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Sevilla Carpets

Ariscosn — Mon, 31 Aug 2015 10:09:05 GMT

Ariscosn:

The evolution of a P system is usually a too complex process to be evaluated only by the classical parameters from computational complexity measure, time and space. For instance, we are often interested in other types of descriptive complexity information: size of the alphabet, number of membranes (initially in the system or obtained during the computation), number of rules, etc. Another interesting parameter, especially when running software simulations, is the number of elementary operations (applications of rules) that are performed during the computation.

A possible way to describe the complexity of the evolution of a P system is by means of Sevilla carpets. They were presented in [1] as an extension of the Szilard language, which consists of all strings of rule labels describing correct derivations in a given grammar. The original framework for Szilard language is the Chomsky hierarchy of grammars, where only one rule is used in each derivation step and, therefore, a derivation can be represented in a natural way as the string of labels corresponding to the used rules (we refer again to [1] for details).

Sevilla carpets are a Szilard-way to describe a computation in a P system, capturing via a bi-dimensional writing the fact that in each evolution step a P system can use not just a single rule, but a multiset of them. More precisely, the (Sevilla) carpet associated with a computation of a P system is a table with the time on the horizontal axis and the rules explicitly mentioned along the vertical axis; then, for each rule, in each step, a piece of information is given.

== References ==

[1] G. Ciobanu, Gh. Paun, Gh. Stefanescu.
''Sevilla Carpets associated with P systems''.
In Cavaliere et al (eds) Proceedings of the Brainstorming Week on Membrane Computing.
Tech. rep. RGML 26/03, Univ. Rovira i Virgili, Tarragona, Spain, 2003, 135–140.

== Software ==

* README [[Media:README]]
* Main Script [[Media:sevilla_carpet]]
* Python core [[Media:simu_a_puntos.py]] (comments in Spanish!)

PGSP systems: Pieris oleracea

Miguel — Thu, 23 Apr 2015 08:18:35 GMT

Miguel: /* References */

Probabilistic Guarded Scripted P (PGSP) systems are an extension of Probabilistic Guarded P (PGP) systems, which is a type of probabilistic model of multienvironment P systems.

PGSP systems have been used to study the behaviour and conservation trends of ''Pieris napi oleracea'', (P. n. oleracea, for short). This species, commonly known as mustard white butterfly, is native from eastern North America. The aim of the model is to predict population growth trends and evolutionary responses of several genotypes of this species, considering the concurrent invasions of the exotic plant garlic mustard (''Alliaria petiolata''), and another exotic, ''Cardamine pratensis''.

This web page provides current versions of PGSP systems simulators, both in pLinguaCore and as a C++ standalone simulator, and also a GUI for using them all: [[MeCoGUI]].

== References ==

* PGSP systems:

* M. García-Quismondo, J.M. Reed, F.S. Chew, M.A. Martínez-del-Amor, M.J. Pérez-Jiménez.
[http://dx.doi.org/10.1016/j.ecolmodel.2017.06.030 ''Evolutionary response of a native butterfly to concurrent plant invasions: simulation of population dynamics''].
Ecological modelling, '''360''' (2017), 410-424.

* PGP systems:

* M. García-Quismondo, M.A. Martínez-del-Amor, M.J. Pérez-Jiménez.
[http://dx.doi.org/10.1007%2F978-3-319-14370-5_12 ''Probabilistic Guarded P systems, a new formal modelling framework''].
Lecture Notes in Computer Science, '''8961''' (2014), 194-214.
* Manuel García-Quismondo.
[http://fondosdigitales.us.es/tesis/tesis/2279/modelling-and-simulation-real-life-phenomena-membrane-computing-modelizacion-y-simulacion-de-fenomenos-de-la-vida-real-en-computacion-celular-con-membranas/ ''Modelling and simulation of real-life phenomena in Membrane Computing''].
January 2014. Department of Computer Science and Artificial Intelligence, University of Seville.
* M. García-Quismondo, M.A. Martínez-del-Amor, M.J. Pérez-Jiménez.
[http://cmc15.slu.cz/wp-content/uploads/2014/01/cmc15_proceedings.pdf ''Probabilistic Guarded P systems, a New Formal Modelling Framework''].
Pre-proceedings of the 15th International Conference on Membrane Computing, CMC15, Prague, Czech Republic, August 2014, pp. 169-190.

== Simulation software ==

* [http://www.p-lingua.org/plinguacore/pgsp/mecogui.jar MeCoGUI jar] (Java executable) file, including all dependencies and an extended pLinguaCore version supporting PGSP systems.
* [https://sourceforge.net/projects/pmcgpu/files/PGSP PGSP C++ simulator], within [[PMCGPU]] project.

MeCoGUI

Miguel — Wed, 22 Apr 2015 14:26:57 GMT

Miguel:

MeCoGUI is a minimal graphical user interface for P-Lingua which simplifies the process of parsing input parameters and generating results files.

The current version encapsulates a version of P-Lingua which integrates [[PGSP_systems:_Pieris_oleracea | Probabilistic Guarded Scripted P (PGSP) systems]], a novel Membrane Computing framework tailored for modelling population dynamics.

== Download ==

* [http://www.p-lingua.org/plinguacore/pgsp/mecogui.jar MeCoGUI jar].

Tritrophic Interactions

Ignacio — Sat, 19 Mar 2005 22:22:07 GMT

Ignacio:

M. Angels Colomer, Ignacio Pérez-Hurtado, Mario J. Pérez-Jiménez, and Agustin Riscos-Núñez. Simulating tritrophic interactions by means of P systems. In Fifth International Conference on Bio-Inspired Computing: Theories and Applications, BIC-TA 2010, University of Hunan, Liverpool Hope University, Liverpool, United Kingdom / Changsha, China, September 8-10 and September 23-26, 2010 [32], pages 1621-1628.

* [[Media:Tritrophic-interactions.zip|Zip file with all included]]