Hooke: an open software platform for force spectroscopy.

Science.gov (United States)

Sandal, Massimo; Benedetti, Fabrizio; Brucale, Marco; Gomez-Casado, Alberto; Samorì, Bruno

2009-06-01

Hooke is an open source, extensible software intended for analysis of atomic force microscope (AFM)-based single molecule force spectroscopy (SMFS) data. We propose it as a platform on which published and new algorithms for SMFS analysis can be integrated in a standard, open fashion, as a general solution to the current lack of a standard software for SMFS data analysis. Specific features and support for file formats are coded as independent plugins. Any user can code new plugins, extending the software capabilities. Basic automated dataset filtering and semi-automatic analysis facilities are included. Software and documentation are available at (http://code.google.com/p/hooke). Hooke is a free software under the GNU Lesser General Public License.

CILogon: An Integrated Identity and Access Management Platform for Science

Science.gov (United States)

Basney, J.

2016-12-01

When scientists work together, they use web sites and other software to share their ideas and data. To ensure the integrity of their work, these systems require the scientists to log in and verify that they are part of the team working on a particular science problem. Too often, the identity and access verification process is a stumbling block for the scientists. Scientific research projects are forced to invest time and effort into developing and supporting Identity and Access Management (IAM) services, distracting them from the core goals of their research collaboration. CILogon provides an IAM platform that enables scientists to work together to meet their IAM needs more effectively so they can allocate more time and effort to their core mission of scientific research. The CILogon platform enables federated identity management and collaborative organization management. Federated identity management enables researchers to use their home organization identities to access cyberinfrastructure, rather than requiring yet another username and password to log on. Collaborative organization management enables research projects to define user groups for authorization to collaboration platforms (e.g., wikis, mailing lists, and domain applications). CILogon's IAM platform serves the unique needs of research collaborations, namely the need to dynamically form collaboration groups across organizations and countries, sharing access to data, instruments, compute clusters, and other resources to enable scientific discovery. CILogon provides a software-as-a-service platform to ease integration with cyberinfrastructure, while making all software components publicly available under open source licenses to enable re-use. Figure 1 illustrates the components and interfaces of this platform. CILogon has been operational since 2010 and has been used by over 7,000 researchers from more than 170 identity providers to access cyberinfrastructure including Globus, LIGO, Open Science Grid

Aluminum nitride integrated photonics platform for the ultraviolet to visible spectrum.

Science.gov (United States)

Lu, Tsung-Ju; Fanto, Michael; Choi, Hyeongrak; Thomas, Paul; Steidle, Jeffrey; Mouradian, Sara; Kong, Wei; Zhu, Di; Moon, Hyowon; Berggren, Karl; Kim, Jeehwan; Soltani, Mohammad; Preble, Stefan; Englund, Dirk

2018-04-30

We demonstrate a wide-bandgap semiconductor photonics platform based on nanocrystalline aluminum nitride (AlN) on sapphire. This photonics platform guides light at low loss from the ultraviolet (UV) to the visible spectrum. We measure ring resonators with intrinsic quality factor (Q) exceeding 170,000 at 638 nm and Q >20,000 down to 369.5 nm, which shows a promising path for low-loss integrated photonics in UV and visible spectrum. This platform opens up new possibilities in integrated quantum optics with trapped ions or atom-like color centers in solids, as well as classical applications including nonlinear optics and on-chip UV-spectroscopy.

An open source platform for multi-scale spatially distributed simulations of microbial ecosystems

Energy Technology Data Exchange (ETDEWEB)

Segre, Daniel [Boston Univ., MA (United States)

2014-08-14

The goal of this project was to develop a tool for facilitating simulation, validation and discovery of multiscale dynamical processes in microbial ecosystems. This led to the development of an open-source software platform for Computation Of Microbial Ecosystems in Time and Space (COMETS). COMETS performs spatially distributed time-dependent flux balance based simulations of microbial metabolism. Our plan involved building the software platform itself, calibrating and testing it through comparison with experimental data, and integrating simulations and experiments to address important open questions on the evolution and dynamics of cross-feeding interactions between microbial species.

Literature evidence in open targets - a target validation platform.

Science.gov (United States)

Kafkas, Şenay; Dunham, Ian; McEntyre, Johanna

2017-06-06

We present the Europe PMC literature component of Open Targets - a target validation platform that integrates various evidence to aid drug target identification and validation. The component identifies target-disease associations in documents and ranks the documents based on their confidence from the Europe PMC literature database, by using rules utilising expert-provided heuristic information. The confidence score of a given document represents how valuable the document is in the scope of target validation for a given target-disease association by taking into account the credibility of the association based on the properties of the text. The component serves the platform regularly with the up-to-date data since December, 2015. Currently, there are a total number of 1168365 distinct target-disease associations text mined from >26 million PubMed abstracts and >1.2 million Open Access full text articles. Our comparative analyses on the current available evidence data in the platform revealed that 850179 of these associations are exclusively identified by literature mining. This component helps the platform's users by providing the most relevant literature hits for a given target and disease. The text mining evidence along with the other types of evidence can be explored visually through https://www.targetvalidation.org and all the evidence data is available for download in json format from https://www.targetvalidation.org/downloads/data .

Technologies Connotation and Developing Characteristics of Open Geospatial Information Platform

Directory of Open Access Journals (Sweden)

GUO Renzhong

2016-02-01

Full Text Available Based on the background of developments of surveying,mapping and geoinformation,aimed at the demands of data fusion,real-time sharing,in-depth processing and personalization,this paper analyzes significant features of geo-spatial service in digital city,focuses on theory,method and key techniques of open environment of cloud computing,multi-path data updating,full-scale urban geocoding,multi-source spatial data integration,adaptive geo-processing and adaptive Web mapping.As the basis for it,the Open Geospatial information platform is developed,and successfully implicated in digital Shenzhen.

From WSN towards WoT: Open API Scheme Based on oneM2M Platforms

Science.gov (United States)

Kim, Jaeho; Choi, Sung-Chan; Ahn, Il-Yeup; Sung, Nak-Myoung; Yun, Jaeseok

2016-01-01

Conventional computing systems have been able to be integrated into daily objects and connected to each other due to advances in computing and network technologies, such as wireless sensor networks (WSNs), forming a global network infrastructure, called the Internet of Things (IoT). To support the interconnection and interoperability between heterogeneous IoT systems, the availability of standardized, open application programming interfaces (APIs) is one of the key features of common software platforms for IoT devices, gateways, and servers. In this paper, we present a standardized way of extending previously-existing WSNs towards IoT systems, building the world of the Web of Things (WoT). Based on the oneM2M software platforms developed in the previous project, we introduce a well-designed open API scheme and device-specific thing adaptation software (TAS) enabling WSN elements, such as a wireless sensor node, to be accessed in a standardized way on a global scale. Three pilot services are implemented (i.e., a WiFi-enabled smart flowerpot, voice-based control for ZigBee-connected home appliances, and WiFi-connected AR.Drone control) to demonstrate the practical usability of the open API scheme and TAS modules. Full details on the method of integrating WSN elements into three example systems are described at the programming code level, which is expected to help future researchers in integrating their WSN systems in IoT platforms, such as oneM2M. We hope that the flexibly-deployable, easily-reusable common open API scheme and TAS-based integration method working with the oneM2M platforms will help the conventional WSNs in diverse industries evolve into the emerging WoT solutions. PMID:27782058

From WSN towards WoT: Open API Scheme Based on oneM2M Platforms

Directory of Open Access Journals (Sweden)

Jaeho Kim

2016-10-01

Full Text Available Conventional computing systems have been able to be integrated into daily objects and connected to each other due to advances in computing and network technologies, such as wireless sensor networks (WSNs, forming a global network infrastructure, called the Internet of Things (IoT. To support the interconnection and interoperability between heterogeneous IoT systems, the availability of standardized, open application programming interfaces (APIs is one of the key features of common software platforms for IoT devices, gateways, and servers. In this paper, we present a standardized way of extending previously-existing WSNs towards IoT systems, building the world of the Web of Things (WoT. Based on the oneM2M software platforms developed in the previous project, we introduce a well-designed open API scheme and device-specific thing adaptation software (TAS enabling WSN elements, such as a wireless sensor node, to be accessed in a standardized way on a global scale. Three pilot services are implemented (i.e., a WiFi-enabled smart flowerpot, voice-based control for ZigBee-connected home appliances, and WiFi-connected AR.Drone control to demonstrate the practical usability of the open API scheme and TAS modules. Full details on the method of integrating WSN elements into three example systems are described at the programming code level, which is expected to help future researchers in integrating their WSN systems in IoT platforms, such as oneM2M. We hope that the flexibly-deployable, easily-reusable common open API scheme and TAS-based integration method working with the oneM2M platforms will help the conventional WSNs in diverse industries evolve into the emerging WoT solutions.

