14 research outputs found

    Automating Security Configuration for the Grid

    Get PDF

    Metacomputing on clusters augmented with reconfigurable hardware

    Get PDF

    Applications Development for the Computational Grid

    Get PDF

    The 1998 Center for Simulation of Dynamic Response in Materials Annual Technical Report

    Get PDF
    Introduction: This annual report describes research accomplishments for FY 98 of the Center for Simulation of Dynamic Response of Materials. The Center is constructing a virtual shock physics facility in which the full three dimensional response of a variety of target materials can be computed for a wide range of compressive, tensional, and shear loadings, including those produced by detonation of energetic materials. The goals are to facilitate computation of a variety of experiments in which strong shock and detonation waves are made to impinge on targets consisting of various combinations of materials, compute the subsequent dynamic response of the target materials, and validate these computations against experimental data

    Dimensionerings- en werkverdelingsalgoritmen voor lambda grids

    Get PDF
    Grids bestaan uit een verzameling reken- en opslagelementen die geografisch verspreid kunnen zijn, maar waarvan men de gezamenlijke capaciteit wenst te benutten. Daartoe dienen deze elementen verbonden te worden met een netwerk. Vermits veel wetenschappelijke applicaties gebruik maken van een Grid, en deze applicaties doorgaans grote hoeveelheden data verwerken, is het noodzakelijk om een netwerk te voorzien dat dergelijke grote datastromen op betrouwbare wijze kan transporteren. Optische transportnetwerken lenen zich hier uitstekend toe. Grids die gebruik maken van dergelijk netwerk noemt men lambda Grids. Deze thesis beschrijft een kader waarin het ontwerp en dimensionering van optische netwerken voor lambda Grids kunnen beschreven worden. Ook wordt besproken hoe werklast kan verdeeld worden op een Grid eens die gedimensioneerd is. Een groot deel van de resultaten werd bekomen door simulatie, waarbij gebruik gemaakt wordt van een eigen Grid simulatiepakket dat precies focust op netwerk- en Gridelementen. Het ontwerp van deze simulator, en de daarbijhorende implementatiekeuzes worden dan ook uitvoerig toegelicht in dit werk

    The BioLighthouse: Reusable Software Design for Bioinformatics

    Get PDF
    Advances in next-generation sequencing have accelerated the field of microbiology by making accessible a wealth of information about microbiomes. Unfortunately, microbiome experiments are among the least reproducible in terms of bioinformatics. Software tools are often poorly documented, under-maintained, and commonly have arcane dependencies requiring significant time investment to configure them correctly. Microbiome studies are multidisciplinary efforts but communication and knowledge discrepancies make accessibility, reproducibility, and transparency of computational workflows difficult. The BioLighthouse uses Ansible roles, playbooks, and modules to automate configuration and execution of bioinformatics workflows. The roles and playbooks act as virtual laboratory notebooks by documenting the provenance of a bioinformatics workflow. The BioLighthouse was tested for platform dependence and data-scale dependence with a microbial profiling pipeline. The microbial profiling pipeline consisted of Cutadapt, FLASH2, and DADA2. The pipeline was tested on 3 canola root and soil microbiome datasets with differing orders of magnitude of data: 1 sample, 10 samples, and 100 samples. Each dataset was processed by The BioLighthouse with 10 unique parameter sets and outputs were compared across 8 computing environments for a total of 240 pipeline runs. Outputs after each step in the pipeline were tested for identity using the Linux diff command to ensure reproducible results. Testing of The BioLighthouse suggested no platform or data-scale dependence. To provide an easy way of maintaining environment reproducibility in user-space, Conda and the channel Bioconda were used for virtual environments and software dependencies for configuring bioinformatics tools. The BioLighthouse provides a framework for developers to make their tools accessible to the research community, for bioinformaticians to build bioinformatics workflows, and for the broader research community to consume these tools at a high level while knowing the tools will execute as intended

    Quality of Service and Optimization in Data Integration Systems

    Get PDF
    This work presents techniques for the construction of a global data integrations system. Similar to distributed databases this system allows declarative queries in order to express user-specific information needs. Scalability towards global data integration systems and openness were major design goals for the architecture and techniques developed in this work. It is shown how service composition, extensibility and quality of service can be supported in an open system of providers for data, functionality for query processing operations, and computing power.Diese Arbeit präsentiert Techniken für den Aufbau eines globalen Datenintegrationssystems. Analog zu verteilten Datenbanken unterstützt dieses System deklarative Anfragen, mit denen Benutzer die gesuchte Information beschreiben können. Die Skalierbarkeit in einem globalen Kontext und die Offenheit waren hauptsächliche Entwicklungsziele der Architektur und der Techniken, die in dieser Arbeit entstanden sind. Es wird gezeigt wie Dienstekomposition, Erweiterbarkeit und Dienstgüte in einem offenen System von Anbietern für Daten, Anfrageverarbeitungsfunktionalität und Rechenleistung unterstützt werden können

    Service and cloud computing supporting genomic analysis of the mammalian species

    Full text link
     This research focused on building Software as a Service clouds to support mammalian genomic applications such as personalized medicine. Outcomes of this research included a Software as a Service cloud framework, the Uncinus research cloud and novel genomic analysis software. Results have been published in high ranking peer-reviewed international journals
    corecore