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)
.................
/home/mcc/execution
total 184K
-rw-r--r-- 1 mcc users 3.2K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 17K May 15 18:54 CTLCardinality.xml
-rw-r--r-- 1 mcc users 2.9K May 15 18:54 CTLFireability.txt
-rw-r--r-- 1 mcc users 15K May 15 18:54 CTLFireability.xml
-rw-r--r-- 1 mcc users 4.0K May 15 18:50 GenericPropertiesDefinition.xml
-rw-r--r-- 1 mcc users 5.7K May 15 18:50 GenericPropertiesVerdict.xml
-rw-r--r-- 1 mcc users 2.5K May 15 18:54 LTLCardinality.txt
-rw-r--r-- 1 mcc users 12K May 15 18:54 LTLCardinality.xml
-rw-r--r-- 1 mcc users 2.3K May 15 18:54 LTLFireability.txt
-rw-r--r-- 1 mcc users 11K May 15 18:54 LTLFireability.xml
-rw-r--r-- 1 mcc users 3.7K May 15 18:54 ReachabilityCardinality.txt
-rw-r--r-- 1 mcc users 19K May 15 18:54 ReachabilityCardinality.xml
-rw-r--r-- 1 mcc users 115 May 15 18:54 ReachabilityDeadlock.txt
-rw-r--r-- 1 mcc users 353 May 15 18:54 ReachabilityDeadlock.xml
-rw-r--r-- 1 mcc users 3.4K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 16K May 15 18:54 ReachabilityFireability.xml
-rw-r--r-- 1 mcc users 1.7K May 15 18:54 UpperBounds.txt
-rw-r--r-- 1 mcc users 3.8K May 15 18:54 UpperBounds.xml
-rw-r--r-- 1 mcc users 6 May 15 18:50 equiv_col
-rw-r--r-- 1 mcc users 17 May 15 18:50 instance
-rw-r--r-- 1 mcc users 6 May 15 18:50 iscolored
-rw-r--r-- 1 mcc users 21K May 15 18:50 model.pnml
=====================================================================
Generated by BenchKit 2-3637
Executing tool irma4mcc-full
Input is GPPP-PT-C0100N0000000100, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r090-blw7-152650001300312
=====================================================================

--------------------
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-CTLFireability-00
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-01
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-02
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-03
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-04
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-05
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-06
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-07
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-08
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-09
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-10
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-11
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-12
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-13
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-14
FORMULA_NAME GPPP-PT-C0100N0000000100-CTLFireability-15

=== Now, execution of the tool begins

BK_START 1527066761464


BK_STOP 1527067181503

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

Prefix is 65b80f64.
Reading known information in /usr/share/mcc4mcc/65b80f64-known.json.
Reading learned information in /usr/share/mcc4mcc/65b80f64-learned.json.
Reading value translations in /usr/share/mcc4mcc/65b80f64-values.json.
Using directory /home/mcc/execution for input, as it contains a model.pnml file.
Using GPPP-PT-C0100N0000000100 as instance name.
Using GPPP as model name.
Using algorithm or tool voting-classifier.
Model characteristics are: {'Examination': 'CTLFireability', 'Place/Transition': True, 'Colored': False, 'Relative-Time': 1, 'Relative-Memory': 1, 'Ordinary': False, 'Simple Free Choice': False, 'Extended Free Choice': False, 'State Machine': False, 'Marked Graph': False, 'Connected': True, 'Strongly Connected': True, 'Source Place': False, 'Sink Place': False, 'Source Transition': False, 'Sink Transition': False, 'Loop Free': True, 'Conservative': False, 'Sub-Conservative': False, 'Nested Units': False, 'Safe': False, 'Deadlock': None, 'Reversible': None, 'Quasi Live': True, 'Live': None}.
/usr/local/lib/python3.6/dist-packages/sklearn/preprocessing/label.py:151: DeprecationWarning: The truth value of an empty array is ambiguous. Returning False, but in future this will result in an error. Use `array.size > 0` to check that an array is not empty.
if diff:
Known tools are: [{'Time': 1345619, 'Memory': 15936.7, 'Tool': 'marcie'}, {'Time': 1362158, 'Memory': 15936.84, 'Tool': 'marcie'}, {'Time': 2403855, 'Memory': 15952.73, 'Tool': 'lola'}, {'Time': 2417954, 'Memory': 15939.02, 'Tool': 'lola'}].
Learned tools are: [{'Tool': 'itstools'}].
CTLFireability marcie GPPP-PT-C0100N0000000100...
timeout --kill-after=10s --signal=SIGINT 1m for testing only

