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-C0100N0000000100, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r101-blw3-149441599100540
=====================================================================

--------------------
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-C0100N0000000100-ReachabilityFireability-0
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-1
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-10
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-11
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-12
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-13
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-14
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-15
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-2
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-3
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-4
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-5
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-6
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-7
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-8
FORMULA_NAME GPPP-PT-C0100N0000000100-ReachabilityFireability-9

=== Now, execution of the tool begins

BK_START 1494883619818

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_C0100N0000000100
(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 1.185sec

parse successfull
net created successfully

Net: GPPP_PT_C0100N0000000100
(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 3.762sec


RS generation: 1m14.435sec


-> reachability set: #nodes 562750 (5.6e+05) #states 2,454,033,179,726,092 (15)



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

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

MC time: 3m40.628sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-2 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m20.542sec

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

MC time: 3m39.183sec

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

MC time: 3m24.550sec

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


FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-13 CANNOT_COMPUTE

MC time: 0m30.084sec

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


FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-15 CANNOT_COMPUTE

MC time: 0m 0.001sec

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


before gc: list nodes free: 175

after gc: idd nodes used:562772, unused:63437228; list nodes free:548042659
-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m10.513sec

checking: EF [[IS_FIREABLE [Phosphofructokinase] & ~ [IS_FIREABLE [Hexokinase]]]]
normalized: E [true U [IS_FIREABLE [Phosphofructokinase] & ~ [IS_FIREABLE [Hexokinase]]]]

MC time: 3m55.282sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.326sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m35.422sec

checking: EF [~ [[~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [Aldolase]]] | [[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Phosphoglycerate_mutase]] | IS_FIREABLE [TIM_backward]]]]]
normalized: E [true U ~ [[[IS_FIREABLE [TIM_backward] | [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Phosphoglycerate_mutase]]] | ~ [[IS_FIREABLE [Enolase] & IS_FIREABLE [Aldolase]]]]]]

MC time: 4m15.081sec

checking: AG [~ [[[IS_FIREABLE [Pyruvate_kinase] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Lactate_dehydrogenase]]] & [IS_FIREABLE [Phosphoglycerate_kinase] | [IS_FIREABLE [Hexokinase] | IS_FIREABLE [Glutathione_reductose]]]]]]
normalized: ~ [E [true U [[IS_FIREABLE [Phosphoglycerate_kinase] | [IS_FIREABLE [Hexokinase] | IS_FIREABLE [Glutathione_reductose]]] & [IS_FIREABLE [Pyruvate_kinase] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]


before gc: list nodes free: 4264718

after gc: idd nodes used:2221127, unused:61778873; list nodes free:524019652
MC time: 3m49.290sec

checking: AG [[[~ [[IS_FIREABLE [generate] & IS_FIREABLE [TIM_backward]]] & ~ [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Aldolase]]]] | [IS_FIREABLE [Transketolase1] & ~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Enolase]]]]]]
normalized: ~ [E [true U ~ [[[IS_FIREABLE [Transketolase1] & ~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Enolase]]]] | [~ [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Aldolase]]] & ~ [[IS_FIREABLE [generate] & IS_FIREABLE [TIM_backward]]]]]]]]

MC time: 3m26.033sec

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

MC time: 3m 5.218sec

checking: EF [[[[[IS_FIREABLE [Transketolase2] | IS_FIREABLE [Glutathione_oxidation]] & ~ [IS_FIREABLE [Phosphoglycerate_mutase]]] | ~ [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Glutathione_oxidation]]]] & [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [remove]] | [~ [IS_FIREABLE [Transaldolase]] & [IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]
normalized: E [true U [[[[IS_FIREABLE [Glutathione_oxidation] & IS_FIREABLE [Lactate_dehydrogenase]] & ~ [IS_FIREABLE [Transaldolase]]] | [IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [remove]]] & [~ [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Glutathione_oxidation]]] | [~ [IS_FIREABLE [Phosphoglycerate_mutase]] & [IS_FIREABLE [Transketolase2] | IS_FIREABLE [Glutathione_oxidation]]]]]]

MC time: 2m47.167sec

checking: EF [[[[~ [IS_FIREABLE [Enolase]] | [IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [generate]]] | IS_FIREABLE [Pyruvate_kinase]] & [[[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Enolase]] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [remove]]] & [[IS_FIREABLE [Transaldolase] & IS_FIREABLE [Phosphoclucose_isomerase]] & [IS_FIREABLE [Aldolase] & IS_FIREABLE [Aldolase]]]]]]
normalized: E [true U [[[[IS_FIREABLE [Aldolase] & IS_FIREABLE [Aldolase]] & [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Phosphoclucose_isomerase]]] & [[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [remove]] | [IS_FIREABLE [TIM_forward] & IS_FIREABLE [Enolase]]]] & [IS_FIREABLE [Pyruvate_kinase] | [[IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [generate]] | ~ [IS_FIREABLE [Enolase]]]]]]


FORMULA GPPP-PT-C0100N0000000100-ReachabilityFireability-11 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:11981 (544), effective:2887 (131)

initing FirstDep: 0m 0.001sec


sat_reach.icc:155: Timeout: after 219 sec


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

sat_reach.icc:155: Timeout: after 218 sec


sat_reach.icc:155: Timeout: after 203 sec

std::bad_alloc

std::bad_alloc


sat_reach.icc:155: Timeout: after 234 sec


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

sat_reach.icc:155: Timeout: after 254 sec


sat_reach.icc:155: Timeout: after 228 sec


sat_reach.icc:155: Timeout: after 205 sec


sat_reach.icc:155: Timeout: after 184 sec


sat_reach.icc:155: Timeout: after 166 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-C0100N0000000100"
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-C0100N0000000100.tgz
mv S_GPPP-PT-C0100N0000000100 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-C0100N0000000100, 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-blw3-149441599100540"
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 ;