Evaluation of OpenMP for the Cyclops multithreaded architecture

Multithreaded architectures have the potential of tolerating large memory and functional unit latencies and increase resource utilization. The Blue Gene/Cyclops architecture, being developed at the IBM T. J. Watson Research Center, is one such systems that offers massive intra-chip parallelism. Although the BG/C architecture was initially designed to execute specific applications, we believe that it can be effectively used on a broad range of parallel numerical applications. Programming such applications for this unconventional design requires a significant porting effort when using the basic built-in mechanisms for thread management and synchronization. In this paper, we describe the implementation of an OpenMP environment for parallelizing applications, currently under development at the CEPBA-IBM Research Institute, targeting BG/C. The environment is evaluated with a set of simple numerical kernels and a subset of the NAS OpenMP benchmarks. We identify issues that were not initially considered in the design of the BG/C architecture to support a programming model such as OpenMP. We also evaluate features currently offered by the BG/C architecture that should be considered in the implementation of an efficient OpenMP layer for massive intra-chip parallel architectures.Peer ReviewedPostprint (author's final draft

Supersymmetry and superalgebra for the two-body system with a Dirac oscillator interaction

Some years ago, one of the authors~(MM) revived a concept to which he gave the name of single-particle Dirac oscillator, while another~(CQ) showed that it corresponds to a realization of supersymmetric quantum mechanics. The Dirac oscillator in its one- and many-body versions has had a great number of applications. Recently, it included the analytic expression for the eigenstates and eigenvalues of a two-particle system with a new type of Dirac oscillator interaction of frequency~$\omega$. By considering the latter together with its partner corresponding to the replacement of~$\omega$ by~$-\omega$, we are able to get a supersymmetric formulation of the problem and find the superalgebra that explains its degeneracy.Comment: 21 pages, LaTeX, 1 figure (can be obtained from the authors), to appear in J. Phys.

Reproductive biology of the nonnative oyster, Crassostrea gigas (Thunber, 1793) as a key for its successful spread along the rocky shores of Northern Patagonia, Argentina

Crassostrea gigas was introduced in Anegada Bay (North Patagonia, Argentina), in 1981 for aquaculture purposes. The species has, since established in the field, covered all available hard substrata in the bay and gradually expanded south along the coast of the neighboring province of Río Negro, 90 km away from its original introduction site. Our work focused on the reproductive dynamics of the species at the introduction site, with emphasis on the thermal thresholds needed for each stage of gonad development. During early spring, the oysters in Anegada Bay go through active gonad proliferation. Maturity extends mainly from October to January. The first spawning occurs in November, when seawater temperature exceeds 17°C, and peaks from December to February, when seawater temperature lies in the range ot 19–21.5°C. The timing of gonad development is size dependent. Larger (≥70 mm) and medium-size oysters begin spawning first, whereas small oysters ( 17°C), and spawning only occurs in those sites where this threshold is reached.Versión del editor

Consenso mexicano sobre dolor torácico no cardiaco

Introducción: Dolor torácico no cardíaco (DTNC) se define como un síndrome clínico caracte-rizado por dolor retroesternal semejante a la angina de pecho, pero de origen no cardiaco ygenerado por enfermedades esofágicas, osteomusculares, pulmonares o psiquiátricas.Objetivo: Presentar una revisión consensuada basada en evidencias sobre definición, epidemio-logía, fisiopatología, diagnóstico y opciones terapéuticas para pacientes con DTNC.Métodos: Tres coordinadores generales realizaron una revisión bibliográfica de todas las publi-caciones en inglés y espa˜nol sobre el tema y elaboraron 38 enunciados iniciales divididosen tres categorías principales: 1) definiciones, epidemiología y fisiopatología; 2) diagnóstico,y 3) tratamiento. Los enunciados fueron votados (3 rondas) utilizando el sistema Delphi, y losque alcanzaron un acuerdo > 75% fueron considerados y calificados de acuerdo con el sistemaGRADE. Resultados y conclusiones: El consenso final incluyó 29 enunciados Todo paciente que debutacon dolor torácico debe ser inicialmente evaluado por un cardiólogo. La causa más común deDTNC es la enfermedad por reflujo gastroesofágico (ERGE). Como abordaje inicial, si no existensíntomas de alarma, se puede dar una prueba terapéutica con inhibidor de bomba de pro-tones (IBP) por 2-4 semanas. Si hay disfagia o síntomas de alarma, se recomienda hacer unaendoscopia. La manometría de alta resolución es el mejor método para descartar trastornosmotores espásticos y acalasia. La pHmetría ayuda a demostrar exposición esofágica anormal alácido. El tratamiento debe ser dirigido al mecanismo fisiopatológico, y puede incluir IBP, neu-romoduladores y/o relajantes de músculo liso, intervención psicológica y/o terapia cognitiva,y ocasionalmente cirugía o terapia endoscópica. ABSTRACT Introduction: Non-cardiac chest pain is defined as a clinical syndrome characterized by retros-ternal pain similar to that of angina pectoris, but of non-cardiac origin and produced byesophageal, musculoskeletal, pulmonary, or psychiatric diseases.Aim: To present a consensus review based on evidence regarding the definition, epidemiology,pathophysiology, and diagnosis of non-cardiac chest pain, as well as the therapeutic options forthose patients. Methods: Three general coordinators carried out a literature review of all articles published inEnglish and Spanish on the theme and formulated 38 initial statements, dividing them into 3 maincategories: (i) definitions, epidemiology, and pathophysiology; (ii) diagnosis, and (iii) treatment.The statements underwent 3 rounds of voting, utilizing the Delphi system. The final statementswere those that reached > 75% agreement, and they were rated utilizing the GRADE system.Results and conclusions: The final consensus included 29 statements. All patients presentingwith chest pain should initially be evaluated by a cardiologist. The most common cause ofnon-cardiac chest pain is gastroesophageal reflux disease. If there are no alarm symptoms, the initial approach should be a therapeutic trial with a proton pump inhibitor for 2-4 weeks. Ifdysphagia or alarm symptoms are present, endoscopy is recommended. High-resolution mano-metry is the best method for ruling out spastic motor disorders and achalasia and pH monitoringaids in demonstrating abnormal esophageal acid exposure. Treatment should be directed at thepathophysiologic mechanism. It can include proton pump inhibitors, neuromodulators and/orsmooth muscle relaxants, psychologic intervention and/or cognitive therapy, and occasionallysurgery or endoscopic therapy