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

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=CTLFireability.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

ptnet_zbdd.cc:255: Boundedness exception: net is not 1-bounded!

net check time: 0m 0.000sec

init dd package: 0m 1.390sec

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

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

net check time: 0m 0.000sec

init dd package: 0m 3.949sec


iterations count:11981 (544), effective:2887 (131)

initing FirstDep: 0m 0.000sec


RS generation: 0m36.967sec


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



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


sat_reach.icc:155: Timeout: after 222 sec

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

std::bad_alloc
MC time: 3m43.006sec


std::bad_alloc

checking: EG [~ [IS_FIREABLE [Phosphofructokinase]]]
normalized: EG [~ [IS_FIREABLE [Phosphofructokinase]]]

std::bad_alloc
........................................................................................................................................................

FORMULA GPPP-PT-C0100N0000000100-CTLFireability-06 CANNOT_COMPUTE

MC time: 2m23.449sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-14 CANNOT_COMPUTE

MC time: 0m 0.022sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-09 CANNOT_COMPUTE

MC time: 0m 0.025sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-10 CANNOT_COMPUTE

MC time: 0m 0.021sec

checking: AG [EX [~ [[IS_FIREABLE [remove] & IS_FIREABLE [Ru5P_epimerase]]]]]
normalized: ~ [E [true U ~ [EX [~ [[IS_FIREABLE [remove] & IS_FIREABLE [Ru5P_epimerase]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-11 CANNOT_COMPUTE

MC time: 0m 0.010sec

checking: E [AF [~ [IS_FIREABLE [Phosphofructokinase]]] U IS_FIREABLE [Transketolase2]]
normalized: E [~ [EG [IS_FIREABLE [Phosphofructokinase]]] U IS_FIREABLE [Transketolase2]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-13 CANNOT_COMPUTE

MC time: 0m 0.010sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-02 CANNOT_COMPUTE

MC time: 0m 0.022sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-04 CANNOT_COMPUTE

MC time: 0m 0.013sec

checking: EF [[EX [~ [IS_FIREABLE [Phosphoclucose_isomerase]]] & AX [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Ru5P_isomerase]]]]]
normalized: E [true U [~ [EX [~ [[IS_FIREABLE [Transketolase1] | IS_FIREABLE [Ru5P_isomerase]]]]] & EX [~ [IS_FIREABLE [Phosphoclucose_isomerase]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-05 CANNOT_COMPUTE

MC time: 0m 0.033sec

checking: [EG [EX [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Glutathione_reductose]]]] | ~ [AF [IS_FIREABLE [Phosphofructokinase]]]]
normalized: [EG [~ [IS_FIREABLE [Phosphofructokinase]]] | EG [EX [[IS_FIREABLE [Aldolase] & IS_FIREABLE [Glutathione_reductose]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-08 CANNOT_COMPUTE

MC time: 0m 0.011sec

checking: EF [[AX [[IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Ru5P_isomerase]]] | IS_FIREABLE [Pyruvate_kinase]]]
normalized: E [true U [IS_FIREABLE [Pyruvate_kinase] | ~ [EX [~ [[IS_FIREABLE [Glutathione_reductose] & IS_FIREABLE [Ru5P_isomerase]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-12 CANNOT_COMPUTE

MC time: 0m 0.014sec

checking: [AF [IS_FIREABLE [TIM_backward]] | [IS_FIREABLE [Aldolase] | ~ [EF [[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Phosphofructokinase]]]]]]
normalized: [[IS_FIREABLE [Aldolase] | ~ [E [true U [IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Phosphofructokinase]]]]] | ~ [EG [~ [IS_FIREABLE [TIM_backward]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-07 CANNOT_COMPUTE