From WSN towards WoT: Open API Scheme Based on oneM2M Platforms.

Science.gov (United States)

Kim, Jaeho; Choi, Sung-Chan; Ahn, Il-Yeup; Sung, Nak-Myoung; Yun, Jaeseok

2016-10-06

Conventional computing systems have been able to be integrated into daily objects and connected to each other due to advances in computing and network technologies, such as wireless sensor networks (WSNs), forming a global network infrastructure, called the Internet of Things (IoT). To support the interconnection and interoperability between heterogeneous IoT systems, the availability of standardized, open application programming interfaces (APIs) is one of the key features of common software platforms for IoT devices, gateways, and servers. In this paper, we present a standardized way of extending previously-existing WSNs towards IoT systems, building the world of the Web of Things (WoT). Based on the oneM2M software platforms developed in the previous project, we introduce a well-designed open API scheme and device-specific thing adaptation software (TAS) enabling WSN elements, such as a wireless sensor node, to be accessed in a standardized way on a global scale. Three pilot services are implemented (i.e., a WiFi-enabled smart flowerpot, voice-based control for ZigBee-connected home appliances, and WiFi-connected AR.Drone control) to demonstrate the practical usability of the open API scheme and TAS modules. Full details on the method of integrating WSN elements into three example systems are described at the programming code level, which is expected to help future researchers in integrating their WSN systems in IoT platforms, such as oneM2M. We hope that the flexibly-deployable, easily-reusable common open API scheme and TAS-based integration method working with the oneM2M platforms will help the conventional WSNs in diverse industries evolve into the emerging WoT solutions.

Lattice QCD simulations using the OpenACC platform

International Nuclear Information System (INIS)

Majumdar, Pushan

2016-01-01

In this article we will explore the OpenACC platform for programming Graphics Processing Units (GPUs). The OpenACC platform offers a directive based programming model for GPUs which avoids the detailed data flow control and memory management necessary in a CUDA programming environment. In the OpenACC model, programs can be written in high level languages with OpenMP like directives. We present some examples of QCD simulation codes using OpenACC and discuss their performance on the Fermi and Kepler GPUs. (paper)

An Integrated System for Disabled People Developed with the Agent Platform PANGEA

Directory of Open Access Journals (Sweden)

Carolina ZATO

2013-11-01

Full Text Available New trends in multi-agent systems call for self-adaptation and high dynamics, hence the new model of open MAS or virtual organization of agents. However, as existing agent platforms are not yet equipped to support this behavior, it is necessary to create new systems and mechanisms to facilitate the development of these new architectures. This article presents PANGEA, an agent platform to develop open multi-agent systems, specifically those including organizational aspects such as virtual agent organizations. The platform allows the integral management of organizations and offers tools to the end user. Additionally, it includes a communication protocol based on the IRC standard, which facilitates implementation and remains robust even with a large number of connections. The introduction of a CommunicationAgent and a Sniffer make it possible to offer Web Services for the distributed control of interaction. In order to test PANGEA, an integral system was developed to help the disabled, gathering a set of easily deployable and integrated services under a single architecture.

The development of an open platform to test ITS solutions

DEFF Research Database (Denmark)

Lahrmann, Harry; Agerholm, Niels; Juhl, Jens

2013-01-01

This paper presents the ITS Platform Northern Denmark, which is an open platform to test ITS solutions. The platform consists of a new developed GNSS/GPRS On Board Unit installed in nearly 500 cars, a backend server and a specially designed digital road map for ITS applications. The platform is o...... is open for third part application. This paper presents the platform’s potentials and explains a series of test applications, which are developed on the plat- form. Moreover, a number of new projects, which are planned for ITS Platform is introduced.......This paper presents the ITS Platform Northern Denmark, which is an open platform to test ITS solutions. The platform consists of a new developed GNSS/GPRS On Board Unit installed in nearly 500 cars, a backend server and a specially designed digital road map for ITS applications. The platform...

Fiji: an open-source platform for biological-image analysis.

Science.gov (United States)

Schindelin, Johannes; Arganda-Carreras, Ignacio; Frise, Erwin; Kaynig, Verena; Longair, Mark; Pietzsch, Tobias; Preibisch, Stephan; Rueden, Curtis; Saalfeld, Stephan; Schmid, Benjamin; Tinevez, Jean-Yves; White, Daniel James; Hartenstein, Volker; Eliceiri, Kevin; Tomancak, Pavel; Cardona, Albert

2012-06-28

Fiji is a distribution of the popular open-source software ImageJ focused on biological-image analysis. Fiji uses modern software engineering practices to combine powerful software libraries with a broad range of scripting languages to enable rapid prototyping of image-processing algorithms. Fiji facilitates the transformation of new algorithms into ImageJ plugins that can be shared with end users through an integrated update system. We propose Fiji as a platform for productive collaboration between computer science and biology research communities.

Future of Hydroinformatics: Towards Open, Integrated and Interactive Online Platforms

Science.gov (United States)

Demir, I.; Krajewski, W. F.

2012-12-01

Hydroinformatics is a domain of science and technology dealing with the management of information in the field of hydrology (IWA, 2011). There is the need for innovative solutions to the challenges towards open information, integration, and communication in the Internet. This presentation provides an overview of the trends and challenges in the future of hydroinformatics, and demonstrates an information system, Iowa Flood Information System (IFIS), developed within the light of these challenges. The IFIS is a web-based platform developed by the Iowa Flood Center (IFC) to provide access to flood inundation maps, real-time flood conditions, flood forecasts both short-term and seasonal, flood-related data, information and interactive visualizations for communities in Iowa. The key element of the system's architecture is the notion of community. Locations of the communities, those near streams and rivers, define basin boundaries. The IFIS provides community-centric watershed and river characteristics, weather (rainfall) conditions, and streamflow data and visualization tools. Interactive interfaces allow access to inundation maps for different stage and return period values, and flooding scenarios with contributions from multiple rivers. Real-time and historical data of water levels, gauge heights, and rainfall conditions are available in the IFIS by streaming data from automated IFC bridge sensors, USGS stream gauges, NEXRAD radars, and NWS forecasts. 2D and 3D interactive visualizations in the IFIS make the data more understandable to general public. Users are able to filter data sources for their communities and selected rivers. The data and information on IFIS is also accessible through web services and mobile applications. The IFIS is optimized for various browsers and screen sizes to provide access through multiple platforms including tablets and mobile devices. The IFIS includes a rainfall-runoff forecast model to provide a five-day flood risk estimate for more

Develop Direct Geo-referencing System Based on Open Source Software and Hardware Platform

Directory of Open Access Journals (Sweden)

H. S. Liu

2015-08-01

Full Text Available Direct geo-referencing system uses the technology of remote sensing to quickly grasp images, GPS tracks, and camera position. These data allows the construction of large volumes of images with geographic coordinates. So that users can be measured directly on the images. In order to properly calculate positioning, all the sensor signals must be synchronized. Traditional aerial photography use Position and Orientation System (POS to integrate image, coordinates and camera position. However, it is very expensive. And users could not use the result immediately because the position information does not embed into image. To considerations of economy and efficiency, this study aims to develop a direct geo-referencing system based on open source software and hardware platform. After using Arduino microcontroller board to integrate the signals, we then can calculate positioning with open source software OpenCV. In the end, we use open source panorama browser, panini, and integrate all these to open source GIS software, Quantum GIS. A wholesome collection of data – a data processing system could be constructed.

Develop Direct Geo-referencing System Based on Open Source Software and Hardware Platform

Science.gov (United States)

Liu, H. S.; Liao, H. M.

