15,358 research outputs found
Extracting, Transforming and Archiving Scientific Data
It is becoming common to archive research datasets that are not only large
but also numerous. In addition, their corresponding metadata and the software
required to analyse or display them need to be archived. Yet the manual
curation of research data can be difficult and expensive, particularly in very
large digital repositories, hence the importance of models and tools for
automating digital curation tasks. The automation of these tasks faces three
major challenges: (1) research data and data sources are highly heterogeneous,
(2) future research needs are difficult to anticipate, (3) data is hard to
index. To address these problems, we propose the Extract, Transform and Archive
(ETA) model for managing and mechanizing the curation of research data.
Specifically, we propose a scalable strategy for addressing the research-data
problem, ranging from the extraction of legacy data to its long-term storage.
We review some existing solutions and propose novel avenues of research.Comment: 8 pages, Fourth Workshop on Very Large Digital Libraries, 201
Enabling quantitative data analysis through e-infrastructures
This paper discusses how quantitative data analysis in the social sciences can engage with and exploit an e-Infrastructure. We highlight how a number of activities which are central to quantitative data analysis, referred to as ‘data management’, can benefit from e-infrastructure support. We conclude by discussing how these issues are relevant to the DAMES (Data Management through e-Social Science) research Node, an ongoing project that aims to develop e-Infrastructural resources for quantitative data analysis in the social sciences
Enhancing speed and scalability of the ParFlow simulation code
Regional hydrology studies are often supported by high resolution simulations
of subsurface flow that require expensive and extensive computations. Efficient
usage of the latest high performance parallel computing systems becomes a
necessity. The simulation software ParFlow has been demonstrated to meet this
requirement and shown to have excellent solver scalability for up to 16,384
processes. In the present work we show that the code requires further
enhancements in order to fully take advantage of current petascale machines. We
identify ParFlow's way of parallelization of the computational mesh as a
central bottleneck. We propose to reorganize this subsystem using fast mesh
partition algorithms provided by the parallel adaptive mesh refinement library
p4est. We realize this in a minimally invasive manner by modifying selected
parts of the code to reinterpret the existing mesh data structures. We evaluate
the scaling performance of the modified version of ParFlow, demonstrating good
weak and strong scaling up to 458k cores of the Juqueen supercomputer, and test
an example application at large scale.Comment: The final publication is available at link.springer.co
trackr: A Framework for Enhancing Discoverability and Reproducibility of Data Visualizations and Other Artifacts in R
Research is an incremental, iterative process, with new results relying and
building upon previous ones. Scientists need to find, retrieve, understand, and
verify results in order to confidently extend them, even when the results are
their own. We present the trackr framework for organizing, automatically
annotating, discovering, and retrieving results. We identify sources of
automatically extractable metadata for computational results, and we define an
extensible system for organizing, annotating, and searching for results based
on these and other metadata. We present an open-source implementation of these
concepts for plots, computational artifacts, and woven dynamic reports
generated in the R statistical computing language
Enhancing Workflow with a Semantic Description of Scientific Intent
Peer reviewedPreprin
CHORUS Deliverable 3.3: Vision Document - Intermediate version
The goal of the CHORUS vision document is to create a high level vision on audio-visual search engines in order to give guidance to the future R&D work in this area (in line with the mandate of CHORUS as a Coordination Action).
This current intermediate draft of the CHORUS vision document (D3.3) is based on the previous CHORUS vision documents D3.1 to D3.2 and on the results of the six CHORUS Think-Tank meetings held in March, September and November 2007 as well as in April, July and October 2008, and on the feedback from other CHORUS events.
The outcome of the six Think-Thank meetings will not just be to the benefit of the participants which are stakeholders and experts from academia and industry – CHORUS, as a coordination action of the EC, will feed back the findings (see Summary) to the projects under its purview and, via its website, to the whole community working in the domain of AV content search.
A few subjections of this deliverable are to be completed after the eights (and presumably last) Think-Tank meeting in spring 2009
User Applications Driven by the Community Contribution Framework MPContribs in the Materials Project
This work discusses how the MPContribs framework in the Materials Project
(MP) allows user-contributed data to be shown and analyzed alongside the core
MP database. The Materials Project is a searchable database of electronic
structure properties of over 65,000 bulk solid materials that is accessible
through a web-based science-gateway. We describe the motivation for enabling
user contributions to the materials data and present the framework's features
and challenges in the context of two real applications. These use-cases
illustrate how scientific collaborations can build applications with their own
"user-contributed" data using MPContribs. The Nanoporous Materials Explorer
application provides a unique search interface to a novel dataset of hundreds
of thousands of materials, each with tables of user-contributed values related
to material adsorption and density at varying temperature and pressure. The
Unified Theoretical and Experimental x-ray Spectroscopy application discusses a
full workflow for the association, dissemination and combined analyses of
experimental data from the Advanced Light Source with MP's theoretical core
data, using MPContribs tools for data formatting, management and exploration.
The capabilities being developed for these collaborations are serving as the
model for how new materials data can be incorporated into the Materials Project
website with minimal staff overhead while giving powerful tools for data search
and display to the user community.Comment: 12 pages, 5 figures, Proceedings of 10th Gateway Computing
Environments Workshop (2015), to be published in "Concurrency in Computation:
Practice and Experience
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