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-C0010N0000000010, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r221su-smll-146468027700490
=====================================================================

--------------------
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-C0010N0000000010-CTLFireability-0
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-1
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-10
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-11
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-12
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-13
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-14
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-15
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-2
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-3
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-4
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-5
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-6
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-7
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-8
FORMULA_NAME GPPP-PT-C0010N0000000010-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1465038952097


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_C0010N0000000010
(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 4.222sec


RS generation: 0m 0.291sec


-> reachability set: #nodes 20770 (2.1e+04) #states 23,537,012,497 (10)



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

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

-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.928sec

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


EG iterations: 0
-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.013sec

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

.................................................................................................................................................................
EG iterations: 161
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-12 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.208sec

checking: A [AF [~ [IS_FIREABLE [Phosphofructokinase]]] U IS_FIREABLE [Phosphofructokinase]]
normalized: [~ [EG [~ [IS_FIREABLE [Phosphofructokinase]]]] & ~ [E [~ [IS_FIREABLE [Phosphofructokinase]] U [EG [IS_FIREABLE [Phosphofructokinase]] & ~ [IS_FIREABLE [Phosphofructokinase]]]]]]

............................................................................................................................................................
EG iterations: 156
...............................................................................................................................................................................
EG iterations: 175
-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-9 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 5.060sec

checking: EF [A [IS_FIREABLE [Transaldolase] U IS_FIREABLE [Transketolase2]]]
normalized: E [true U [~ [EG [~ [IS_FIREABLE [Transketolase2]]]] & ~ [E [~ [IS_FIREABLE [Transketolase2]] U [~ [IS_FIREABLE [Transaldolase]] & ~ [IS_FIREABLE [Transketolase2]]]]]]]

...............................................................................................................................................................................................
EG iterations: 191
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-15 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.291sec

checking: EF [AX [[IS_FIREABLE [generate] | [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Transketolase1]]]]]
normalized: E [true U ~ [EX [~ [[IS_FIREABLE [generate] | [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Transketolase1]]]]]]]

.-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.237sec

checking: EF [A [~ [IS_FIREABLE [Phosphoclucose_isomerase]] U [IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [Phosphoglycerate_mutase]]]]
normalized: E [true U [~ [EG [~ [[IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [Phosphoglycerate_mutase]]]]] & ~ [E [~ [[IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [Phosphoglycerate_mutase]]] U [IS_FIREABLE [Phosphoclucose_isomerase] & ~ [[IS_FIREABLE [Pyruvate_kinase] | IS_FIREABLE [Phosphoglycerate_mutase]]]]]]]]

......................................................................................................................................................
EG iterations: 150
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.448sec

checking: EF [~ [~ [[[IS_FIREABLE [remove] & IS_FIREABLE [Enolase]] & [IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Phosphofructokinase]]]]]]
normalized: E [true U [[IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Phosphofructokinase]] & [IS_FIREABLE [remove] & IS_FIREABLE [Enolase]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.040sec

checking: AG [[[~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Aldolase]]] | AG [IS_FIREABLE [Ru5P_isomerase]]] | ~ [EG [IS_FIREABLE [Transaldolase]]]]]
normalized: ~ [E [true U ~ [[~ [EG [IS_FIREABLE [Transaldolase]]] | [~ [E [true U ~ [IS_FIREABLE [Ru5P_isomerase]]]] | ~ [[IS_FIREABLE [TIM_forward] & IS_FIREABLE [Aldolase]]]]]]]]

.
EG iterations: 1
-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.333sec

checking: EX [[[AF [IS_FIREABLE [remove]] | AG [IS_FIREABLE [Glutathione_oxidation]]] | [IS_FIREABLE [remove] | EF [IS_FIREABLE [Phosphoglycerate_mutase]]]]]
normalized: EX [[[IS_FIREABLE [remove] | E [true U IS_FIREABLE [Phosphoglycerate_mutase]]] | [~ [E [true U ~ [IS_FIREABLE [Glutathione_oxidation]]]] | ~ [EG [~ [IS_FIREABLE [remove]]]]]]]


EG iterations: 0
.-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-8 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.685sec

checking: EF [[~ [[[IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Enolase]] | ~ [IS_FIREABLE [remove]]]] & IS_FIREABLE [GAP_dehydrogenase]]]
normalized: E [true U [IS_FIREABLE [GAP_dehydrogenase] & ~ [[~ [IS_FIREABLE [remove]] | [IS_FIREABLE [Phosphoglycerate_kinase] & IS_FIREABLE [Enolase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.110sec

checking: AF [[[EF [IS_FIREABLE [Phosphoglycerate_kinase]] & AF [IS_FIREABLE [Enolase]]] | EF [[IS_FIREABLE [Transketolase1] & IS_FIREABLE [GAP_dehydrogenase]]]]]
normalized: ~ [EG [~ [[E [true U [IS_FIREABLE [Transketolase1] & IS_FIREABLE [GAP_dehydrogenase]]] | [~ [EG [~ [IS_FIREABLE [Enolase]]]] & E [true U IS_FIREABLE [Phosphoglycerate_kinase]]]]]]]

