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 200K
-rw-r--r-- 1 mcc users 3.7K May 15 18:54 CTLCardinality.txt
-rw-r--r-- 1 mcc users 21K May 15 18:54 CTLCardinality.xml
-rw-r--r-- 1 mcc users 3.0K 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 11K 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 9.8K 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 4.1K May 15 18:54 ReachabilityFireability.txt
-rw-r--r-- 1 mcc users 21K 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 lola
Input is GPPP-PT-C0001N0000100000, examination is ReachabilityFireability
Time confinement is 3600 seconds
Memory confinement is 16384 MBytes
Number of cores is 4
Run identifier is r088-blw7-152649998300280
=====================================================================

--------------------
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-C0001N0000100000-ReachabilityFireability-00
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-01
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-02
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-03
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-04
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-05
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-06
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-07
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-08
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-09
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-10
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-11
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-12
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-13
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-14
FORMULA_NAME GPPP-PT-C0001N0000100000-ReachabilityFireability-15

=== Now, execution of the tool begins

BK_START 1526715417434

info: Time: 3600 - MCC
===========================================================================================
prep: translating GPPP-PT-C0001N0000100000 Petri net model.pnml into LoLA format
===========================================================================================
prep: translating PT Petri net complete
prep: check for too many tokens
===========================================================================================
prep: translating GPPP-PT-C0001N0000100000 formula ReachabilityFireability into LoLA format
===========================================================================================
prep: translating PT formula complete
vrfy: Checking ReachabilityFireability @ GPPP-PT-C0001N0000100000 @ 3570 seconds
lola: LoLA will run for 3570 seconds at most (--timelimit)
lola: NET
lola: reading net from model.pnml.lola
lola: finished parsing
lola: closed net file model.pnml.lola
lola: 55/65536 symbol table entries, 0 collisions
lola: preprocessing...
lola: Size of bit vector: 1056
lola: finding significant places
lola: 33 places, 22 transitions, 20 significant places
lola: computing forward-conflicting sets
lola: computing back-conflicting sets
lola: 30 transition conflict sets
lola: TASK
lola: reading formula from GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: E (F (())) : E (F ((NOT FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Phosphofructokinase) AND FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Aldolase)))) : E (F ((FIREABLE(Glutathione_oxidation) AND FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphofructokinase) AND FIREABLE(Hexokinase) AND FIREABLE(TIM_forward) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Transaldolase) OR FIREABLE(Pyruvate_kinase)) AND FIREABLE(Enolase)))) : E (F ((NOT FIREABLE(TIM_forward) AND NOT FIREABLE(Aldolase) AND FIREABLE(Transketolase2) AND FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Transketolase1) AND FIREABLE(generate)))) : E (F (FIREABLE(remove))) : E (F ((FIREABLE(Phosphoclucose_isomerase) AND NOT FIREABLE(remove) AND NOT FIREABLE(Pyruvate_kinase) AND (FIREABLE(Transketolase2) OR FIREABLE(Transaldolase)) AND FIREABLE(Ru5P_epimerase)))) : A (G (((NOT FIREABLE(Hexokinase) AND NOT FIREABLE(Transaldolase) AND (NOT FIREABLE(Transketolase2) OR NOT FIREABLE(TIM_backward))) OR NOT FIREABLE(generate)))) : E (F ((FIREABLE(Ru5P_epimerase) AND FIREABLE(GAP_dehydrogenase) AND (FIREABLE(TIM_backward) OR FIREABLE(Transketolase1)) AND FIREABLE(Transaldolase) AND NOT FIREABLE(Aldolase)))) : E (F ((FIREABLE(Transketolase2) AND FIREABLE(Hexokinase)))) : E (F (())) : E (F ((FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphoclucose_isomerase) AND (FIREABLE(Phosphoclucose_isomerase) OR FIREABLE(TIM_forward)) AND (NOT FIREABLE(GAP_dehydrogenase) OR (FIREABLE(Glutathione_reductose) AND FIREABLE(remove))) AND FIREABLE(Transketolase1) AND FIREABLE(Transketolase2) AND (FIREABLE(Transketolase2) OR FIREABLE(Phosphofructokinase)) AND