2015-08-01

Direct geo-referencing system uses the technology of remote sensing to quickly grasp images, GPS tracks, and camera position. These data allows the construction of large volumes of images with geographic coordinates. So that users can be measured directly on the images. In order to properly calculate positioning, all the sensor signals must be synchronized. Traditional aerial photography use Position and Orientation System (POS) to integrate image, coordinates and camera position. However, it is very expensive. And users could not use the result immediately because the position information does not embed into image. To considerations of economy and efficiency, this study aims to develop a direct geo-referencing system based on open source software and hardware platform. After using Arduino microcontroller board to integrate the signals, we then can calculate positioning with open source software OpenCV. In the end, we use open source panorama browser, panini, and integrate all these to open source GIS software, Quantum GIS. A wholesome collection of data - a data processing system could be constructed.

OpenML : An R package to connect to the machine learning platform OpenML

NARCIS (Netherlands)

Casalicchio, G.; Bossek, J.; Lang, M.; Kirchhoff, D.; Kerschke, P.; Hofner, B.; Seibold, H.; Vanschoren, J.; Bischl, B.

2017-01-01

OpenML is an online machine learning platform where researchers can easily share data, machine learning tasks and experiments as well as organize them online to work and collaborate more efficiently. In this paper, we present an R package to interface with the OpenML platform and illustrate its

Automation on an Open-Access Platform of Alzheimer's Disease Biomarker Immunoassays.

Science.gov (United States)

Gille, Benjamin; Dedeene, Lieselot; Stoops, Erik; Demeyer, Leentje; Francois, Cindy; Lefever, Stefanie; De Schaepdryver, Maxim; Brix, Britta; Vandenberghe, Rik; Tournoy, Jos; Vanderstichele, Hugo; Poesen, Koen

2018-04-01

The lack of (inter-)laboratory standardization has hampered the application of universal cutoff values for Alzheimer's disease (AD) cerebrospinal fluid (CSF) biomarkers and their transfer to general clinical practice. The automation of the AD biomarker immunoassays is suggested to generate more robust results than using manual testing. Open-access platforms will facilitate the integration of automation for novel biomarkers, allowing the introduction of the protein profiling concept. A feasibility study was performed on an automated open-access platform of the commercial immunoassays for the 42-amino-acid isoform of amyloid-β (Aβ 1-42 ), Aβ 1-40 , and total tau in CSF. Automated Aβ 1-42 , Aβ 1-40 , and tau immunoassays were performed within predefined acceptance criteria for bias and imprecision. Similar accuracy was obtained for ready-to-use calibrators as for reconstituted lyophilized kit calibrators. When compared with the addition of a standard curve in each test run, the use of a master calibrator curve, determined before and applied to each batch analysis as the standard curve, yielded an acceptable overall bias of -2.6% and -0.9% for Aβ 1-42 and Aβ 1-40 , respectively, with an imprecision profile of 6.2% and 8.4%, respectively. Our findings show that transfer of commercial manual immunoassays to fully automated open-access platforms is feasible, as it performs according to universal acceptance criteria.

ON CODE REFACTORING OF THE DIALOG SUBSYSTEM OF CDSS PLATFORM FOR THE OPEN-SOURCE MIS OPENMRS

Directory of Open Access Journals (Sweden)

A. V. Semenets

2016-08-01

The open-source MIS OpenMRS developer tools and software API are reviewed. The results of code refactoring of the dialog subsystem of the CDSS platform which is made as module for the open-source MIS OpenMRS are presented. The structure of information model of database of the CDSS dialog subsystem was updated according with MIS OpenMRS requirements. The Model-View-Controller (MVC based approach to the CDSS dialog subsystem architecture was re-implemented with Java programming language using Spring and Hibernate frameworks. The MIS OpenMRS Encounter portlet form for the CDSS dialog subsystem integration is developed as an extension. The administrative module of the CDSS platform is recreated. The data exchanging formats and methods for interaction of OpenMRS CDSS dialog subsystem module and DecisionTree GAE service are re-implemented with help of AJAX technology via jQuery library

OpenStax Connexion versus Wikibooks: A Comparative Analysis of Platforms for the Creation of Open Books

Directory of Open Access Journals (Sweden)

Carlos Manuel SECO

2017-02-01

Full Text Available Social and cultural changes that are present in contemporary societies, namely in what concerns the creation, management and dissemination of knowledge, are conducting us to a world of shared, collaborative and collective information. In that context, Open Educational Resources (OERs and Open Educational Practices (OEPs, constitute two essential dimensions of Open Education through which it is possible to promote more equity in a society where Education is more free, accessible and available for all. It is in this framework that we focus, in this paper, on the question of the production of Open Books. We compare two platforms, OpenStax Connexion and Wikibooks, in order to identify the advantages and disadvantages of each of them to support the production of Open Books that can be used as Open Educational Resources in the context of Open Educational Practices. We analyze in detail each of the mentioned platforms and present a comparative grid, with a comparative view of each of the platforms. At the end, we identify useful indicators to make the choices of what platform best fits the proposed objectives of the creation of REAs and PEAs.

Design a platform of open Access to scientific information management

Directory of Open Access Journals (Sweden)

Alexander Mackenzie Rivero

2016-08-01

Full Text Available This present research is based on the creation of a proposed open source platform for the management of scientific information in the National Agricultural Research Institute (INIA, which will allow the creation of a network of distributed knowledge specialized in agricultural science and technology , to ensure security and data integrity, access levels, open source, adapted to new needs, accessible from any location, ruled by international regulations and standards, ensuring access regardless of used operating system. By using the WAN data network installed in the institution. Making the agricultural sector information held by the institution available and accesible with the power of Internet broadcast. Thus the institution has a tool that integrates information currently scattered throughout the country agricultural sector. This research is framed within the modality of feasible project, also is based on a documentary and descriptive design.

SystemC Transaction-Level Modeling of an MPSoC Platform Based on an Open Source ISS by Using Interprocess Communication

Directory of Open Access Journals (Sweden)

Sami Boukhechem

2008-01-01

Full Text Available Transaction-level modeling (TLM is a promising technique to deal with the increasing complexity of modern embedded systems. This model allows a system designer to model a complete application, composed of hardware and software parts, at several levels of abstraction. For this purpose, we use systemC, which is proposed as a standardized modeling language. This paper presents a transaction-level modeling cosimulation methodology for modeling, validating, and verifying our embedded open architecture platform. The proposed platform is an open source multiprocessor system-on-chip (MPSoC platform, integrated under the synthesis tool for adaptive and reconfigurable system-on-chip (STARSoC environment. It relies on the integration between an open source instruction set simulators (ISSs, OR1Ksim platform, and the systemC simulation environment which contains other components (wishbone bus, memories, …, etc.. The aim of this work is to provide designers with the possibility of faster and efficient architecture exploration at a higher level of abstractions, starting from an algorithmic description to implementation details.

Complementors as Connectors: Open Innovation in Digital Product Platforms

NARCIS (Netherlands)

Hilbolling, Susan; Berends, Hans; Deken, F.; Tuertscher, Philipp

2018-01-01

Through open, standardized interfaces, autonomous third parties can develop complementary products and services for digital product platforms, but, at the same time, these third parties also establish connections that span multiple platforms - beyond the control of the platform owner. This paper

Rich open educational resources for personal and inquiry learning : Agile creation, sharing and reuse in educational social media platforms

NARCIS (Netherlands)

Rodríguez-Triana, María Jesús; Govaerts, Sten; Halimi, Wissam; Holzer, Adrian; Salzmann, Christophe; Vozniuk, Andrii; De Jong, Ton; Sotirou, Sofoklis; Gillet, Denis

2015-01-01

Open Educational Resources (OERs) are freely accessible, openly licensed multimedia documents or interactive tools that can be typically integrated in Learning Management Systems to support courses. With social media platforms becoming the central piece of the students' digital ecosystem, there is

Targeting multiple heterogeneous hardware platforms with OpenCL

Science.gov (United States)

Fox, Paul A.; Kozacik, Stephen T.; Humphrey, John R.; Paolini, Aaron; Kuller, Aryeh; Kelmelis, Eric J.

