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 2-2979
Executing tool marcie
Input is GPPP-PT-C0001N0000000010, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r221su-smll-146468027600445
=====================================================================

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

=== Now, execution of the tool begins

BK_START 1465033818140


Marcie rev. 8535M (built: crohr on 2016-04-27)
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 --mcc-mode --memory=6 --suppress

parse successfull
net created successfully

Net: GPPP_PT_C0001N0000000010
(NrP: 33 NrTr: 22 NrArc: 83)

net check time: 0m 0.000sec

parse formulas
formulas created successfully
place and transition orderings generation:0m 0.000sec

init dd package: 0m 3.998sec


RS generation: 0m 0.017sec


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



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

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

.
EG iterations: 1
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-0 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.004sec

checking: AG [AF [EF [IS_FIREABLE [Transketolase1]]]]
normalized: ~ [E [true U EG [~ [E [true U IS_FIREABLE [Transketolase1]]]]]]

.
EG iterations: 1
-> the formula is TRUE

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

MC time: 0m 0.013sec

checking: EX [EG [IS_FIREABLE [G6P_dehydrogenase]]]
normalized: EX [EG [IS_FIREABLE [G6P_dehydrogenase]]]

....................................................................
EG iterations: 68
.-> the formula is FALSE

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

MC time: 0m 0.033sec

checking: ~ [AF [EX [[IS_FIREABLE [TIM_forward] | IS_FIREABLE [generate]]]]]
normalized: EG [~ [EX [[IS_FIREABLE [TIM_forward] | IS_FIREABLE [generate]]]]]

.......................................................................................
EG iterations: 86
-> the formula is FALSE

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

MC time: 0m 0.067sec

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

.
EG iterations: 1
-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.003sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

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

...................................................................................................................................
EG iterations: 131
..................................................................................
EG iterations: 82
-> the formula is FALSE

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

MC time: 0m 0.143sec

checking: EF [A [~ [IS_FIREABLE [Transaldolase]] U IS_FIREABLE [Lactate_dehydrogenase]]]
normalized: E [true U [~ [EG [~ [IS_FIREABLE [Lactate_dehydrogenase]]]] & ~ [E [~ [IS_FIREABLE [Lactate_dehydrogenase]] U [IS_FIREABLE [Transaldolase] & ~ [IS_FIREABLE [Lactate_dehydrogenase]]]]]]]

.........................................................................
EG iterations: 73
-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.069sec

checking: EF [AG [[[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase1]] & ~ [IS_FIREABLE [generate]]]]]
normalized: E [true U ~ [E [true U ~ [[[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase1]] & ~ [IS_FIREABLE [generate]]]]]]]

-> the formula is FALSE

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

MC time: 0m 0.001sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.000sec

checking: [[IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Aldolase]] & EG [AG [IS_FIREABLE [Pyruvate_kinase]]]]
normalized: [EG [~ [E [true U ~ [IS_FIREABLE [Pyruvate_kinase]]]]] & [IS_FIREABLE [Phosphofructokinase] & IS_FIREABLE [Aldolase]]]

.
EG iterations: 1
-> the formula is FALSE

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

MC time: 0m 0.010sec

checking: AF [AX [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Transketolase1]] | [IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transaldolase]]]]]
normalized: ~ [EG [EX [~ [[[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [Transketolase1]] | [IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transaldolase]]]]]]]

...
EG iterations: 2
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-14 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.003sec

checking: [[EX [EF [IS_FIREABLE [Phosphoglycerate_mutase]]] & EF [EG [IS_FIREABLE [Transketolase2]]]] & ~ [[[IS_FIREABLE [Phosphoclucose_isomerase] | [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Aldolase]]] | ~ [EF [IS_FIREABLE [Hexokinase]]]]]]
normalized: [~ [[~ [E [true U IS_FIREABLE [Hexokinase]]] | [IS_FIREABLE [Phosphoclucose_isomerase] | [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Aldolase]]]]] & [E [true U EG [IS_FIREABLE [Transketolase2]]] & EX [E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]]]