FIREABLE(Transaldolase)))) : E (F ((FIREABLE(Enolase) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Hexokinase) OR FIREABLE(remove)) AND NOT FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Transaldolase) AND FIREABLE(Phosphoclucose_isomerase)))) : E (F ((FIREABLE(Enolase) AND FIREABLE(TIM_forward) AND FIREABLE(Transaldolase) AND FIREABLE(Aldolase) AND (NOT FIREABLE(Glutathione_oxidation) OR NOT FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase))))) : A (G ((NOT FIREABLE(Lactate_dehydrogenase) OR NOT FIREABLE(remove)))) : A (G (NOT FIREABLE(remove))) : E (F ((FIREABLE(Transketolase1) AND FIREABLE(Ru5P_isomerase) AND (FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)) AND FIREABLE(Glutathione_oxidation) AND FIREABLE(G6P_dehydrogenase) AND NOT FIREABLE(generate))))
lola: rewrite Frontend/Parser/formula_rewrite.k:98
lola: rewrite Frontend/Parser/formula_rewrite.k:157
lola: rewrite Frontend/Parser/formula_rewrite.k:148
lola: rewrite Frontend/Parser/formula_rewrite.k:98
lola: rewrite Frontend/Parser/formula_rewrite.k:157
lola: rewrite Frontend/Parser/formula_rewrite.k:148
lola: computing a collection of formulas
lola: RUNNING
lola: subprocess 0 will run for 223 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: FALSE
lola: ========================================
lola: SUBTASK
lola: checking initial satisfaction
lola: processed formula: FALSE
lola: processed formula length: 5
lola: 6 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: processed formula with 0 atomic propositions
lola: RUNNING
lola: SUBRESULT
lola: result: no
lola: produced by: preprocessing
lola: The net violates the given property already in its initial state.
lola: 0 markings, 0 edges
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-0 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 1 will run for 238 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: FALSE
lola: ========================================
lola: SUBTASK
lola: checking initial satisfaction
lola: processed formula: FALSE
lola: processed formula length: 5
lola: 6 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: processed formula with 0 atomic propositions
lola: RUNNING
lola: SUBRESULT
lola: result: no
lola: produced by: preprocessing
lola: The net violates the given property already in its initial state.
lola: 0 markings, 0 edges
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-9 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 2 will run for 255 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F (FIREABLE(remove)))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F (FIREABLE(remove)))
lola: processed formula length: 24
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: FIREABLE(remove)
lola: state equation: Generated DNF with 2 literals and 1 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-2-0.sara
lola: SUBRESULT
lola: result: yes
lola: produced by: state space
lola: The predicate is reachable.
lola: 67 markings, 66 edges
lola: state equation: calling and running sara
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-4 TRUE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 3 will run for 274 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: A (G (NOT FIREABLE(remove)))
lola: ========================================
lola: SUBTASK
lola: checking invariance
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: processed formula: A (G (NOT FIREABLE(remove)))
lola: processed formula length: 28
lola: 8 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: formula 0: FIREABLE(remove)
lola: state equation: Generated DNF with 2 literals and 1 conjunctive subformulas
lola: SUBRESULT
lola: result: no
lola: produced by: state space
lola: The predicate is not invariant.
lola: 67 markings, 66 edges
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-14 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 4 will run for 297 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: A (G ((NOT FIREABLE(Lactate_dehydrogenase) OR NOT FIREABLE(remove))))
lola: ========================================
lola: SUBTASK
lola: checking invariance
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: processed formula: A (G ((NOT FIREABLE(Lactate_dehydrogenase) OR NOT FIREABLE(remove))))
lola: processed formula length: 70
lola: 8 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: formula 0: (FIREABLE(Lactate_dehydrogenase) AND FIREABLE(remove))
lola: state equation: Generated DNF with 4 literals and 1 conjunctive subformulas
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-2-0.sara.
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-4-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-4-0.sara.


lola: state equation: solution impossible
lola: SUBRESULT
lola: result: yes
lola: produced by: state equation
lola: The predicate is invariant.

