"Going back to our roots": second generation biocomputing

Researchers in the field of biocomputing have, for many years, successfully "harvested and exploited" the natural world for inspiration in developing systems that are robust, adaptable and capable of generating novel and even "creative" solutions to human-defined problems. However, in this position paper we argue that the time has now come for a reassessment of how we exploit biology to generate new computational systems. Previous solutions (the "first generation" of biocomputing techniques), whilst reasonably effective, are crude analogues of actual biological systems. We believe that a new, inherently inter-disciplinary approach is needed for the development of the emerging "second generation" of bio-inspired methods. This new modus operandi will require much closer interaction between the engineering and life sciences communities, as well as a bidirectional flow of concepts, applications and expertise. We support our argument by examining, in this new light, three existing areas of biocomputing (genetic programming, artificial immune systems and evolvable hardware), as well as an emerging area (natural genetic engineering) which may provide useful pointers as to the way forward.Comment: Submitted to the International Journal of Unconventional Computin

Open-ended evolution to discover analogue circuits for beyond conventional applications

This is the author's accepted manuscript. The final publication is available at Springer via http://dx.doi.org/10.1007/s10710-012-9163-8. Copyright @ Springer 2012.Analogue circuits synthesised by means of open-ended evolutionary algorithms often have unconventional designs. However, these circuits are typically highly compact, and the general nature of the evolutionary search methodology allows such designs to be used in many applications. Previous work on the evolutionary design of analogue circuits has focused on circuits that lie well within analogue application domain. In contrast, our paper considers the evolution of analogue circuits that are usually synthesised in digital logic. We have developed four computational circuits, two voltage distributor circuits and a time interval metre circuit. The approach, despite its simplicity, succeeds over the design tasks owing to the employment of substructure reuse and incremental evolution. Our findings expand the range of applications that are considered suitable for evolutionary electronics

Evolvable Embryonics: 2-in-1 Approach to Self-healing Systems

This paper covers the authors’ recent research in the area of evolutionary design optimisation in electronic application domain (Evolvable Hardware). This will be also presented in the context of biologically inspired systems where Evolvable Hardware is concerned with evolutionary synthesis of self-healing systems and potentially hardware capable of online adaptation to dynamically changing environment. We will also illustrate how EAs can produce novel and unintuitive design solutions, and possibly new design principles. The novelty of this research project addresses this compelling change in the traditional landscape of the associated research disciplines by seeking to provide a novel biologically inspired mechanism to support the design optimisation of self-healing architectures, that is Evolvable-Embryonics

Automatic design of analogue circuits

This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University.Evolvable Hardware (EHW) is a promising area in electronics today. Evolutionary Algorithms (EA), together with a circuit simulation tool or real hardware, automatically designs a circuit for a given problem. The circuits evolved may have unconventional designs and be less dependent on the personal knowledge of a designer. Nowadays, EA are represented by Genetic Algorithms (GA), Genetic Programming (GP) and Evolutionary Strategy (ES). While GA is definitely the most popular tool, GP has rapidly developed in recent years and is notable by its outstanding results. However, to date the use of ES for analogue circuit synthesis has been limited to a few applications. This work is devoted to exploring the potential of ES to create novel analogue designs. The narrative of the thesis starts with a framework of an ES-based system generating simple circuits, such as low pass filters. Then it continues with a step-by-step progression to increasingly sophisticated designs that require additional strength from the system. Finally, it describes the modernization of the system using novel techniques that enable the synthesis of complex multi-pin circuits that are newly evolved. It has been discovered that ES has strong power to synthesize analogue circuits. The circuits evolved in the first part of the thesis exceed similar results made previously using other techniques in a component economy, in the better functioning of the evolved circuits and in the computing power spent to reach the results. The target circuits for evolution in the second half are chosen by the author to challenge the capability of the developed system. By functioning, they do not belong to the conventional analogue domain but to applications that are usually adopted by digital circuits. To solve the design tasks, the system has been gradually developed to support the ability of evolving increasingly complex circuits. As a final result, a state-of-the-art ES-based system has been developed that possesses a novel mutation paradigm, with an ability to create, store and reuse substructures, to adapt the mutation, selection parameters and population size, utilize automatic incremental evolution and use the power of parallel computing. It has been discovered that with the ability to synthesis the most up-to-date multi-pin complex analogue circuits that have ever been automatically synthesized before, the system is capable of synthesizing circuits that are problematic for conventional design with application domains that lay beyond the conventional application domain for analogue circuits

A novel FPGA-based evolvable hardware system based on multiple processing arrays

In this paper, an architecture based on a scalable and flexible set of Evolvable Processing arrays is presented. FPGA-native Dynamic Partial Reconfiguration (DPR) is used for evolution, which is done intrinsically, letting the system to adapt autonomously to variable run-time conditions, including the presence of transient and permanent faults. The architecture supports different modes of operation, namely: independent, parallel, cascaded or bypass mode. These modes of operation can be used during evolution time or during normal operation. The evolvability of the architecture is combined with fault-tolerance techniques, to enhance the platform with self-healing features, making it suitable for applications which require both high adaptability and reliability. Experimental results show that such a system may benefit from accelerated evolution times, increased performance and improved dependability, mainly by increasing fault tolerance for transient and permanent faults, as well as providing some fault identification possibilities. The evolvable HW array shown is tailored for window-based image processing applications

Challenging the evolutionary strategy for synthesis of analogue computational circuits

There are very few reports in the past on applications of Evolutionary Strategy (ES) towards the synthesis of analogue circuits. Moreover, even fewer reports are on the synthesis of computational circuits. Last fact is mainly due to the dif-ficulty in designing of the complex nonlinear functions that these circuits perform. In this paper, the evolving power of the ES is challenged to design four computational circuits: cube root, cubing, square root and squaring functions. The synthesis succeeded due to the usage of oscillating length genotype strategy and the substructure reuse. The approach is characterized by its simplicity and represents one of the first attempts of application of ES towards the synthesis of “QR” circuits. The obtained experimental results significantly exceed the results published before in terms of the circuit quality, economy in components and computing resources utilized, revealing the great potential of the technique pro-posed to design large scale analog circuits