2014-06-01

The OpenCL API allows for the abstract expression of parallel, heterogeneous computing, but hardware implementations have substantial implementation differences. The abstractions provided by the OpenCL API are often insufficiently high-level to conceal differences in hardware architecture. Additionally, implementations often do not take advantage of potential performance gains from certain features due to hardware limitations and other factors. These factors make it challenging to produce code that is portable in practice, resulting in much OpenCL code being duplicated for each hardware platform being targeted. This duplication of effort offsets the principal advantage of OpenCL: portability. The use of certain coding practices can mitigate this problem, allowing a common code base to be adapted to perform well across a wide range of hardware platforms. To this end, we explore some general practices for producing performant code that are effective across platforms. Additionally, we explore some ways of modularizing code to enable optional optimizations that take advantage of hardware-specific characteristics. The minimum requirement for portability implies avoiding the use of OpenCL features that are optional, not widely implemented, poorly implemented, or missing in major implementations. Exposing multiple levels of parallelism allows hardware to take advantage of the types of parallelism it supports, from the task level down to explicit vector operations. Static optimizations and branch elimination in device code help the platform compiler to effectively optimize programs. Modularization of some code is important to allow operations to be chosen for performance on target hardware. Optional subroutines exploiting explicit memory locality allow for different memory hierarchies to be exploited for maximum performance. The C preprocessor and JIT compilation using the OpenCL runtime can be used to enable some of these techniques, as well as to factor in hardware

LabKey Server: An open source platform for scientific data integration, analysis and collaboration

Science.gov (United States)

2011-01-01

Background Broad-based collaborations are becoming increasingly common among disease researchers. For example, the Global HIV Enterprise has united cross-disciplinary consortia to speed progress towards HIV vaccines through coordinated research across the boundaries of institutions, continents and specialties. New, end-to-end software tools for data and specimen management are necessary to achieve the ambitious goals of such alliances. These tools must enable researchers to organize and integrate heterogeneous data early in the discovery process, standardize processes, gain new insights into pooled data and collaborate securely. Results To meet these needs, we enhanced the LabKey Server platform, formerly known as CPAS. This freely available, open source software is maintained by professional engineers who use commercially proven practices for software development and maintenance. Recent enhancements support: (i) Submitting specimens requests across collaborating organizations (ii) Graphically defining new experimental data types, metadata and wizards for data collection (iii) Transitioning experimental results from a multiplicity of spreadsheets to custom tables in a shared database (iv) Securely organizing, integrating, analyzing, visualizing and sharing diverse data types, from clinical records to specimens to complex assays (v) Interacting dynamically with external data sources (vi) Tracking study participants and cohorts over time (vii) Developing custom interfaces using client libraries (viii) Authoring custom visualizations in a built-in R scripting environment. Diverse research organizations have adopted and adapted LabKey Server, including consortia within the Global HIV Enterprise. Atlas is an installation of LabKey Server that has been tailored to serve these consortia. It is in production use and demonstrates the core capabilities of LabKey Server. Atlas now has over 2,800 active user accounts originating from approximately 36 countries and 350

LabKey Server: An open source platform for scientific data integration, analysis and collaboration

Directory of Open Access Journals (Sweden)

Lum Karl

2011-03-01

Full Text Available Abstract Background Broad-based collaborations are becoming increasingly common among disease researchers. For example, the Global HIV Enterprise has united cross-disciplinary consortia to speed progress towards HIV vaccines through coordinated research across the boundaries of institutions, continents and specialties. New, end-to-end software tools for data and specimen management are necessary to achieve the ambitious goals of such alliances. These tools must enable researchers to organize and integrate heterogeneous data early in the discovery process, standardize processes, gain new insights into pooled data and collaborate securely. Results To meet these needs, we enhanced the LabKey Server platform, formerly known as CPAS. This freely available, open source software is maintained by professional engineers who use commercially proven practices for software development and maintenance. Recent enhancements support: (i Submitting specimens requests across collaborating organizations (ii Graphically defining new experimental data types, metadata and wizards for data collection (iii Transitioning experimental results from a multiplicity of spreadsheets to custom tables in a shared database (iv Securely organizing, integrating, analyzing, visualizing and sharing diverse data types, from clinical records to specimens to complex assays (v Interacting dynamically with external data sources (vi Tracking study participants and cohorts over time (vii Developing custom interfaces using client libraries (viii Authoring custom visualizations in a built-in R scripting environment. Diverse research organizations have adopted and adapted LabKey Server, including consortia within the Global HIV Enterprise. Atlas is an installation of LabKey Server that has been tailored to serve these consortia. It is in production use and demonstrates the core capabilities of LabKey Server. Atlas now has over 2,800 active user accounts originating from approximately 36

LabKey Server: an open source platform for scientific data integration, analysis and collaboration.

Science.gov (United States)

Nelson, Elizabeth K; Piehler, Britt; Eckels, Josh; Rauch, Adam; Bellew, Matthew; Hussey, Peter; Ramsay, Sarah; Nathe, Cory; Lum, Karl; Krouse, Kevin; Stearns, David; Connolly, Brian; Skillman, Tom; Igra, Mark

2011-03-09

Broad-based collaborations are becoming increasingly common among disease researchers. For example, the Global HIV Enterprise has united cross-disciplinary consortia to speed progress towards HIV vaccines through coordinated research across the boundaries of institutions, continents and specialties. New, end-to-end software tools for data and specimen management are necessary to achieve the ambitious goals of such alliances. These tools must enable researchers to organize and integrate heterogeneous data early in the discovery process, standardize processes, gain new insights into pooled data and collaborate securely. To meet these needs, we enhanced the LabKey Server platform, formerly known as CPAS. This freely available, open source software is maintained by professional engineers who use commercially proven practices for software development and maintenance. Recent enhancements support: (i) Submitting specimens requests across collaborating organizations (ii) Graphically defining new experimental data types, metadata and wizards for data collection (iii) Transitioning experimental results from a multiplicity of spreadsheets to custom tables in a shared database (iv) Securely organizing, integrating, analyzing, visualizing and sharing diverse data types, from clinical records to specimens to complex assays (v) Interacting dynamically with external data sources (vi) Tracking study participants and cohorts over time (vii) Developing custom interfaces using client libraries (viii) Authoring custom visualizations in a built-in R scripting environment. Diverse research organizations have adopted and adapted LabKey Server, including consortia within the Global HIV Enterprise. Atlas is an installation of LabKey Server that has been tailored to serve these consortia. It is in production use and demonstrates the core capabilities of LabKey Server. Atlas now has over 2,800 active user accounts originating from approximately 36 countries and 350 organizations. It tracks

The Innovative Capabilities Of Digital Payment Platforms

DEFF Research Database (Denmark)

Kazan, Erol

2015-01-01

This study presents a model for studying the innovative capabilities of digital payment platforms in regards to open innovation integration and commercialization. We perceive digital platforms as layered modular IT artifacts, where platform governance and the configuration of platform layers impact...... the support for open innovation. The proposed model has been employed in a comparative case study between two digital payment platforms: Apple Pay and Google Wallet. The findings suggest that digital payment platforms make use of boundary resources to be highly integrative or integratable, which supports...... the intended conjoint commercialization efforts. Furthermore, the architectural design of digital platforms impacts the access to commercialization, resulting to an exclusion or inclusion strategy in accessing value opportunities. Our findings contribute to the open innovation and digital platform literature...

BUILDING A COMPLETE FREE AND OPEN SOURCE GIS INFRASTRUCTURE FOR HYDROLOGICAL COMPUTING AND DATA PUBLICATION USING GIS.LAB AND GISQUICK PLATFORMS

Directory of Open Access Journals (Sweden)

M. Landa

2017-07-01

Full Text Available Building a complete free and open source GIS computing and data publication platform can be a relatively easy task. This paper describes an automated deployment of such platform using two open source software projects – GIS.lab and Gisquick. GIS.lab (http: //web.gislab.io is a project for rapid deployment of a complete, centrally managed and horizontally scalable GIS infrastructure in the local area network, data center or cloud. It provides a comprehensive set of free geospatial software seamlessly integrated into one, easy-to-use system. A platform for GIS computing (in our case demonstrated on hydrological data processing requires core components as a geoprocessing server, map server, and a computation engine as eg. GRASS GIS, SAGA, or other similar GIS software. All these components can be rapidly, and automatically deployed by GIS.lab platform. In our demonstrated solution PyWPS is used for serving WPS processes built on the top of GRASS GIS computation platform. GIS.lab can be easily extended by other components running in Docker containers. This approach is shown on Gisquick seamless integration. Gisquick (http://gisquick.org is an open source platform for publishing geospatial data in the sense of rapid sharing of QGIS projects on the web. The platform consists of QGIS plugin, Django-based server application, QGIS server, and web/mobile clients. In this paper is shown how to easily deploy complete open source GIS infrastructure allowing all required operations as data preparation on desktop, data sharing, and geospatial computation as the service. It also includes data publication in the sense of OGC Web Services and importantly also as interactive web mapping applications.

