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-C0010N1000000000, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r221su-smll-146468027700508
=====================================================================

--------------------
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-C0010N1000000000-CTLFireability-0
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-1
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-10
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-11
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-12
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-13
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-14
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-15
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-2
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-3
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-4
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-5
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-6
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-7
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-8
FORMULA_NAME GPPP-PT-C0010N1000000000-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1465039170987


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_C0010N1000000000
(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 3.886sec


RS generation: 0m 0.287sec


-> reachability set: #nodes 22693 (2.3e+04) #states 176,894,515,156 (11)



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

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

........................................................................................................................................................................................................................................
EG iterations: 232
-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-1 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m13.075sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.284sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-6 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.964sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-8 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.391sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-9 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.015sec

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

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-11 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.001sec

checking: AF [[IS_FIREABLE [Phosphofructokinase] | AX [IS_FIREABLE [Transketolase2]]]]
normalized: ~ [EG [~ [[IS_FIREABLE [Phosphofructokinase] | ~ [EX [~ [IS_FIREABLE [Transketolase2]]]]]]]]

............................................................................................................................................................................................................................................
EG iterations: 235
-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-0 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m15.128sec

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

.............................................................................................................................................................................................................................
EG iterations: 221
.......................................................................................................................................................................................................................................................................................................................
EG iterations: 311
.............................................................................................................................................................................................................................
EG iterations: 221
.............................................................................................................................................................................................................................
EG iterations: 221
....................................................................................................................................................................................................................................................
EG iterations: 244
-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-3 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 1m 6.632sec

checking: EF [[AX [IS_FIREABLE [Phosphoglycerate_kinase]] & IS_FIREABLE [Ru5P_epimerase]]]
normalized: E [true U [IS_FIREABLE [Ru5P_epimerase] & ~ [EX [~ [IS_FIREABLE [Phosphoglycerate_kinase]]]]]]

.-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-10 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 2.130sec

checking: AG [EF [[~ [IS_FIREABLE [Ru5P_isomerase]] & [IS_FIREABLE [Transketolase2] | IS_FIREABLE [Transketolase1]]]]]
normalized: ~ [E [true U ~ [E [true U [~ [IS_FIREABLE [Ru5P_isomerase]] & [IS_FIREABLE [Transketolase2] | IS_FIREABLE [Transketolase1]]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-12 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.317sec

checking: [E [~ [IS_FIREABLE [GAP_dehydrogenase]] U IS_FIREABLE [Phosphoglycerate_mutase]] | ~ [EG [EX [IS_FIREABLE [Hexokinase]]]]]
normalized: [~ [EG [EX [IS_FIREABLE [Hexokinase]]]] | E [~ [IS_FIREABLE [GAP_dehydrogenase]] U IS_FIREABLE [Phosphoglycerate_mutase]]]

.....................................................................................................................................................................................................................................
EG iterations: 228
-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-15 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m12.207sec

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

-> the formula is TRUE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-4 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 1.736sec

checking: [[~ [EG [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Phosphoglycerate_kinase]]]] | IS_FIREABLE [Glutathione_reductose]] & AF [~ [AF [IS_FIREABLE [TIM_backward]]]]]
normalized: [~ [EG [~ [EG [~ [IS_FIREABLE [TIM_backward]]]]]] & [IS_FIREABLE [Glutathione_reductose] | ~ [EG [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Phosphoglycerate_kinase]]]]]]

.............................................................................................................................................................................................................................
EG iterations: 221
.........................................................................................................................................................................................................................................................................................................
EG iterations: 297
.
EG iterations: 1
-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-14 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m35.473sec

checking: E [[IS_FIREABLE [remove] | ~ [[IS_FIREABLE [remove] & IS_FIREABLE [Phosphoclucose_isomerase]]]] U AG [[IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]]]]
normalized: E [[IS_FIREABLE [remove] | ~ [[IS_FIREABLE [remove] & IS_FIREABLE [Phosphoclucose_isomerase]]]] U ~ [E [true U ~ [[IS_FIREABLE [Hexokinase] | IS_FIREABLE [Ru5P_isomerase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-7 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.610sec

checking: EF [[[[~ [IS_FIREABLE [Ru5P_epimerase]] | [IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Phosphoglycerate_mutase]]] & [[IS_FIREABLE [Transketolase2] | IS_FIREABLE [Ru5P_epimerase]] | ~ [IS_FIREABLE [Phosphoclucose_isomerase]]]] & AG [IS_FIREABLE [Transketolase2]]]]
normalized: E [true U [~ [E [true U ~ [IS_FIREABLE [Transketolase2]]]] & [[~ [IS_FIREABLE [Phosphoclucose_isomerase]] | [IS_FIREABLE [Transketolase2] | IS_FIREABLE [Ru5P_epimerase]]] & [[IS_FIREABLE [Pyruvate_kinase] & IS_FIREABLE [Phosphoglycerate_mutase]] | ~ [IS_FIREABLE [Ru5P_epimerase]]]]]]

-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-13 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m 0.238sec

checking: [[[IS_FIREABLE [Transketolase1] & IS_FIREABLE [Aldolase]] | [[[IS_FIREABLE [Transketolase1] | [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [generate]]] & EX [IS_FIREABLE [Lactate_dehydrogenase]]] | A [IS_FIREABLE [Ru5P_isomerase] U IS_FIREABLE [Aldolase]]]] | AX [EF [[IS_FIREABLE [TIM_backward] & IS_FIREABLE [generate]]]]]
normalized: [~ [EX [~ [E [true U [IS_FIREABLE [TIM_backward] & IS_FIREABLE [generate]]]]]] | [[[~ [EG [~ [IS_FIREABLE [Aldolase]]]] & ~ [E [~ [IS_FIREABLE [Aldolase]] U [~ [IS_FIREABLE [Ru5P_isomerase]] & ~ [IS_FIREABLE [Aldolase]]]]]] | [EX [IS_FIREABLE [Lactate_dehydrogenase]] & [IS_FIREABLE [Transketolase1] | [IS_FIREABLE [GAP_dehydrogenase] & IS_FIREABLE [generate]]]]] | [IS_FIREABLE [Transketolase1] & IS_FIREABLE [Aldolase]]]]

.....................................................................................................................................................................................................................................................
EG iterations: 244
.-> the formula is FALSE

FORMULA GPPP-PT-C0010N1000000000-CTLFireability-5 FALSE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m17.466sec


Total processing time: 2m57.632sec


BK_STOP 1465039348861

--------------------
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 0.001sec

16448
iterations count:1481 (67), effective:355 (16)

initing FirstDep: 0m 0.000sec


iterations count:518 (23), effective:74 (3)

iterations count:63 (2), effective:6 (0)
22556
iterations count:1048 (47), effective:233 (10)

iterations count:521 (23), effective:76 (3)

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

iterations count:26 (1), effective:1 (0)

iterations count:226 (10), effective:41 (1)

iterations count:521 (23), effective:76 (3)

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

iterations count:707 (32), effective:97 (4)

iterations count:462 (21), effective:65 (2)

iterations count:543 (24), effective:76 (3)

iterations count:26 (1), effective:1 (0)

iterations count:578 (26), effective:88 (4)

iterations count:225 (10), effective:41 (1)

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

iterations count:25 (1), effective:1 (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-C0010N1000000000"
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-C0010N1000000000.tgz
mv GPPP-PT-C0010N1000000000 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-C0010N1000000000, 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-146468027700508"
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 ;