.........................................................................
EG iterations: 72
-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.063sec

checking: E [[[IS_FIREABLE [TIM_backward] & [IS_FIREABLE [remove] & IS_FIREABLE [Ru5P_isomerase]]] & ~ [~ [IS_FIREABLE [Ru5P_isomerase]]]] U [AF [IS_FIREABLE [TIM_forward]] & ~ [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [TIM_backward]]]]]
normalized: E [[IS_FIREABLE [Ru5P_isomerase] & [IS_FIREABLE [TIM_backward] & [IS_FIREABLE [remove] & IS_FIREABLE [Ru5P_isomerase]]]] U [~ [[IS_FIREABLE [Ru5P_isomerase] | IS_FIREABLE [TIM_backward]]] & ~ [EG [~ [IS_FIREABLE [TIM_forward]]]]]]

...................................................................................................................................
EG iterations: 131
-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.003sec

checking: [[EX [~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [generate]]]] & [EG [~ [IS_FIREABLE [TIM_forward]]] | [EF [IS_FIREABLE [Aldolase]] & ~ [~ [IS_FIREABLE [Pyruvate_kinase]]]]]] | [[EF [[IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Glutathione_oxidation]]] | [EG [IS_FIREABLE [Aldolase]] & AX [IS_FIREABLE [Ru5P_epimerase]]]] & ~ [AX [[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Transketolase1]]]]]]
normalized: [[EX [~ [[IS_FIREABLE [Phosphofructokinase] | IS_FIREABLE [Transketolase1]]]] & [[~ [EX [~ [IS_FIREABLE [Ru5P_epimerase]]]] & EG [IS_FIREABLE [Aldolase]]] | E [true U [IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Glutathione_oxidation]]]]] | [[[IS_FIREABLE [Pyruvate_kinase] & E [true U IS_FIREABLE [Aldolase]]] | EG [~ [IS_FIREABLE [TIM_forward]]]] & EX [~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [generate]]]]]]

....................................................................................................................................
EG iterations: 131
.............................................................................
EG iterations: 77
..-> the formula is TRUE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-7 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.072sec

checking: EF [[[[[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphoclucose_isomerase]] & ~ [IS_FIREABLE [Enolase]]] & EG [IS_FIREABLE [TIM_forward]]] | [[[IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [remove]] & [IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Transaldolase]]] & [~ [IS_FIREABLE [remove]] & [IS_FIREABLE [Hexokinase] | IS_FIREABLE [G6P_dehydrogenase]]]]]]
normalized: E [true U [[[~ [IS_FIREABLE [remove]] & [IS_FIREABLE [Hexokinase] | IS_FIREABLE [G6P_dehydrogenase]]] & [[IS_FIREABLE [Phosphoglycerate_kinase] | IS_FIREABLE [Transaldolase]] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [remove]]]] | [EG [IS_FIREABLE [TIM_forward]] & [~ [IS_FIREABLE [Enolase]] & [IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Phosphoclucose_isomerase]]]]]]

..................................................................................
EG iterations: 82
-> the formula is FALSE

FORMULA GPPP-PT-C0001N0000000010-CTLFireability-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.039sec


Total processing time: 0m 5.933sec


BK_STOP 1465033824113

--------------------
content from stderr:

check for maximal unmarked siphon
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

1092
iterations count:1795 (81), effective:420 (19)

initing FirstDep: 0m 0.000sec


iterations count:29 (1), effective:1 (0)

iterations count:356 (16), effective:85 (3)

iterations count:61 (2), effective:3 (0)

iterations count:126 (5), effective:22 (1)

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

iterations count:35 (1), effective:3 (0)

iterations count:50 (2), effective:7 (0)

iterations count:210 (9), effective:50 (2)

iterations count:392 (17), effective:93 (4)

iterations count:343 (15), effective:82 (3)

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

iterations count:300 (13), effective:72 (3)

iterations count:452 (20), effective:108 (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="CTLFireability"
export BK_TOOL="marcie"
export BK_RESULT_DIR="/root/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 2-2979"
echo " Executing tool marcie"
echo " Input is GPPP-PT-C0001N0000000010, 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 r221su-smll-146468027600445"
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 ;