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-13 TRUE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: ========================================
lola: subprocess 5 will run for 324 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Transketolase2) AND FIREABLE(Hexokinase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Transketolase2) AND FIREABLE(Hexokinase))))
lola: processed formula length: 59
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Transketolase2) AND FIREABLE(Hexokinase))
lola: state equation: Generated DNF with 4 literals and 1 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-5-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-5-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-8 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 6 will run for 357 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((NOT FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Phosphofructokinase) AND FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Aldolase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((NOT FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Phosphofructokinase) AND FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Aldolase))))
lola: processed formula length: 136
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (NOT FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Phosphofructokinase) AND FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Aldolase))
lola: state equation: Generated DNF with 40 literals and 8 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-6-0.sara
lola: lola: SUBRESULT
lola: result: yes
lola: produced by: state space
lola: The predicate is reachable.
lola: 22 markings, 21 edges
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-1 TRUE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 7 will run for 396 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: A (G (((NOT FIREABLE(Hexokinase) AND NOT FIREABLE(Transaldolase) AND (NOT FIREABLE(Transketolase2) OR NOT FIREABLE(TIM_backward))) OR NOT FIREABLE(generate))))
lola: ========================================
lola: SUBTASK
lola: checking invariance
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: processed formula: A (G (((NOT FIREABLE(Hexokinase) AND NOT FIREABLE(Transaldolase) AND (NOT FIREABLE(Transketolase2) OR NOT FIREABLE(TIM_backward))) OR NOT FIREABLE(generate))))
lola: processed formula length: 161
lola: 8 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:631
lola: rewrite Frontend/Parser/formula_rewrite.k:694
lola: formula 0: ((FIREABLE(Hexokinase) OR FIREABLE(Transaldolase) OR (FIREABLE(Transketolase2) AND FIREABLE(TIM_backward))) AND FIREABLE(generate))
lola: state equation: Generated DNF with 11 literals and 3 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-7-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-7-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: yes
lola: produced by: state equation
lola: The predicate is invariant.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-6 TRUE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 8 will run for 446 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((NOT FIREABLE(TIM_forward) AND NOT FIREABLE(Aldolase) AND FIREABLE(Transketolase2) AND FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Transketolase1) AND FIREABLE(generate))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((NOT FIREABLE(TIM_forward) AND NOT FIREABLE(Aldolase) AND FIREABLE(Transketolase2) AND FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Transketolase1) AND FIREABLE(generate))))
lola: processed formula length: 179
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (NOT FIREABLE(TIM_forward) AND NOT FIREABLE(Aldolase) AND FIREABLE(Transketolase2) AND FIREABLE(GAP_dehydrogenase) AND NOT FIREABLE(Transketolase1) AND FIREABLE(generate))
lola: state equation: Generated DNF with 10 literals and 1 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-8-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-8-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-3 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 9 will run for 510 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Ru5P_epimerase) AND FIREABLE(GAP_dehydrogenase) AND (FIREABLE(TIM_backward) OR FIREABLE(Transketolase1)) AND FIREABLE(Transaldolase) AND NOT FIREABLE(Aldolase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Ru5P_epimerase) AND FIREABLE(GAP_dehydrogenase) AND (FIREABLE(TIM_backward) OR FIREABLE(Transketolase1)) AND FIREABLE(Transaldolase) AND NOT FIREABLE(Aldolase))))
lola: processed formula length: 179
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Ru5P_epimerase) AND FIREABLE(GAP_dehydrogenase) AND (FIREABLE(TIM_backward) OR FIREABLE(Transketolase1)) AND FIREABLE(Transaldolase) AND NOT FIREABLE(Aldolase))
lola: state equation: Generated DNF with 23 literals and 2 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-9-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-9-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-7 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 10 will run for 595 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Phosphoclucose_isomerase) AND NOT FIREABLE(remove) AND NOT FIREABLE(Pyruvate_kinase) AND (FIREABLE(Transketolase2) OR FIREABLE(Transaldolase)) AND FIREABLE(Ru5P_epimerase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Phosphoclucose_isomerase) AND NOT FIREABLE(remove) AND NOT FIREABLE(Pyruvate_kinase) AND (FIREABLE(Transketolase2) OR FIREABLE(Transaldolase)) AND FIREABLE(Ru5P_epimerase))))
