Adaptative parallel simulators for bioinspired computing models

In the Membrane Computing area, P systems are unconventional devices of computation inspired by the structure and processes taking place in living cells. Main successful P system applications lie in computability and computational complexity theories, as well as in biological modelling. Given that m...

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Autores: Martínez del Amor, Miguel Ángel, Pérez Hurtado de Mendoza, Ignacio, Orellana Martín, David, Pérez Jiménez, Mario de Jesús
Tipo de recurso: artículo
Estado:Versión enviada para evaluación y publicación
Fecha de publicación:2020
País:España
Institución:Universidad de Sevilla (US)
Repositorio:idUS. Depósito de Investigación de la Universidad de Sevilla
OAI Identifier:oai:idus.us.es:11441/104533
Acceso en línea:https://hdl.handle.net/11441/104533
https://doi.org/10.1016/j.future.2020.02.012
Access Level:acceso abierto
Palabra clave:bioinspired computing
Membrane Computing
P System
Programming Languages
Parallel computing
GPU Computing
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spelling Adaptative parallel simulators for bioinspired computing modelsMartínez del Amor, Miguel ÁngelPérez Hurtado de Mendoza, IgnacioOrellana Martín, DavidPérez Jiménez, Mario de Jesúsbioinspired computingMembrane ComputingP SystemProgramming LanguagesParallel computingGPU ComputingIn the Membrane Computing area, P systems are unconventional devices of computation inspired by the structure and processes taking place in living cells. Main successful P system applications lie in computability and computational complexity theories, as well as in biological modelling. Given that models become too complex to deal with, simulators for P systems are essential tools and their efficiency is critical. In order to handle the diverse situations that may arise during the computation, these simulators have to take into account that worst-case scenarios can happen, even though they rarely occur. As a result, there is a significant loss of performance. In this paper, the concept of adaptative simulation for P systems is introduced to palliate this problem. This is achieved by passing high-level information provided directly by P system model designers to the simulator, helping it to better adapt to the target model. For this purpose, an existing simulator for an ecosystem modelling framework, named Population Dynamics P systems, is extended to include the information of modules, that are usually employed to define ecosystem models. Moreover, the standard description language for P systems, P-Lingua, has been re-engineered in its version 5. It now includes a new syntactical item, called feature, to express this kind of high-level semantic information. Experiments show that this simple adaptative simulator supporting modules as features doubles the performance when running on GPUs and on multicore processors.Ministerio de Economía, Industría y Competitividad TIN2017-89842-P (MABICAP)ElsevierCiencias de la Computación e Inteligencia ArtificialTIC193: Computación NaturalMinisterio de Economia, Industria y Competitividad (MINECO). España2020info:eu-repo/semantics/articleinfo:eu-repo/semantics/submittedVersionapplication/pdfapplication/pdfhttps://hdl.handle.net/11441/104533https://doi.org/10.1016/j.future.2020.02.012reponame:idUS. Depósito de Investigación de la Universidad de Sevillainstname:Universidad de Sevilla (US)InglésFuture Generation Computer Systems, 107 (june 2020), 469-484.TIN2017-89842-P (MABICAP)https://www.sciencedirect.com/science/article/pii/S0167739X19308817?via%3Dihubinfo:eu-repo/semantics/openAccessoai:idus.us.es:11441/1045332026-06-17T12:51:07Z
dc.title.none.fl_str_mv Adaptative parallel simulators for bioinspired computing models
title Adaptative parallel simulators for bioinspired computing models
spellingShingle Adaptative parallel simulators for bioinspired computing models
Martínez del Amor, Miguel Ángel
bioinspired computing
Membrane Computing
P System
Programming Languages
Parallel computing
GPU Computing
title_short Adaptative parallel simulators for bioinspired computing models
title_full Adaptative parallel simulators for bioinspired computing models
title_fullStr Adaptative parallel simulators for bioinspired computing models
title_full_unstemmed Adaptative parallel simulators for bioinspired computing models
title_sort Adaptative parallel simulators for bioinspired computing models
dc.creator.none.fl_str_mv Martínez del Amor, Miguel Ángel
Pérez Hurtado de Mendoza, Ignacio
Orellana Martín, David
Pérez Jiménez, Mario de Jesús
author Martínez del Amor, Miguel Ángel
author_facet Martínez del Amor, Miguel Ángel
Pérez Hurtado de Mendoza, Ignacio
Orellana Martín, David
Pérez Jiménez, Mario de Jesús
author_role author
author2 Pérez Hurtado de Mendoza, Ignacio
Orellana Martín, David
Pérez Jiménez, Mario de Jesús
author2_role author
author
author
dc.contributor.none.fl_str_mv Ciencias de la Computación e Inteligencia Artificial
TIC193: Computación Natural
Ministerio de Economia, Industria y Competitividad (MINECO). España
dc.subject.none.fl_str_mv bioinspired computing
Membrane Computing
P System
Programming Languages
Parallel computing
GPU Computing
topic bioinspired computing
Membrane Computing
P System
Programming Languages
Parallel computing
GPU Computing
description In the Membrane Computing area, P systems are unconventional devices of computation inspired by the structure and processes taking place in living cells. Main successful P system applications lie in computability and computational complexity theories, as well as in biological modelling. Given that models become too complex to deal with, simulators for P systems are essential tools and their efficiency is critical. In order to handle the diverse situations that may arise during the computation, these simulators have to take into account that worst-case scenarios can happen, even though they rarely occur. As a result, there is a significant loss of performance. In this paper, the concept of adaptative simulation for P systems is introduced to palliate this problem. This is achieved by passing high-level information provided directly by P system model designers to the simulator, helping it to better adapt to the target model. For this purpose, an existing simulator for an ecosystem modelling framework, named Population Dynamics P systems, is extended to include the information of modules, that are usually employed to define ecosystem models. Moreover, the standard description language for P systems, P-Lingua, has been re-engineered in its version 5. It now includes a new syntactical item, called feature, to express this kind of high-level semantic information. Experiments show that this simple adaptative simulator supporting modules as features doubles the performance when running on GPUs and on multicore processors.
publishDate 2020
dc.date.none.fl_str_mv 2020
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/submittedVersion
format article
status_str submittedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/11441/104533
https://doi.org/10.1016/j.future.2020.02.012
url https://hdl.handle.net/11441/104533
https://doi.org/10.1016/j.future.2020.02.012
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Future Generation Computer Systems, 107 (june 2020), 469-484.
TIN2017-89842-P (MABICAP)
https://www.sciencedirect.com/science/article/pii/S0167739X19308817?via%3Dihub
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Elsevier
publisher.none.fl_str_mv Elsevier
dc.source.none.fl_str_mv reponame:idUS. Depósito de Investigación de la Universidad de Sevilla
instname:Universidad de Sevilla (US)
instname_str Universidad de Sevilla (US)
reponame_str idUS. Depósito de Investigación de la Universidad de Sevilla
collection idUS. Depósito de Investigación de la Universidad de Sevilla
repository.name.fl_str_mv
repository.mail.fl_str_mv
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