.......................................................................................................................................
EG iterations: 135
.
EG iterations: 1
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-14 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.519sec

checking: ~ [[EF [~ [[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]]]] & [IS_FIREABLE [GAP_dehydrogenase] | EF [[IS_FIREABLE [Transaldolase] & IS_FIREABLE [Pyruvate_kinase]]]]]]
normalized: ~ [[[IS_FIREABLE [GAP_dehydrogenase] | E [true U [IS_FIREABLE [Transaldolase] & IS_FIREABLE [Pyruvate_kinase]]]] & E [true U ~ [[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Lactate_dehydrogenase]]]]]]

-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-3 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.209sec

checking: E [[IS_FIREABLE [Lactate_dehydrogenase] | [[IS_FIREABLE [Transaldolase] | IS_FIREABLE [Transaldolase]] & ~ [IS_FIREABLE [Phosphofructokinase]]]] U [IS_FIREABLE [Pyruvate_kinase] & AG [IS_FIREABLE [Aldolase]]]]
normalized: E [[IS_FIREABLE [Lactate_dehydrogenase] | [~ [IS_FIREABLE [Phosphofructokinase]] & [IS_FIREABLE [Transaldolase] | IS_FIREABLE [Transaldolase]]]] U [IS_FIREABLE [Pyruvate_kinase] & ~ [E [true U ~ [IS_FIREABLE [Aldolase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-4 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.167sec

checking: EF [[[[IS_FIREABLE [Transketolase2] & ~ [IS_FIREABLE [Glutathione_reductose]]] & ~ [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Transketolase2]]]] & A [IS_FIREABLE [Phosphoclucose_isomerase] U IS_FIREABLE [Glutathione_oxidation]]]]
normalized: E [true U [[~ [EG [~ [IS_FIREABLE [Glutathione_oxidation]]]] & ~ [E [~ [IS_FIREABLE [Glutathione_oxidation]] U [~ [IS_FIREABLE [Glutathione_oxidation]] & ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]]]] & [~ [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Transketolase2]]] & [IS_FIREABLE [Transketolase2] & ~ [IS_FIREABLE [Glutathione_reductose]]]]]]

.............................................................................................
EG iterations: 93
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-11 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 4.137sec

checking: [[[EX [~ [IS_FIREABLE [Phosphoglycerate_mutase]]] & [AG [IS_FIREABLE [Phosphofructokinase]] & [[IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Transketolase1]] & [IS_FIREABLE [Enolase] | IS_FIREABLE [Glutathione_reductose]]]]] | [~ [~ [[IS_FIREABLE [remove] & IS_FIREABLE [Lactate_dehydrogenase]]]] | EF [[IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Transketolase2]]]]] & AF [~ [[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]]]]]
normalized: [~ [EG [[IS_FIREABLE [Ru5P_epimerase] | IS_FIREABLE [Transketolase2]]]] & [[E [true U [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [Transketolase2]]] | [IS_FIREABLE [remove] & IS_FIREABLE [Lactate_dehydrogenase]]] | [[[[IS_FIREABLE [Enolase] | IS_FIREABLE [Glutathione_reductose]] & [IS_FIREABLE [Ru5P_epimerase] & IS_FIREABLE [Transketolase1]]] & ~ [E [true U ~ [IS_FIREABLE [Phosphofructokinase]]]]] & EX [~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]]

......................................................................................................................................................................
EG iterations: 165
-> the formula is TRUE

FORMULA GPPP-PT-C0010N0000000010-CTLFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 3.628sec


Total processing time: 0m30.845sec


BK_STOP 1465038983015

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

12435
iterations count:1541 (70), effective:367 (16)

initing FirstDep: 0m 0.000sec


iterations count:631 (28), effective:122 (5)

iterations count:631 (28), effective:122 (5)

iterations count:55 (2), effective:7 (0)

iterations count:130 (5), effective:17 (0)
12562
iterations count:1629 (74), effective:398 (18)

iterations count:711 (32), effective:132 (6)

iterations count:626 (28), effective:120 (5)

iterations count:25 (1), effective:1 (0)

iterations count:848 (38), effective:165 (7)

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

iterations count:630 (28), effective:121 (5)

iterations count:627 (28), effective:121 (5)

iterations count:818 (37), effective:167 (7)

iterations count:31 (1), effective:9 (0)

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

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

iterations count:226 (10), effective:44 (2)

iterations count:241 (10), effective:43 (1)

iterations count:669 (30), effective:126 (5)

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-C0010N0000000010"
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-C0010N0000000010.tgz
mv GPPP-PT-C0010N0000000010 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-C0010N0000000010, 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-146468027700490"
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 ;