Emerging heterogeneous integrated photonic platforms on silicon

Directory of Open Access Journals (Sweden)

Fathpour Sasan

2015-05-01

Full Text Available Silicon photonics has been established as a mature and promising technology for optoelectronic integrated circuits, mostly based on the silicon-on-insulator (SOI waveguide platform. However, not all optical functionalities can be satisfactorily achieved merely based on silicon, in general, and on the SOI platform, in particular. Long-known shortcomings of silicon-based integrated photonics are optical absorption (in the telecommunication wavelengths and feasibility of electrically-injected lasers (at least at room temperature. More recently, high two-photon and free-carrier absorptions required at high optical intensities for third-order optical nonlinear effects, inherent lack of second-order optical nonlinearity, low extinction ratio of modulators based on the free-carrier plasma effect, and the loss of the buried oxide layer of the SOI waveguides at mid-infrared wavelengths have been recognized as other shortcomings. Accordingly, several novel waveguide platforms have been developing to address these shortcomings of the SOI platform. Most of these emerging platforms are based on heterogeneous integration of other material systems on silicon substrates, and in some cases silicon is integrated on other substrates. Germanium and its binary alloys with silicon, III–V compound semiconductors, silicon nitride, tantalum pentoxide and other high-index dielectric or glass materials, as well as lithium niobate are some of the materials heterogeneously integrated on silicon substrates. The materials are typically integrated by a variety of epitaxial growth, bonding, ion implantation and slicing, etch back, spin-on-glass or other techniques. These wide range of efforts are reviewed here holistically to stress that there is no pure silicon or even group IV photonics per se. Rather, the future of the field of integrated photonics appears to be one of heterogenization, where a variety of different materials and waveguide platforms will be used for

Demo abstract: Flexhouse-2-an open source building automation platform with a focus on flexible control

DEFF Research Database (Denmark)

Gehrke, Oliver; Kosek, Anna Magdalena; Svendsen, Mathias

2014-01-01

, an open-source implementation of a building automation system which has been designed with a strong focus on enabling the integration of the building into a smart power system and dedicated support for the requirements of an R&D environment. We will demonstrate the need for such a platform, discuss...

POKEHEAD: An Open Source Interactive Headphone Based HCI Platform

DEFF Research Database (Denmark)

Højlund, Marie; Trento, Stefano; Goudarzi, Visda

2012-01-01

This paper introduces a novel interactive, human-computer interface and remote social communication system based on an augmented, hi-fidelity audio headphone platform. Specifically, this system- named Pokehead, currently utilizes the DUL embedded open-source accelerometer platform to gather 3-axis......, open source implementation. Our rapid prototype proved to be robust enough to work in performance for demonstration purposes and serves as a working proof of concept. In this paper we provide a technical description of our prototype, illustrate the context and motivation behind the project, and offer...

An Open-Source Based ITS Platform

DEFF Research Database (Denmark)

Andersen, Ove; Krogh, Benjamin Bjerre; Torp, Kristian

2013-01-01

In this paper, a complete platform used to compute travel times from GPS data is described. Two approaches to computing travel time are proposed one based on points and one based on trips. Overall both approaches give reasonable results compared to existing manual estimated travel times. However......, the trip-based approach requires more GPS data and of a higher quality than the point-based approach. The platform has been completely implemented using open-source software. The main conclusion is that large quantity of GPS data can be managed, with a limited budget and that GPS data is a good source...... for estimating travel times, if enough data is available....

Information security threats in web-portals on the open journal systems platform

Directory of Open Access Journals (Sweden)

Anton A. Abramov

2018-05-01

Full Text Available This article addresses the problem of security threats while working with web portals built on the Open Journal Systems platform. The Open Journal Systems (OJS platform was originally developed as part of the Public Knowledge Project and it is one of the most popular open-source platforms for web journals today. Based on the data available in the Public Knowledge Project, there were more than 10,000 active journals using the open journal systems platform by the end of 2016. A migration of a journal to such advanced and complex platform helps to handle the entire workflow over a single web portal. Therefore it is an important move and only peer-reviewed journals that are part of Russian and Worldwide citation systems go for it. At the same time the problem of keeping privacy for a manuscript before it is published is very important for these journals and for authors who submit it to the journal. The paper describes the most common threats for the web portals on the OJS platform as well as a particular model of the security threats, and suggests the measures that could help to neutralize these threats.

Integration of DYN3D inside the NURESIM platform

International Nuclear Information System (INIS)

Gomez T, A. M.; Sanchez E, V. H.; Kliem, S.; Gommlich, A.; Rohde, U.

2010-10-01

The NURISP project (Nuclear Reactor Integrated Simulation Project) is focused on the further development of the European Nuclear Reactor Simulation (NURESIM) platform for advanced numerical reactor design and safety analysis tools. NURESIM is based on an open source platform - called SALOME - that offers flexible and powerful capabilities for pre- and post processing as well as for coupling of multi-physics and multi-scale solutions. The developments within the NURISP project are concentrated in the areas of reactors, physics, thermal hydraulics, multi-physics, and sensitivity and uncertainty methodologies. The aim is to develop experimentally validated advanced simulation tools including capabilities for uncertainty and sensitivity quantification. A unique feature of NURESIM is the flexibility in selecting the solvers for the area of interest and the interpolation and mapping schemes according to the problem under consideration. The Sub Project 3 (S P3) of NURISP is focused on the development of multi-physics methodologies at different scales and covering different physical fields (neutronics, thermal hydraulics and pin mechanics). One of the objectives of S P3 is the development of multi-physics methodologies beyond the state-of-the-art for improved prediction of local safety margins and design at pin-by-pin scale. The Karlsruhe Institute of Technology and the Research Center Dresden-Rossendorf are involved in the integration of the reactor dynamics code DYN3D into the SALOME platform for coupling with a thermal hydraulic sub-channel code (FLICA4) at fuel assembly and pin level. In this paper, the main capabilities of the SALOME platform, the steps for the integration process of DYN3D as well as selected preliminary results obtained for the DYN3D/FLICA4 coupling are presented and discussed. Finally the next steps for the validation of the coupling scheme at fuel assembly and pin basis are given. (Author)

DStat: A Versatile, Open-Source Potentiostat for Electroanalysis and Integration.

Science.gov (United States)

Dryden, Michael D M; Wheeler, Aaron R

2015-01-01

Most electroanalytical techniques require the precise control of the potentials in an electrochemical cell using a potentiostat. Commercial potentiostats function as "black boxes," giving limited information about their circuitry and behaviour which can make development of new measurement techniques and integration with other instruments challenging. Recently, a number of lab-built potentiostats have emerged with various design goals including low manufacturing cost and field-portability, but notably lacking is an accessible potentiostat designed for general lab use, focusing on measurement quality combined with ease of use and versatility. To fill this gap, we introduce DStat (http://microfluidics.utoronto.ca/dstat), an open-source, general-purpose potentiostat for use alone or integrated with other instruments. DStat offers picoampere current measurement capabilities, a compact USB-powered design, and user-friendly cross-platform software. DStat is easy and inexpensive to build, may be modified freely, and achieves good performance at low current levels not accessible to other lab-built instruments. In head-to-head tests, DStat's voltammetric measurements are much more sensitive than those of "CheapStat" (a popular open-source potentiostat described previously), and are comparable to those of a compact commercial "black box" potentiostat. Likewise, in head-to-head tests, DStat's potentiometric precision is similar to that of a commercial pH meter. Most importantly, the versatility of DStat was demonstrated through integration with the open-source DropBot digital microfluidics platform. In sum, we propose that DStat is a valuable contribution to the "open source" movement in analytical science, which is allowing users to adapt their tools to their experiments rather than alter their experiments to be compatible with their tools.

DStat: A Versatile, Open-Source Potentiostat for Electroanalysis and Integration.