MC time: 0m 0.003sec

checking: [~ [~ [AF [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Hexokinase]]]]] | [A [IS_FIREABLE [Transketolase1] U IS_FIREABLE [Phosphoglycerate_mutase]] | EG [~ [IS_FIREABLE [TIM_backward]]]]]
normalized: [[EG [~ [IS_FIREABLE [TIM_backward]]] | [~ [EG [~ [IS_FIREABLE [Phosphoglycerate_mutase]]]] & ~ [E [~ [IS_FIREABLE [Phosphoglycerate_mutase]] U [~ [IS_FIREABLE [Transketolase1]] & ~ [IS_FIREABLE [Phosphoglycerate_mutase]]]]]]] | ~ [EG [~ [[IS_FIREABLE [Ru5P_isomerase] & IS_FIREABLE [Hexokinase]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-00 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: E [[~ [[IS_FIREABLE [generate] & IS_FIREABLE [Phosphoglycerate_mutase]]] | ~ [[IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Ru5P_epimerase]]]] U AG [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_oxidation]]]]
normalized: E [[~ [[IS_FIREABLE [Lactate_dehydrogenase] | IS_FIREABLE [Ru5P_epimerase]]] | ~ [[IS_FIREABLE [generate] & IS_FIREABLE [Phosphoglycerate_mutase]]]] U ~ [E [true U ~ [[IS_FIREABLE [Lactate_dehydrogenase] & IS_FIREABLE [Glutathione_oxidation]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-01 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [[AG [[~ [IS_FIREABLE [Pyruvate_kinase]] & [IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [TIM_backward]]]] | [[~ [[IS_FIREABLE [generate] | IS_FIREABLE [Lactate_dehydrogenase]]] | EX [IS_FIREABLE [generate]]] | IS_FIREABLE [Enolase]]] | EG [AF [IS_FIREABLE [TIM_backward]]]]
normalized: [EG [~ [EG [~ [IS_FIREABLE [TIM_backward]]]]] | [[IS_FIREABLE [Enolase] | [EX [IS_FIREABLE [generate]] | ~ [[IS_FIREABLE [generate] | IS_FIREABLE [Lactate_dehydrogenase]]]]] | ~ [E [true U ~ [[[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [TIM_backward]] & ~ [IS_FIREABLE [Pyruvate_kinase]]]]]]]]


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-15 CANNOT_COMPUTE

MC time: 0m 0.000sec

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


FORMULA GPPP-PT-C0100N0000000100-CTLFireability-03 CANNOT_COMPUTE

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

MC time: 0m 0.000sec

totally nodes used: 48276455 (4.8e+07)
number of garbage collections: 0
fire ops cache: hits/miss/sum: 698572802 159827473 858400275
used/not used/entry size/cache size: 62861527 4247337 16 1024MB
basic ops cache: hits/miss/sum: 141937558 28245389 170182947
used/not used/entry size/cache size: 15712047 1065169 12 192MB
unary ops cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 16777216 8 128MB
abstract ops cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 16777216 12 192MB
state nr cache: hits/miss/sum: 3968761 570551 4539312
used/not used/entry size/cache size: 544880 7843728 32 256MB
max state cache: hits/miss/sum: 0 0 0
used/not used/entry size/cache size: 0 8388608 32 256MB
uniqueHash elements/entry size/size: 67108864 4 256MB
0 34775062
1 21896994
2 7692420
3 1982237
4 487951
5 138482
6 41665
7 30969
8 16411
9 6514
>= 10 40159

Total processing time: 6m56.711sec

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-C0100N0000000100"
export BK_EXAMINATION="CTLFireability"
export BK_TOOL="irma4mcc-full"
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/GPPP-PT-C0100N0000000100.tgz
mv GPPP-PT-C0100N0000000100 execution
cd execution
pwd
ls -lh

# this is for BenchKit: explicit launching of the test
echo "====================================================================="
echo " Generated by BenchKit 2-3637"
echo " Executing tool irma4mcc-full"
echo " Input is GPPP-PT-C0100N0000000100, examination is CTLFireability"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r090-blw7-152650001300312"
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 ;