lola: processed formula length: 191
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Phosphoclucose_isomerase) AND NOT FIREABLE(remove) AND NOT FIREABLE(Pyruvate_kinase) AND (FIREABLE(Transketolase2) OR FIREABLE(Transaldolase)) AND FIREABLE(Ru5P_epimerase))
lola: state equation: Generated DNF with 68 literals and 8 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-10-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-10-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola:
FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-5 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
========================================
lola: subprocess 11 will run for 714 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Enolase) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Hexokinase) OR FIREABLE(remove)) AND NOT FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Transaldolase) AND FIREABLE(Phosphoclucose_isomerase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Enolase) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Hexokinase) OR FIREABLE(remove)) AND NOT FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Transaldolase) AND FIREABLE(Phosphoclucose_isomerase))))
lola: processed formula length: 214
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Enolase) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Hexokinase) OR FIREABLE(remove)) AND NOT FIREABLE(Pyruvate_kinase) AND NOT FIREABLE(Transaldolase) AND FIREABLE(Phosphoclucose_isomerase))
lola: state equation: Generated DNF with 108 literals and 12 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-11-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-11-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-11 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 12 will run for 892 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Enolase) AND FIREABLE(TIM_forward) AND FIREABLE(Transaldolase) AND FIREABLE(Aldolase) AND (NOT FIREABLE(Glutathione_oxidation) OR NOT FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Enolase) AND FIREABLE(TIM_forward) AND FIREABLE(Transaldolase) AND FIREABLE(Aldolase) AND (NOT FIREABLE(Glutathione_oxidation) OR NOT FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)))))
lola: processed formula length: 224
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Enolase) AND FIREABLE(TIM_forward) AND FIREABLE(Transaldolase) AND FIREABLE(Aldolase) AND (NOT FIREABLE(Glutathione_oxidation) OR NOT FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)))
lola: state equation: Generated DNF with 28 literals and 4 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-12-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-12-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-12 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 13 will run for 1189 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Transketolase1) AND FIREABLE(Ru5P_isomerase) AND (FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)) AND FIREABLE(Glutathione_oxidation) AND FIREABLE(G6P_dehydrogenase) AND NOT FIREABLE(generate))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Transketolase1) AND FIREABLE(Ru5P_isomerase) AND (FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)) AND FIREABLE(Glutathione_oxidation) AND FIREABLE(G6P_dehydrogenase) AND NOT FIREABLE(generate))))
lola: processed formula length: 234
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Transketolase1) AND FIREABLE(Ru5P_isomerase) AND (FIREABLE(Glutathione_reductose) OR FIREABLE(Phosphoglycerate_mutase)) AND FIREABLE(Glutathione_oxidation) AND FIREABLE(G6P_dehydrogenase) AND NOT FIREABLE(generate))
lola: state equation: Generated DNF with 21 literals and 2 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-13-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-13-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-15 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 14 will run for 1784 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Glutathione_oxidation) AND FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphofructokinase) AND FIREABLE(Hexokinase) AND FIREABLE(TIM_forward) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Transaldolase) OR FIREABLE(Pyruvate_kinase)) AND FIREABLE(Enolase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Glutathione_oxidation) AND FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphofructokinase) AND FIREABLE(Hexokinase) AND FIREABLE(TIM_forward) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Transaldolase) OR FIREABLE(Pyruvate_kinase)) AND FIREABLE(Enolase))))
lola: processed formula length: 280
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Glutathione_oxidation) AND FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphofructokinase) AND FIREABLE(Hexokinase) AND FIREABLE(TIM_forward) AND FIREABLE(Phosphofructokinase) AND (FIREABLE(Transaldolase) OR FIREABLE(Pyruvate_kinase)) AND FIREABLE(Enolase))
lola: state equation: Generated DNF with 25 literals and 2 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-14-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-14-0.sara.

