[[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_reductose]] & [IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [remove]]] & [~ [IS_FIREABLE [Enolase]] | ~ [IS_FIREABLE [TIM_backward]]]]]]
normalized: ~ [E [true U [[~ [IS_FIREABLE [TIM_backward]] | ~ [IS_FIREABLE [Enolase]]] & [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [remove]] & [IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_reductose]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-6 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 9.601sec

checking: EF [[[[IS_FIREABLE [generate] & IS_FIREABLE [Phosphoglycerate_mutase]] & [~ [IS_FIREABLE [G6P_dehydrogenase]] | [IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [Phosphofructokinase]]]] & [[IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_epimerase]] & IS_FIREABLE [Glutathione_oxidation]]]]
normalized: E [true U [[IS_FIREABLE [Glutathione_oxidation] & [IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_epimerase]]] & [[[IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [Phosphofructokinase]] | ~ [IS_FIREABLE [G6P_dehydrogenase]]] & [IS_FIREABLE [generate] & IS_FIREABLE [Phosphoglycerate_mutase]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m15.189sec

checking: AG [[[[IS_FIREABLE [generate] & [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Ru5P_isomerase]]] | [[IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]] | IS_FIREABLE [Enolase]]] | [[~ [IS_FIREABLE [Phosphoglycerate_mutase]] & [IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]]] | [[IS_FIREABLE [generate] | IS_FIREABLE [Ru5P_epimerase]] | IS_FIREABLE [G6P_dehydrogenase]]]]]
normalized: ~ [E [true U ~ [[[[IS_FIREABLE [G6P_dehydrogenase] | [IS_FIREABLE [generate] | IS_FIREABLE [Ru5P_epimerase]]] | [[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]] | [[IS_FIREABLE [Enolase] | [IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]]] | [IS_FIREABLE [generate] & [IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Ru5P_isomerase]]]]]]]]

MC time: 3m 6.092sec

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


FORMULA GPPP-PT-C0100N0000100000-ReachabilityFireability-9 CANNOT_COMPUTE


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 0.000sec


iterations count:11921 (541), effective:2875 (130)

initing FirstDep: 0m 0.001sec


sat_reach.icc:155: Timeout: after 219 sec


sat_reach.icc:155: Timeout: after 204 sec


sat_reach.icc:155: Timeout: after 191 sec


sat_reach.icc:155: Timeout: after 205 sec


sat_reach.icc:155: Timeout: after 189 sec


sat_reach.icc:155: Timeout: after 189 sec


sat_reach.icc:155: Timeout: after 173 sec


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

sat_reach.icc:155: Timeout: after 169 sec


sat_reach.icc:155: Timeout: after 185 sec

std::bad_alloc

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-C0100N0000100000"
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-C0100N0000100000.tgz
mv S_GPPP-PT-C0100N0000100000 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-C0100N0000100000, 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-blw3-149441599100567"
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 ;