The Mexican consensus on non-cardiac chest pain

Introduction: Non-cardiac chest pain is defined as a clinical syndrome characterized by ret-rosternal pain similar to that of angina pectoris, but of non-cardiac origin and produced byesophageal, musculoskeletal, pulmonary, or psychiatric diseases. Aim: To present a consensus review based on evidence regarding the definition, epidemiology,pathophysiology, and diagnosis of non-cardiac chest pain, as well as the therapeutic options forthose patients. Methods Three general coordinators carried out a literature review of all articles published inEnglish and Spanish on the theme and formulated 38 initial statements, dividing them into 3 maincategories: 1) definitions, epidemiology, and pathophysiology, 2) diagnosis, and 3) treatment.The statements underwent 3 rounds of voting, utilizing the Delphi system. The final statementswere those that reached > 75% agreement, and they were rated utilizing the GRADE system. Results and conclusions The final consensus included 29 statements. All patients presentingwith chest pain should initially be evaluated by a cardiologist. The most common cause of non-cardiac chest pain is gastroesophageal reflux disease. If there are no alarm symptoms, the initialapproach should be a therapeutic trial with a proton pump inhibitor for 2-4 weeks. If dysphagiaor alarm symptoms are present, endoscopy is recommended. High-resolution manometry isthe best method for ruling out spastic motor disorders and achalasia and pH monitoring aidsin demonstrating abnormal esophageal acid exposure. Treatment should be directed at thepathophysiologic mechanism. It can include proton pump inhibitors, neuromodulators and/orsmooth muscle relaxants, psychologic intervention and/or cognitive therapy, and occasionallysurgery or endoscopic therapy

Shells and humans: molluscs and other coastal resources from the earliest human occupations at the Mesolithic shell midden of El Mazo (Asturias, Northern Spain)

Human populations exploited coastal areas with intensity during the Mesolithic in Atlantic Europe, resulting in the accumulation of large shell middens. Northern Spain is one of the most prolific regions, and especially the so-called Asturian area. Large accumulations of shellfish led some scholars to propose the existence of intensification in the exploitation of coastal resources in the region during the Mesolithic. In this paper, shell remains (molluscs, crustaceans and echinoderms) from stratigraphic units 114 and 115 (dated to the early Mesolithic c. 9 kys cal BP) at El Mazo cave (Asturias, northern Spain) were studied in order to establish resource exploitation patterns and environmental conditions. Species representation showed that limpets, top shells and sea urchins were preferentially exploited. One-millimetre mesh screens were crucial in establishing an accurate minimum number of individuals for sea urchins and to determine their importance in exploitation patterns. Environmental conditions deduced from shell assemblages indicated that temperate conditions prevailed at the time of the occupation and the morphology of the coastline was similar to today (rocky exposed shores). Information recovered relating to species representation, collection areas and shell biometry reflected some evidence of intensification (reduced shell size, collection in lower areas of exposed shores, no size selection in some units and species) in the exploitation of coastal resources through time. However, the results suggested the existence of changes in collection strategies and resource management, and periods of intense shell collection may have alternated with times of shell stock recovery throughout the Mesolithic.This research was performed as part of the project “The human response to the global climatic change in a littoral zone: the case of the transition to the Holocene in the Cantabrian coast (10,000–5000 cal BC) (HAR2010-22115-C02-01)” funded by the Spanish Ministry of Economy and Competitiveness. AGE was funded by the University of Cantabria through a predoctoral grant and IGZ was funded by the Spanish Ministry of Economy and Competitiveness through a Juan de la Cierva grant. We also would like to thank the University of Cantabria and the IIIPC for providing support, David Cuenca-Solana, Alejandro García Moreno and Lucia Agudo Pérez for their help. We also thank Jennifer Jones for correcting the English. Comments from two anonymous reviewers helped to improve the paper

Evaluation of OpenMP for the Cyclops multithreaded architecture

Abstract. Multithreaded architectures have the potential of tolerating large memory and functional unit latencies and increase resource utilization. The Blue Gene/Cyclops architecture, being developed at the IBM T. J. Watson Research Center, is one such systems that offers massive intra-chip parallelism. Although the BG/C architecture was initially designed to execute specific applications, we believe that it can be effectively used on a broad range of parallel numerical applications. Programming such applications for this unconventional design requires a significant porting effort when using the basic built-in mechanisms for thread management and synchronization. In this paper, we describe the implementation of an OpenMP environment for parallelizing applications, currently under development at the CEPBA-IBM Research Institute, targeting BG/C. The environment is evaluated with a set of simple numerical kernels and a subset of the NAS OpenMP benchmarks. We identify issues that were not initially considered in the design of the BG/C architecture to support a programming model such as OpenMP. We also evaluate features currently offered by the BG/C architecture that should be considered in the implementation of an efficient OpenMP layer for massive intra-chip parallel architectures. 1 Introduction an