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-C1000N0000000010, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r221su-smll-146468027900562
=====================================================================

--------------------
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-C1000N0000000010-CTLFireability-0
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-1
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-10
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-11
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-12
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-13
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-14
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-15
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-2
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-3
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-4
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-5
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-6
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-7
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-8
FORMULA_NAME GPPP-PT-C1000N0000000010-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1465059469740


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_C1000N0000000010
(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 4.289sec


RS generation: 0m 0.229sec


-> reachability set: #nodes 19855 (2.0e+04) #states 14,184,612,091 (10)



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

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-5 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.772sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-7 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.645sec

checking: AX [IS_FIREABLE [GAP_dehydrogenase]]
normalized: ~ [EX [~ [IS_FIREABLE [GAP_dehydrogenase]]]]

.-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.151sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.140sec

checking: EF [AG [~ [[IS_FIREABLE [TIM_backward] | IS_FIREABLE [Hexokinase]]]]]
normalized: E [true U ~ [E [true U [IS_FIREABLE [TIM_backward] | IS_FIREABLE [Hexokinase]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.899sec

checking: EG [A [~ [IS_FIREABLE [Transketolase2]] U ~ [IS_FIREABLE [TIM_backward]]]]
normalized: EG [[~ [EG [IS_FIREABLE [TIM_backward]]] & ~ [E [IS_FIREABLE [TIM_backward] U [IS_FIREABLE [Transketolase2] & IS_FIREABLE [TIM_backward]]]]]]

.......................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 359
....................................................................................................................................................................................................................................................................................................................................................
EG iterations: 340
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-6 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m29.024sec

checking: EX [~ [[EF [IS_FIREABLE [generate]] & EF [IS_FIREABLE [Phosphoglycerate_mutase]]]]]
normalized: EX [~ [[E [true U IS_FIREABLE [Phosphoglycerate_mutase]] & E [true U IS_FIREABLE [generate]]]]]

.-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-8 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.662sec

checking: EG [~ [A [IS_FIREABLE [Glutathione_reductose] U IS_FIREABLE [TIM_forward]]]]
normalized: EG [~ [[~ [EG [~ [IS_FIREABLE [TIM_forward]]]] & ~ [E [~ [IS_FIREABLE [TIM_forward]] U [~ [IS_FIREABLE [Glutathione_reductose]] & ~ [IS_FIREABLE [TIM_forward]]]]]]]]

.........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 345
.........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 345
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m13.638sec

checking: A [EG [IS_FIREABLE [generate]] U AG [~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]
normalized: [~ [EG [E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]] & ~ [E [E [true U IS_FIREABLE [Phosphoglycerate_mutase]] U [~ [EG [IS_FIREABLE [generate]]] & E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]]]]

..
EG iterations: 2
...............................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 367
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-12 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m11.736sec

checking: ~ [A [AX [IS_FIREABLE [remove]] U EF [IS_FIREABLE [Phosphoglycerate_mutase]]]]
normalized: ~ [[~ [EG [~ [E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]]] & ~ [E [~ [E [true U IS_FIREABLE [Phosphoglycerate_mutase]]] U [EX [~ [IS_FIREABLE [remove]]] & ~ [E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]]]]]]

..
EG iterations: 1
-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.188sec

checking: [EF [EG [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_reductose]]]] & ~ [AF [AG [IS_FIREABLE [Ru5P_epimerase]]]]]
normalized: [EG [E [true U ~ [IS_FIREABLE [Ru5P_epimerase]]]] & E [true U EG [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_reductose]]]]]

...................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 371

EG iterations: 0
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-11 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m13.269sec

checking: ~ [EG [[~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [TIM_forward]]] & [~ [IS_FIREABLE [Transketolase1]] & ~ [IS_FIREABLE [Ru5P_epimerase]]]]]]
normalized: ~ [EG [[[~ [IS_FIREABLE [Transketolase1]] & ~ [IS_FIREABLE [Ru5P_epimerase]]] & ~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [TIM_forward]]]]]]

...............................................................................................................................................................................................................................................
EG iterations: 239
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.127sec

checking: EF [[EG [[IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [Enolase]]] & AX [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [Transketolase2]]]]]
normalized: E [true U [~ [EX [~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [Transketolase2]]]]] & EG [[IS_FIREABLE [G6P_dehydrogenase] | IS_FIREABLE [Enolase]]]]]

