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-C0100N0000001000, examination is CTLFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 1
Run identifier is r221su-smll-146468027800535
=====================================================================

--------------------
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-C0100N0000001000-CTLFireability-0
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-1
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-10
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-11
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-12
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-13
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-14
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-15
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-2
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-3
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-4
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-5
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-6
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-7
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-8
FORMULA_NAME GPPP-PT-C0100N0000001000-CTLFireability-9

=== Now, execution of the tool begins

BK_START 1465044767628


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_C0100N0000001000
(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 3.655sec


RS generation: 5m15.477sec


-> reachability set: #nodes 713713 (7.1e+05) #states 20,292,531,036,711,574 (16)



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

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

-> the formula is TRUE

FORMULA GPPP-PT-C0100N0000001000-CTLFireability-2 TRUE TECHNIQUES SEQUENTIAL_PROCESSING DECISION_DIAGRAMS UNFOLDING_TO_PT

MC time: 0m40.115sec

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-3 CANNOT_COMPUTE

MC time: 1m14.457sec

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


before gc: list nodes free: 1435

after gc: idd nodes used:713760, unused:63286240; list nodes free:683255030
.....................................................................................................................................................................................................................
FORMULA GPPP-PT-C0100N0000001000-CTLFireability-4 CANNOT_COMPUTE

MC time: 51m 1.644sec

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-6 CANNOT_COMPUTE

MC time: 0m 0.001sec

checking: AF [EG [[[IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Transketolase2]] | IS_FIREABLE [Glutathione_reductose]]]]
normalized: ~ [EG [~ [EG [[IS_FIREABLE [Glutathione_reductose] | [IS_FIREABLE [Phosphoclucose_isomerase] | IS_FIREABLE [Transketolase2]]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-1 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: A [AF [[IS_FIREABLE [Phosphoglycerate_mutase] & IS_FIREABLE [Ru5P_epimerase]]] U ~ [EF [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 [Phosphoglycerate_mutase] & IS_FIREABLE [Ru5P_epimerase]]]] & E [true U IS_FIREABLE [Phosphoglycerate_mutase]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-12 CANNOT_COMPUTE

MC time: 0m 0.000sec

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-13 CANNOT_COMPUTE

MC time: 0m 0.000sec

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


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-15 CANNOT_COMPUTE

MC time: 0m 0.000sec

checking: [IS_FIREABLE [Phosphofructokinase] | EF [[IS_FIREABLE [Transketolase2] & ~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [G6P_dehydrogenase]]]]]]
normalized: [IS_FIREABLE [Phosphofructokinase] | E [true U [IS_FIREABLE [Transketolase2] & ~ [[IS_FIREABLE [GAP_dehydrogenase] | IS_FIREABLE [G6P_dehydrogenase]]]]]]


FORMULA GPPP-PT-C0100N0000001000-CTLFireability-5 CANNOT_COMPUTE


BK_TIME_CONFINEMENT_REACHED

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

1224 2424 73587 110316 165837 246129 341007 460030 602163 706663 767073
iterations count:11921 (541), effective:2875 (130)

initing FirstDep: 0m 0.000sec


iterations count:46 (2), effective:4 (0)
std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

std::bad_alloc

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-C0100N0000001000"
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-C0100N0000001000.tgz
mv GPPP-PT-C0100N0000001000 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-C0100N0000001000, 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-146468027800535"
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 ;