Statistical physics approach to dendritic computation: The excitable-wave mean-field approximation

We analytically study the input-output properties of a neuron whose active dendritic tree, modeled as a Cayley tree of excitable elements, is subjected to Poisson stimulus. Both single-site and two-site mean-field approximations incorrectly predict a nonequilibrium phase transition which is not allowed in the model. We propose an excitable-wave mean-field approximation which shows good agreement with previously published simulation results [Gollo et al., PLoS Comput. Biol. 5, e1000402 (2009)] and accounts for finite-size effects. We also discuss the relevance of our results to experiments in neuroscience, emphasizing the role of active dendrites in the enhancement of dynamic range and in gain control modulation.

Implementation of a non ground meta interpreter for defeasible logic

Human reasoning is a fascinating and complex cognitive process that can be applied in different research areas such as philosophy, psychology, laws and financial. Unfortunately, developing supporting software (to those different areas) able to cope such as complex reasoning it’s difficult and requires a suitable logic abstract formalism. In this thesis we aim to develop a program, that has the job to evaluate a theory (a set of rules) w.r.t. a Goal, and provide some results such as “The Goal is derivable from the KB5 (of the theory)”. In order to achieve this goal we need to analyse different logics and choose the one that best meets our needs. In logic, usually, we try to determine if a given conclusion is logically implied by a set of assumptions T (theory). However, when we deal with programming logic we need an efficient algorithm in order to find such implications. In this work we use a logic rather similar to human logic. Indeed, human reasoning requires an extension of the first order logic able to reach a conclusion depending on not definitely true6 premises belonging to a incomplete set of knowledge. Thus, we implemented a defeasible logic7 framework able to manipulate defeasible rules. Defeasible logic is a non-monotonic logic designed for efficient defeasible reasoning by Nute (see Chapter 2). Those kind of applications are useful in laws area especially if they offer an implementation of an argumentation framework that provides a formal modelling of game. Roughly speaking, let the theory is the set of laws, a keyclaim is the conclusion that one of the party wants to prove (and the other one wants to defeat) and adding dynamic assertion of rules, namely, facts putted forward by the parties, then, we can play an argumentative challenge between two players and decide if the conclusion is provable or not depending on the different strategies performed by the players. Implementing a game model requires one more meta-interpreter able to evaluate the defeasible logic framework; indeed, according to Göedel theorem (see on page 127), we cannot evaluate the meaning of a language using the tools provided by the language itself, but we need a meta-language able to manipulate the object language8. Thus, rather than a simple meta-interpreter, we propose a Meta-level containing different Meta-evaluators. The former has been explained above, the second one is needed to perform the game model, and the last one will be used to change game execution and tree derivation strategies.

Carbonate chemistry, community metabolism, PAR, temperature and salinity of One Tree Island reef

There are few in situ studies showing how net community calcification (Gnet) of coral reefs is related to carbonate chemistry, and the studies to date have demonstrated different predicted rates of change. In this study, we measured net community production (Pnet), Gnet, and carbonate chemistry of a reef flat at One Tree Island, Great Barrier Reef. Diurnal pCO2 variability of 289-724 µatm was driven primarily by photosynthesis and respiration. The reef flat was found to be net autotrophic, with daily production of ? 35 mmol C/m**2/d and net calcification of ? 33 mmol C/m**2/d . Gnet was strongly related to Pnet, which drove a hysteresis pattern in the relationship between Gnet and aragonite saturation state (Omega ar). Although Pnet was the main driver of Gnet, Omega ar was still an important factor, where 95% of the variance in Gnet could be described by Pnet and Omega ar. Based on the observed in situ relationship, Gnet would be expected to reach zero when Omega ar is 2.5. It is unknown what proportion of a decline in Gnet would be through reduced calcification and what would occur through increased dissolution, but the results here support predictions that overall calcium carbonate production will decline in coral reefs as a result of ocean acidification.