...................................................................................................................................................................................................................................................................................................................................................................................
EG iterations: 371
.-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m25.528sec

checking: EF [AX [[[IS_FIREABLE [generate] | IS_FIREABLE [Phosphoglycerate_kinase]] & [IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Glutathione_oxidation]]]]]
normalized: E [true U ~ [EX [~ [[[IS_FIREABLE [generate] | IS_FIREABLE [Phosphoglycerate_kinase]] & [IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Glutathione_oxidation]]]]]]]

.-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.916sec

checking: E [~ [[[IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [generate]] | IS_FIREABLE [Glutathione_oxidation]]] U A [IS_FIREABLE [Transketolase1] U IS_FIREABLE [Pyruvate_kinase]]]
normalized: E [~ [[IS_FIREABLE [Glutathione_oxidation] | [IS_FIREABLE [Phosphoclucose_isomerase] & IS_FIREABLE [generate]]]] U [~ [EG [~ [IS_FIREABLE [Pyruvate_kinase]]]] & ~ [E [~ [IS_FIREABLE [Pyruvate_kinase]] U [~ [IS_FIREABLE [Pyruvate_kinase]] & ~ [IS_FIREABLE [Transketolase1]]]]]]]

........................................................................................................................................................................................................................................................................................................................................................
EG iterations: 344
-> the formula is TRUE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m17.700sec

checking: [EF [[[[IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [Phosphoglycerate_mutase]] & [IS_FIREABLE [Hexokinase] & IS_FIREABLE [Enolase]]] | ~ [IS_FIREABLE [G6P_dehydrogenase]]]] & [[[~ [~ [IS_FIREABLE [TIM_backward]]] | [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Pyruvate_kinase]] | [IS_FIREABLE [Transketolase1] | IS_FIREABLE [Transaldolase]]]] | AG [~ [IS_FIREABLE [Enolase]]]] | [~ [AG [IS_FIREABLE [Aldolase]]] & [IS_FIREABLE [Transaldolase] | [~ [IS_FIREABLE [Phosphoglycerate_kinase]] & IS_FIREABLE [Phosphofructokinase]]]]]]
normalized: [[[[IS_FIREABLE [Transaldolase] | [IS_FIREABLE [Phosphofructokinase] & ~ [IS_FIREABLE [Phosphoglycerate_kinase]]]] & E [true U ~ [IS_FIREABLE [Aldolase]]]] | [~ [E [true U IS_FIREABLE [Enolase]]] | [IS_FIREABLE [TIM_backward] | [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Transaldolase]] | [IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Pyruvate_kinase]]]]]] & E [true U [~ [IS_FIREABLE [G6P_dehydrogenase]] | [[IS_FIREABLE [Hexokinase] & IS_FIREABLE [Enolase]] & [IS_FIREABLE [Glutathione_oxidation] | IS_FIREABLE [Phosphoglycerate_mutase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C1000N0000000010-CTLFireability-14 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.851sec


Total processing time: 2m13.530sec


BK_STOP 1465059603465

--------------------
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

12422
iterations count:1727 (78), effective:414 (18)

initing FirstDep: 0m 0.000sec


iterations count:183 (8), effective:28 (1)

iterations count:185 (8), effective:28 (1)

iterations count:163 (7), effective:47 (2)

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

iterations count:103 (4), effective:14 (0)

iterations count:569 (25), effective:116 (5)

iterations count:109 (4), effective:14 (0)

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

iterations count:186 (8), effective:28 (1)

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

iterations count:186 (8), effective:28 (1)

iterations count:186 (8), effective:28 (1)

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

iterations count:186 (8), effective:28 (1)

iterations count:186 (8), effective:28 (1)

iterations count:186 (8), effective:28 (1)

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

iterations count:186 (8), effective:28 (1)

iterations count:266 (12), effective:50 (2)

iterations count:163 (7), effective:47 (2)

iterations count:298 (13), effective:58 (2)
27993
iterations count:1924 (87), effective:472 (21)

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

iterations count:183 (8), effective:28 (1)

iterations count:291 (13), effective:46 (2)

iterations count:185 (8), effective:28 (1)

iterations count:34 (1), effective:3 (0)

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-C1000N0000000010"
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-C1000N0000000010.tgz
mv GPPP-PT-C1000N0000000010 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-C1000N0000000010, 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-146468027900562"
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 ;