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.
lola: ========================================

FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-2 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
lola: subprocess 15 will run for 3567 seconds at most (--localtimelimit=0)
lola: ========================================
lola: ...considering subproblem: E (F ((FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphoclucose_isomerase) AND (FIREABLE(Phosphoclucose_isomerase) OR FIREABLE(TIM_forward)) AND (NOT FIREABLE(GAP_dehydrogenase) OR (FIREABLE(Glutathione_reductose) AND FIREABLE(remove))) AND FIREABLE(Transketolase1) AND FIREABLE(Transketolase2) AND (FIREABLE(Transketolase2) OR FIREABLE(Phosphofructokinase)) AND FIREABLE(Transaldolase))))
lola: ========================================
lola: SUBTASK
lola: checking reachability
lola: Planning: workflow for reachability check: stateequation||search (--findpath=off)
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: processed formula: E (F ((FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphoclucose_isomerase) AND (FIREABLE(Phosphoclucose_isomerase) OR FIREABLE(TIM_forward)) AND (NOT FIREABLE(GAP_dehydrogenase) OR (FIREABLE(Glutathione_reductose) AND FIREABLE(remove))) AND FIREABLE(Transketolase1) AND FIREABLE(Transketolase2) AND (FIREABLE(Transketolase2) OR FIREABLE(Phosphofructokinase)) AND FIREABLE(Transaldolase))))
lola: processed formula length: 397
lola: 7 rewrites
lola: closed formula file GPPP-PT-C0001N0000100000-ReachabilityFireability.task
lola: STORE
lola: using a simple compression encoder (--encoder=simplecompressed)
lola: using a prefix tree store (--store=prefix)
lola: SEARCH (state space)
lola: state space: using reachability graph (--search=depth)
lola: state space: using reachability preserving stubborn set method with insertion algorithm (--stubborn=tarjan)
lola: RUNNING
lola: rewrite Frontend/Parser/formula_rewrite.k:625
lola: formula 0: (FIREABLE(Phosphoglycerate_mutase) AND FIREABLE(Phosphoclucose_isomerase) AND (FIREABLE(Phosphoclucose_isomerase) OR FIREABLE(TIM_forward)) AND (NOT FIREABLE(GAP_dehydrogenase) OR (FIREABLE(Glutathione_reductose) AND FIREABLE(remove))) AND FIREABLE(Transketolase1) AND FIREABLE(Transketolase2) AND (FIREABLE(Transketolase2) OR FIREABLE(Phosphofructokinase)) AND FIREABLE(Transaldolase))
lola: state equation: Generated DNF with 244 literals and 16 conjunctive subformulas
lola: state equation: write sara problem file to GPPP-PT-C0001N0000100000-ReachabilityFireability-15-0.sara
lola: state equation: calling and running sara
sara: try reading problem file GPPP-PT-C0001N0000100000-ReachabilityFireability-15-0.sara.
lola: sara is running 0 secs || 5294781 markings, 7666190 edges, 1058956 markings/sec, 0 secs
lola: sara is running 5 secs || 8958666 markings, 16039228 edges, 732777 markings/sec, 5 secs
lola: sara is running 10 secs || 12411369 markings, 23929659 edges, 690541 markings/sec, 10 secs
lola: sara is running 15 secs || 15867521 markings, 31827889 edges, 691230 markings/sec, 15 secs
lola: sara is running 20 secs || 19348957 markings, 39783989 edges, 696287 markings/sec, 20 secs
lola: sara is running 25 secs || 22880697 markings, 47855068 edges, 706348 markings/sec, 25 secs

lola: state equation: solution impossible
lola: SUBRESULT
lola: result: no
lola: produced by: state equation
lola: The predicate is unreachable.

lola: FORMULA GPPP-PT-C0001N0000100000-ReachabilityFireability-10 FALSE TECHNIQUES COLLATERAL_PROCESSING EXPLICIT TOPOLOGICAL STATE_COMPRESSION STUBBORN_SETS USE_NUPN UNFOLDING_TO_PT
========================================
lola: RESULT
lola:
SUMMARY: no yes no no yes no yes no no no no no no yes no no
lola:
preliminary result: no yes no no yes no yes no no no no no no yes no no
lola: memory consumption: 14564 KB
lola: time consumption: 34 seconds

BK_STOP 1526715451821

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

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-C0001N0000100000"
export BK_EXAMINATION="ReachabilityFireability"
export BK_TOOL="lola"
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-C0001N0000100000.tgz
mv GPPP-PT-C0001N0000100000 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 lola"
echo " Input is GPPP-PT-C0001N0000100000, examination is ReachabilityFireability"
echo " Time confinement is $BK_TIME_CONFINEMENT seconds"
echo " Memory confinement is 16384 MBytes"
echo " Number of cores is 4"
echo " Run identifier is r088-blw7-152649998300280"
echo "====================================================================="
echo
echo "--------------------"
echo "content from stdout:"
echo
echo "=== Data for post analysis generated by BenchKit (invocation template)"
echo
if [ "ReachabilityFireability" = "UpperBounds" ] ; then
echo "The expected result is a vector of positive values"
echo NUM_VECTOR
elif [ "ReachabilityFireability" != "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 "ReachabilityFireability.txt" ] ; then
echo "here is the order used to build the result vector(from text file)"
for x in $(grep Property ReachabilityFireability.txt | cut -d ' ' -f 2 | sort -u) ; do
echo "FORMULA_NAME $x"
done
elif [ -f "ReachabilityFireability.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 '' ReachabilityFireability.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 ;