A methodology for granularity-based control of parallelism in logic programs

Several types of parallelism can be exploited in logic programs while preserving correctness and efficiency, i.e. ensuring that the parallel execution obtains the same results as the sequential one and the amount of work performed is not greater. However, such results do not take into account a number of overheads which appear in practice, such as process creation and scheduling, which can induce a slow-down, or, at least, limit speedup, if they are not controlled in some way. This paper describes a methodology whereby the granularity of parallel tasks, i.e. the work available under them, is efficiently estimated and used to limit parallelism so that the effect of such overheads is controlled. The run-time overhead associated with the approach is usually quite small, since as much work is done at compile time as possible. Also,a number of run-time optimizations are proposed. Moreover, a static analysis of the overhead associated with the granularity control process is performed in order to decide its convenience. The performance improvements resulting from the incorporation of grain size control are shown to be quite good, specially for systems with medium to large parallel execution overheads.

Efficient term size computation for granularity control

Knowing the size of the terms to which program variables are bound at run-time in logic programs is required in a class of optimizations which includes granularity control and recursion elimination. Such size is difficult to even approximate at compile time and is thus generally computed at run-time by using (possibly predeñned) predicates which traverse the terms involved. We propose a technique which has the potential of performing this computation much more efficiently. The technique is based on ñnding program procedures which are called before those in which knowledge regarding term sizes is needed and which traverse the terms whose size is to be determined, and transforming such procedures so that they compute term sizes "on the fly". We present a systematic way of determining whether a given program can be transformed in order to compute a given term size at a given program point without additional term traversal. Also, if several such transformations are possible our approach allows ñnding minimal transformations under certain criteria. We also discuss the advantages and applications of our technique (specifically in the task of granularity control) and present some performance results.

A comparative study of methods for automatic compile-time parallelization of logic programs

This paper presents a study of the effectiveness of three different algorithms for the parallelization of logic programs based on compile-time detection of independence among goals. The algorithms are embedded in a complete parallelizing compiler, which incorporates different abstract interpretation-based program analyses. The complete system shows the task of automatic program parallelization to be practical. The trade-offs involved in using each of the algorithms in this task are studied experimentally, weaknesses of these identified, and possible improvements discussed.

Towards granularity based control of parallelism in logic programs

Several types of parallelism can be exploited in logic programs while preserving correctness and efficiency, i.e. ensuring that the parallel execution obtains the same results as the sequential one and the amount of work performed is not greater. However, such results do not take into account a number of overheads which appear in practice, such as process creation and scheduling, which can induce a slow-down, or, at least, limit speedup, if they are not controlled in some way. This paper describes a methodology whereby the granularity of parallel tasks, i.e. the work available under them, is efficiently estimated and used to limit parallelism so that the effect of such overheads is controlled. The run-time overhead associated with the approach is usually quite small, since as much work is done at compile time as possible. Also, a number of run-time optimizations are proposed. Moreover, a static analysis of the overhead associated with the granularity control process is performed in order to decide its convenience. The performance improvements resulting from the incorporation of grain size control are shown to be quite good, specially for systems with médium to large parallel execution overheads.

Analyzing logic programs with dynamic scheduling

Traditional logic programming languages, such as Prolog, use a fixed left-to-right atom scheduling rule. Recent logic programming languages, however, usually provide more flexible scheduling in which computation generally proceeds leftto- right but in which some calis are dynamically "delayed" until their arguments are sufRciently instantiated to allow the cali to run efficiently. Such dynamic scheduling has a significant cost. We give a framework for the global analysis of logic programming languages with dynamic scheduling and show that program analysis based on this framework supports optimizations which remove much of the overhead of dynamic scheduling.

Tools for Search Tree Visualization: The APT Tool

The control part of the execution of a constraint logic program can be conceptually shown as a search-tree, where nodes correspond to calis, and whose branches represent conjunctions and disjunctions. This tree represents the search space traversed by the program, and has also a direct relationship with the amount of work performed by the program. The nodes of the tree can be used to display information regarding the state and origin of instantiation of the variables involved in each cali. This depiction can also be used for the enumeration process. These are the features implemented in APT, a tool which runs constraint logic programs while depicting a (modified) search-tree, keeping at the same time information about the state of the variables at every moment in the execution. This information can be used to replay the execution at will, both forwards and backwards in time. These views can be abstracted when the size of the execution requires it. The search-tree view is used as a framework onto which constraint-level visualizations (such as those presented in the following chapter) can be attached.