Directory of Open Access Journals (Sweden)

Michael D M Dryden

Full Text Available Most electroanalytical techniques require the precise control of the potentials in an electrochemical cell using a potentiostat. Commercial potentiostats function as "black boxes," giving limited information about their circuitry and behaviour which can make development of new measurement techniques and integration with other instruments challenging. Recently, a number of lab-built potentiostats have emerged with various design goals including low manufacturing cost and field-portability, but notably lacking is an accessible potentiostat designed for general lab use, focusing on measurement quality combined with ease of use and versatility. To fill this gap, we introduce DStat (http://microfluidics.utoronto.ca/dstat, an open-source, general-purpose potentiostat for use alone or integrated with other instruments. DStat offers picoampere current measurement capabilities, a compact USB-powered design, and user-friendly cross-platform software. DStat is easy and inexpensive to build, may be modified freely, and achieves good performance at low current levels not accessible to other lab-built instruments. In head-to-head tests, DStat's voltammetric measurements are much more sensitive than those of "CheapStat" (a popular open-source potentiostat described previously, and are comparable to those of a compact commercial "black box" potentiostat. Likewise, in head-to-head tests, DStat's potentiometric precision is similar to that of a commercial pH meter. Most importantly, the versatility of DStat was demonstrated through integration with the open-source DropBot digital microfluidics platform. In sum, we propose that DStat is a valuable contribution to the "open source" movement in analytical science, which is allowing users to adapt their tools to their experiments rather than alter their experiments to be compatible with their tools.

DNA - An integrated open-source optimization platform for thermo-fluid systems

DEFF Research Database (Denmark)

Pierobon, Leonardo; Wronski, Jorrit; Elmegaard, Brian

2014-01-01

This paper presents developments and new features added to the simulation tool Dynamic Network Analysis. This open-source software is the result of ongoing development at the Department of Mechanical Engineering, Technical University of Denmark since 1988. Ever since, it has been employed to model...... to extend the capabilities of the software, while at the same time decreasing computational time. Dynamic Network Analysis can now solve non-convex optimization problems by virtue of the fully-embedded genetic algorithm. Moreover, the thermophysical fluid property library has been extended with more than...... 110 fluids by interfacing CoolProp, a high-accuracy open-source property package for pure and pseudo-pure fluids, as well as humid air. Furthermore, the use as time integrator for other tools is demonstrated. The new features are unveiled in two case studies. The first example covers the optimization...

An Open Data Platform in the framework of the EGI-LifeWatch Competence Center

Science.gov (United States)

Aguilar Gómez, Fernando; de Lucas, Jesús Marco; Yaiza Rodríguez Marrero, Ana

2016-04-01

The working pilot of an Open Data Platform supporting the full data cycle in research is presented. It aims to preserve knowledge explicitly, starting with the description of the Case Studies, and integrating data and software management and preservation on equal basis. The uninterrupted support in the chain starts at the data acquisition level and covers up to the support for reuse and publication in an open framework, providing integrity and provenance controls. The Lifewatch Open Science Framework is a pilot web portal developed in collaboration with different commercial companies that tries to enrich and integrate different data lifecycle-related tools in order to address the management of the different steps: data planning, gathering, storing, curation, preservation, sharing, discovering, etc. To achieve this goal, the platform includes the following features: -Data Management Planning. Tool to set up an structure of the data, including what data will be generated, how it will be exploited, re-used, curated, preserved, etc. It has a semantic approach: includes reference to ontologies in order to express what data will be gathered. -Close to instrumentation. The portal includes a distributed storage system that can be used both for storing data from instruments and output data from analysis. All that data can be shared -Analysis. Resources from EGI Federated Cloud are accessible within the portal, so that users can exploit computing resources to perform analysis and other processes, including workflows. -Preservation. Data can be preserved in different systems and DOIs can be minted not only for datasets but also for software, DMPs, etc. The presentation will show the different components of the framework as well as how it can be extrapolated to other communities.

Implementing Open Source Platform for Education Quality Enhancement in Primary Education: Indonesia Experience

Science.gov (United States)

Kisworo, Marsudi Wahyu

2016-01-01

Information and Communication Technology (ICT)-supported learning using free and open source platform draws little attention as open source initiatives were focused in secondary or tertiary educations. This study investigates possibilities of ICT-supported learning using open source platform for primary educations. The data of this study is taken…

E and P integration via the OpenSpirit framework

International Nuclear Information System (INIS)

Jennis, S.

1998-01-01

The concept of inter-operability among a consortium of oil companies and E and P applications vendors was discussed. This paper describes the business problem including cost, cycle-time and efficiency and presents a solution. Benefits for applications developers will be single development environment for cross platform deployment; focus on value-added functionality instead of infrastructure; transparent access to widely-used data-stores; higher productivity and faster turnaround time to market. Application end-users will also benefit through elimination of the need to reformat due to cross platform and multi-vendor data access; utilization of Web browsers; integration with MS Office applications leveraging desk-top tools; lower purchase and integration cost of new applications. Strategic issues for application developers, and for oil companies, and competitive advantages of the E an P industry adopting OpenSpirit as the standard business object framework were also reviewed

Open-Source 3-D Platform for Low-Cost Scientific Instrument Ecosystem.

Science.gov (United States)

Zhang, C; Wijnen, B; Pearce, J M

2016-08-01

The combination of open-source software and hardware provides technically feasible methods to create low-cost, highly customized scientific research equipment. Open-source 3-D printers have proven useful for fabricating scientific tools. Here the capabilities of an open-source 3-D printer are expanded to become a highly flexible scientific platform. An automated low-cost 3-D motion control platform is presented that has the capacity to perform scientific applications, including (1) 3-D printing of scientific hardware; (2) laboratory auto-stirring, measuring, and probing; (3) automated fluid handling; and (4) shaking and mixing. The open-source 3-D platform not only facilities routine research while radically reducing the cost, but also inspires the creation of a diverse array of custom instruments that can be shared and replicated digitally throughout the world to drive down the cost of research and education further. © 2016 Society for Laboratory Automation and Screening.

OpenChrom: a cross-platform open source software for the mass spectrometric analysis of chromatographic data.

Science.gov (United States)

Wenig, Philip; Odermatt, Juergen

2010-07-30

Today, data evaluation has become a bottleneck in chromatographic science. Analytical instruments equipped with automated samplers yield large amounts of measurement data, which needs to be verified and analyzed. Since nearly every GC/MS instrument vendor offers its own data format and software tools, the consequences are problems with data exchange and a lack of comparability between the analytical results. To challenge this situation a number of either commercial or non-profit software applications have been developed. These applications provide functionalities to import and analyze several data formats but have shortcomings in terms of the transparency of the implemented analytical algorithms and/or are restricted to a specific computer platform. This work describes a native approach to handle chromatographic data files. The approach can be extended in its functionality such as facilities to detect baselines, to detect, integrate and identify peaks and to compare mass spectra, as well as the ability to internationalize the application. Additionally, filters can be applied on the chromatographic data to enhance its quality, for example to remove background and noise. Extended operations like do, undo and redo are supported. OpenChrom is a software application to edit and analyze mass spectrometric chromatographic data. It is extensible in many different ways, depending on the demands of the users or the analytical procedures and algorithms. It offers a customizable graphical user interface. The software is independent of the operating system, due to the fact that the Rich Client Platform is written in Java. OpenChrom is released under the Eclipse Public License 1.0 (EPL). There are no license constraints regarding extensions. They can be published using open source as well as proprietary licenses. OpenChrom is available free of charge at http://www.openchrom.net.

OPEN INNOVATION PROCESSES IN SOCIAL MEDIA PLATFORMS

OpenAIRE

Yang, Yang

2013-01-01

Innovation power has becomes to the priority concern for many enterprises. Open innovation, which acts as a new innovation method, is now applied in many companies due to its unique advantages. On the other hand, social media platforms have been widely accepted by public and it shares an immeasurable business resources. Based on those facts, there must be space to link social media and open innovation together to achieve win-win. The objective was to research the important factors for op...

Integration of fractal biosensor in a digital microfluidic platform

KAUST Repository

Mashraei, Yousof

2015-11-01

Fractal capacitive electrodes have been successfully integrated into a digital microfluidic open-platform. These electrodes perform actuation and withstand voltages up to 300V without insulation-layer breakdown. They were used to quantify the concentration levels of C-reactive protein (CRP) to determine the risk of cardiovascular disease. The capacitance increased sevenfold and stabilized in less than 5 minutes. The sensor shows a decreasing trend of capacitance readouts with the increase of concentrations. The same immunoassay was tested with untreated electrodes and showed no significant response, which suggests that immobilization was necessary. This configuration allows the electrodes to be used as biosensors.

Performance Evaluation of Block Acquisition and Tracking Algorithms Using an Open Source GPS Receiver Platform

Science.gov (United States)

Ramachandran, Ganesh K.; Akopian, David; Heckler, Gregory W.; Winternitz, Luke B.

2011-01-01

Location technologies have many applications in wireless communications, military and space missions, etc. US Global Positioning System (GPS) and other existing and emerging Global Navigation Satellite Systems (GNSS) are expected to provide accurate location information to enable such applications. While GNSS systems perform very well in strong signal conditions, their operation in many urban, indoor, and space applications is not robust or even impossible due to weak signals and strong distortions. The search for less costly, faster and more sensitive receivers is still in progress. As the research community addresses more and more complicated phenomena there exists a demand on flexible multimode reference receivers, associated SDKs, and development platforms which may accelerate and facilitate the research. One of such concepts is the software GPS/GNSS receiver (GPS SDR) which permits a facilitated access to algorithmic libraries and a possibility to integrate more advanced algorithms without hardware and essential software updates. The GNU-SDR and GPS-SDR open source receiver platforms are such popular examples. This paper evaluates the performance of recently proposed block-corelator techniques for acquisition and tracking of GPS signals using open source GPS-SDR platform.

SemMat: Federated Semantic Services Platform for Open materials Science and Engineering

Science.gov (United States)

2017-01-01

SEMMAT: FEDERATED SEMANTIC SERVICES PLATFORM FOR OPEN MATERIALS SCIENCE AND ENGINEERING WRIGHT STATE UNIVERSITY JANUARY 2017 FINAL TECHNICAL...COVERED (From - To) JUL 2013 – JUN 2016 4. TITLE AND SUBTITLE SemMat: FEDERATED SEMANTIC SERVICES PLATFORM FOR OPEN MATERIALS SCIENCE AND ENGINEERING...models to represent materials data. This provides a data exchange scheme for materials science , which also includes provenance information to promote

Development of integrated platform for computational material design

Energy Technology Data Exchange (ETDEWEB)

Kiyoshi, Matsubara; Kumi, Itai; Nobutaka, Nishikawa; Akifumi, Kato [Center for Computational Science and Engineering, Fuji Research Institute Corporation (Japan); Hideaki, Koike [Advance Soft Corporation (Japan)

2003-07-01

The goal of our project is to design and develop a problem-solving environment (PSE) that will help computational scientists and engineers develop large complicated application software and simulate complex phenomena by using networking and parallel computing. The integrated platform, which is designed for PSE in the Japanese national project of Frontier Simulation Software for Industrial Science, is defined by supporting the entire range of problem solving activity from program formulation and data setup to numerical simulation, data management, and visualization. A special feature of our integrated platform is based on a new architecture called TASK FLOW. It integrates the computational resources such as hardware and software on the network and supports complex and large-scale simulation. This concept is applied to computational material design and the project 'comprehensive research for modeling, analysis, control, and design of large-scale complex system considering properties of human being'. Moreover this system will provide the best solution for developing large and complicated software and simulating complex and large-scaled phenomena in computational science and engineering. A prototype has already been developed and the validation and verification of an integrated platform will be scheduled by using the prototype in 2003. In the validation and verification, fluid-structure coupling analysis system for designing an industrial machine will be developed on the integrated platform. As other examples of validation and verification, integrated platform for quantum chemistry and bio-mechanical system are planned.

Development of integrated platform for computational material design

International Nuclear Information System (INIS)

Kiyoshi, Matsubara; Kumi, Itai; Nobutaka, Nishikawa; Akifumi, Kato; Hideaki, Koike

2003-01-01

The goal of our project is to design and develop a problem-solving environment (PSE) that will help computational scientists and engineers develop large complicated application software and simulate complex phenomena by using networking and parallel computing. The integrated platform, which is designed for PSE in the Japanese national project of Frontier Simulation Software for Industrial Science, is defined by supporting the entire range of problem solving activity from program formulation and data setup to numerical simulation, data management, and visualization. A special feature of our integrated platform is based on a new architecture called TASK FLOW. It integrates the computational resources such as hardware and software on the network and supports complex and large-scale simulation. This concept is applied to computational material design and the project 'comprehensive research for modeling, analysis, control, and design of large-scale complex system considering properties of human being'. Moreover this system will provide the best solution for developing large and complicated software and simulating complex and large-scaled phenomena in computational science and engineering. A prototype has already been developed and the validation and verification of an integrated platform will be scheduled by using the prototype in 2003. In the validation and verification, fluid-structure coupling analysis system for designing an industrial machine will be developed on the integrated platform. As other examples of validation and verification, integrated platform for quantum chemistry and bio-mechanical system are planned

Chamilo 2.0: A Second Generation Open Source E-learning and Collaboration Platform

OpenAIRE

Jean-Marie Maes

2010-01-01

Dokeos used to be one of the leading open source learning platforms. It is well known for the wide range of functions it offers and especially for its ease of use. In many ways it is however a typical first generation learning management system (LMS) consisting of a set of loosely integrated tools. The original design of this LMS has a number of serious drawbacks and limitations. Because of this it was decided to opt for a completely new system that would use state of the art development tech...

Open source acceleration of wave optics simulations on energy efficient high-performance computing platforms

Science.gov (United States)

Beck, Jeffrey; Bos, Jeremy P.

2017-05-01

We compare several modifications to the open-source wave optics package, WavePy, intended to improve execution time. Specifically, we compare the relative performance of the Intel MKL, a CPU based OpenCV distribution, and GPU-based version. Performance is compared between distributions both on the same compute platform and between a fully-featured computing workstation and the NVIDIA Jetson TX1 platform. Comparisons are drawn in terms of both execution time and power consumption. We have found that substituting the Fast Fourier Transform operation from OpenCV provides a marked improvement on all platforms. In addition, we show that embedded platforms offer some possibility for extensive improvement in terms of efficiency compared to a fully featured workstation.

Opening access to African scholarly content: Stellenbosch University's AOARI platforms

Directory of Open Access Journals (Sweden)

Dr Reggie Raju

2013-03-01

Full Text Available Africa is viewed as a consumer of the world's knowledge production. A significant factor influencing this status is the low research output, with the main contributor to this status being minimum access to scholarly content to support research. Stellenbosch University, a leading research institution on the African continent, is committed to contributing to changing this status quo through the distribution of its own research output utilizing open sources. Given the challenges that have plagued Africa in developing processes for the distribution of their research, Stellenbosch University has developed the African Open Access Repository Initiative (AOARI which uses open source software for two platforms that support the ‘green’ and ‘gold’ route to sharing scholarly literature: Ubuntu is used as the operating system, DSpace is used for its repository and Open Journal Systems for its publication platform. It is anticipated that AOARI will be the bridge that facilitates the sharing of research output and nurtures a culture of research production in Africa.

A case study in open source innovation: developing the Tidepool Platform for interoperability in type 1 diabetes management.

Science.gov (United States)

Neinstein, Aaron; Wong, Jenise; Look, Howard; Arbiter, Brandon; Quirk, Kent; McCanne, Steve; Sun, Yao; Blum, Michael; Adi, Saleh

2016-03-01

Develop a device-agnostic cloud platform to host diabetes device data and catalyze an ecosystem of software innovation for type 1 diabetes (T1D) management. An interdisciplinary team decided to establish a nonprofit company, Tidepool, and build open-source software. Through a user-centered design process, the authors created a software platform, the Tidepool Platform, to upload and host T1D device data in an integrated, device-agnostic fashion, as well as an application ("app"), Blip, to visualize the data. Tidepool's software utilizes the principles of modular components, modern web design including REST APIs and JavaScript, cloud computing, agile development methodology, and robust privacy and security. By consolidating the currently scattered and siloed T1D device data ecosystem into one open platform, Tidepool can improve access to the data and enable new possibilities and efficiencies in T1D clinical care and research. The Tidepool Platform decouples diabetes apps from diabetes devices, allowing software developers to build innovative apps without requiring them to design a unique back-end (e.g., database and security) or unique ways of ingesting device data. It allows people with T1D to choose to use any preferred app regardless of which device(s) they use. The authors believe that the Tidepool Platform can solve two current problems in the T1D device landscape: 1) limited access to T1D device data and 2) poor interoperability of data from different devices. If proven effective, Tidepool's open source, cloud model for health data interoperability is applicable to other healthcare use cases. © The Author 2015. Published by Oxford University Press on behalf of the American Medical Informatics Association.