Two efficient representations for set-sharing analysis in logic programs

Set-Sharing analysis, the classic Jacobs and Langen's domain, has been widely used to infer several interesting properties of programs at compile-time such as occurs-check reduction, automatic parallelization, flnite-tree analysis, etc. However, performing abstract uniflcation over this domain implies the use of a closure operation which makes the number of sharing groups grow exponentially. Much attention has been given in the literature to mitígate this key inefficiency in this otherwise very useful domain. In this paper we present two novel alternative representations for the traditional set-sharing domain, tSH and tNSH. which compress efficiently the number of elements into fewer elements enabling more efficient abstract operations, including abstract uniflcation, without any loss of accuracy. Our experimental evaluation supports that both representations can reduce dramatically the number of sharing groups showing they can be more practical solutions towards scalable set-sharing.

Towards execution time estimation for logic programs via static analysis and profiling

Effective static analyses have been proposed which infer bounds on the number of resolutions or reductions. These have the advantage of being independent from the platform on which the programs are executed and have been shown to be useful in a number of applications, such as granularity control in parallel execution. On the other hand, in distributed computation scenarios where platforms with different capabilities come into play, it is necessary to express costs in metrics that include the characteristics of the platform. In particular, it is specially interesting to be able to infer upper and lower bounds on actual execution times. With this objective in mind, we propose an approach which combines compile-time analysis for cost bounds with a one-time profiling of the platform in order to determine the valúes of certain parameters for a given platform. These parameters calíbrate a cost model which, from then on, is able to compute statically time bound functions for procedures and to predict with a significant degree of accuracy the execution times of such procedures in the given platform. The approach has been implemented and integrated in the CiaoPP system.

A generic framework for the analysis and specialization of logic programs

The relationship between abstract interpretation and partial deduction has received considerable attention and (partial) integrations have been proposed starting from both the partial deduction and abstract interpretation perspectives. In this work we present what we argüe is the first fully described generic algorithm for efñcient and precise integration of abstract interpretation and partial deduction. Taking as starting point state-of-the-art algorithms for context-sensitive, polyvariant abstract interpretation and (abstract) partial deduction, we present an algorithm which combines the best of both worlds. Key ingredients include the accurate success propagation inherent to abstract interpretation and the powerful program transformations achievable by partial deduction. In our algorithm, the calis which appear in the analysis graph are not analyzed w.r.t. the original definition of the procedure but w.r.t. specialized definitions of these procedures. Such specialized definitions are obtained by applying both unfolding and abstract executability. Our framework is parametric w.r.t. different control strategies and abstract domains. Different combinations of such parameters correspond to existing algorithms for program analysis and specialization. Simultaneously, our approach opens the door to the efñcient computation of strictly more precise results than those achievable by each of the individual techniques. The algorithm is now one of the key components of the CiaoPP analysis and specialization system.

Towards dynamic term size computation via program transformation

Knowing the size of the terms to which program variables are bound at run-time in logic programs is required in a class of applications related to program optimization such as, for example, recursion elimination and granularity analysis. Such size is difficult to even approximate at compile time and is thus generally computed at run-time by using (possibly predefined) predicates which traverse the terms involved. We propose a technique based on program transformation which has the potential of performing this computation much more efficiently. The technique is based on finding program procedures which are called before those in which knowledge regarding term sizes is needed and which traverse the terms whose size is to be determined, and transforming such procedures so that they compute term sizes "on the fly". We present a systematic way of determining whether a given program can be transformed in order to compute a given term size at a given program point without additional term traversal. Also, if several such transformations are possible our approach allows finding minimal transformations under certain criteria. We also discuss the advantages and present some applications of our technique.