ARLearn - Open source mobile application platform for learning

NARCIS (Netherlands)

Börner, Dirk; Ternier, Stefaan; Klemke, Roland; Schmitz, Birgit; Kalz, Marco; Tabuenca, Bernardo; Specht, Marcus

2013-01-01

Börner, D., Ternier, S., Klemke, R., Schmitz, B., Kalz, M., Tabuenca, B., & Specht, M. (2013). ARLearn - Open source mobile application platform for learning. In D. Hernández-Leo et al. (Eds.), Scaling up Learning for Sustained Impact. Proceedings of the 8th European Conference on Technology

InP-based generic foundry platform for photonic integrated circuits

NARCIS (Netherlands)

Augustin, L.M.; Lemos Alvares Dos Santos, R.M.; den Haan, E.; Kleijn, S.E.F.; Thijs, P.J.A.; Latkowski, S.; Zhao, D.; Yao, W.; Bolk, J.; Ambrosius, H.P.M.M.; Mingaleev, S.; Richter, A.; Bakker, A.; Korthorst, T.

2017-01-01

The standardization of photonic integration processes for InP has led to versatile and easily accessible generic integration platforms. The generic integration platforms enable the realization of a broad range of applications and lead to a dramatic cost reduction in the development costs of photonic

Experimental on-line platform for product conceptual design: OpenDesigNet

Directory of Open Access Journals (Sweden)

Teresa Magal-Royo

2013-09-01

Full Text Available This paper highlights the need for using specialised on-line collaborative environments by designers and product engineers who increasingly use Web 2.0 technology to search for information. Although there are professional channels and networks, there is no specific platform which helps during a new product’s conceptualisation phase. Open communication must thus be promoted and encouraged amongst design professionals and companies to form working groups thereby allowing them to work collaboratively in the most open and creative phase of product design, i.e. conceptualisation. The OpenDesigNet (ODN experimental platform has been developed so that designers and small- or medium-sized companies (SMC can access on-line collaborative tools to support the creation and promotion of new on-line products and assess their immediate social impact. This article presents some of the results obtained during the validation phase involving a platform satisfaction survey of design engineering students and has led to a first-hand assessment of the new platform’s potential impact on their professional future.

Supporting Building Portfolio Investment and Policy Decision Making through an Integrated Building Utility Data Platform

Energy Technology Data Exchange (ETDEWEB)

Aziz, Azizan [Carnegie Mellon Univ., Pittsburgh, PA (United States); Lasternas, Bertrand [Carnegie Mellon Univ., Pittsburgh, PA (United States); Alschuler, Elena [US DOE; View Inc; Loftness, Vivian [Carnegie Mellon Univ., Pittsburgh, PA (United States); Wang, Haopeng [Carnegie Mellon Univ., Pittsburgh, PA (United States); Mo, Yunjeong [Carnegie Mellon Univ., Pittsburgh, PA (United States); Wang, Ting [Carnegie Mellon Univ., Pittsburgh, PA (United States); Zhang, Chenlu [Carnegie Mellon Univ., Pittsburgh, PA (United States); Sharma, Shilpi [Carnegie Mellon; Stevens, Ivana [Carnegie Mellon Univ., Pittsburgh, PA (United States)

2016-03-18

The American Recovery and Reinvestment Act stimulus funding of 2009 for smart grid projects resulted in the tripling of smart meters deployment. In 2012, the Green Button initiative provided utility customers with access to their real-time1 energy usage. The availability of finely granular data provides an enormous potential for energy data analytics and energy benchmarking. The sheer volume of time-series utility data from a large number of buildings also poses challenges in data collection, quality control, and database management for rigorous and meaningful analyses. In this paper, we will describe a building portfolio-level data analytics tool for operational optimization, business investment and policy assessment using 15-minute to monthly intervals utility data. The analytics tool is developed on top of the U.S. Department of Energy’s Standard Energy Efficiency Data (SEED) platform, an open source software application that manages energy performance data of large groups of buildings. To support the significantly large volume of granular interval data, we integrated a parallel time-series database to the existing relational database. The time-series database improves on the current utility data input, focusing on real-time data collection, storage, analytics and data quality control. The fully integrated data platform supports APIs for utility apps development by third party software developers. These apps will provide actionable intelligence for building owners and facilities managers. Unlike a commercial system, this platform is an open source platform funded by the U.S. Government, accessible to the public, researchers and other developers, to support initiatives in reducing building energy consumption.

Open source platform Digital Personal Assistant

OpenAIRE

Usachev, Denis; Khusnutdinov, Azat; Mazzara, Manuel; Khan, Adil; Panchenko, Ivan

2018-01-01

Nowadays Digital Personal Assistants (DPA) become more and more popular. DPAs help to increase quality of life especially for elderly or disabled people. In this paper we develop an open source DPA and smart home system as a 3-rd party extension to show the functionality of the assistant. The system is designed to use the DPA as a learning platform for engineers to provide them with the opportunity to create and test their own hypothesis. The DPA is able to recognize users' commands in natura...

Open Platform for Limit Protection with Carefree Maneuver Applications

Science.gov (United States)

Jeram, Geoffrey J.

2004-01-01

This Open Platform for Limit Protection guides the open design of maneuver limit protection systems in general, and manned, rotorcraft, aerospace applications in particular. The platform uses three stages of limit protection modules: limit cue creation, limit cue arbitration, and control system interface. A common set of limit cue modules provides commands that can include constraints, alerts, transfer functions, and friction. An arbitration module selects the "best" limit protection cues and distributes them to the most appropriate control path interface. This platform adopts a holistic approach to limit protection whereby it considers all potential interface points, including the pilot's visual, aural, and tactile displays; and automatic command restraint shaping for autonomous limit protection. For each functional module, this thesis guides the control system designer through the design choices and information interfaces among the modules. Limit cue module design choices include type of prediction, prediction mechanism, method of critical control calculation, and type of limit cue. Special consideration is given to the nature of the limit, particularly the level of knowledge about it, and the ramifications for limit protection design, especially with respect to intelligent control methods such as fuzzy inference systems and neural networks.

OpenHealth Platform for Interactive Contextualization of Population Health Open Data

OpenAIRE

Almeida, Jonas S; Hajagos, Janos; Crnosija, Ivan; Kurc, Tahsin; Saltz, Mary; Saltz, Joel

2015-01-01

The financial incentives for data science applications leading to improved health outcomes, such as DSRIP (bit.ly/dsrip), are well-aligned with the broad adoption of Open Data by State and Federal agencies. This creates entirely novel opportunities for analytical applications that make exclusive use of the pervasive Web Computing platform. The framework described here explores this new avenue to contextualize Health data in a manner that relies exclusively on the native JavaScript interpreter...

Data exchange between zero dimensional code and physics platform in the CFETR integrated system code

Energy Technology Data Exchange (ETDEWEB)

Xu, Guoliang [School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 China (China); Shi, Nan [Institute of Plasma Physics, Chinese Academy of Sciences, No. 350 Shushanhu Road, Hefei (China); Zhou, Yifu; Mao, Shifeng [School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 China (China); Jian, Xiang [State Key Laboratory of Advanced Electromagnetic Engineering and Technology, School of Electrical and Electronics Engineering, Huazhong University of Science and Technology, Wuhan 430074 (China); Chen, Jiale [Institute of Plasma Physics, Chinese Academy of Sciences, No. 350 Shushanhu Road, Hefei (China); Liu, Li; Chan, Vincent [School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 China (China); Ye, Minyou, E-mail: yemy@ustc.edu.cn [School of Nuclear Science and Technology, University of Science and Technology of China, Hefei 230026 China (China)

2016-11-01

Highlights: • The workflow of the zero dimensional code and the multi-dimension physics platform of CFETR integrated system codeis introduced. • The iteration process among the codes in the physics platform. • The data transfer between the zero dimensionalcode and the physical platform, including data iteration and validation, and justification for performance parameters.. - Abstract: The China Fusion Engineering Test Reactor (CFETR) integrated system code contains three parts: a zero dimensional code, a physics platform and an engineering platform. We use the zero dimensional code to identify a set of preliminary physics and engineering parameters for CFETR, which is used as input to initiate multi-dimension studies using the physics and engineering platform for design, verification and validation. Effective data exchange between the zero dimensional code and the physical platform is critical for the optimization of CFETR design. For example, in evaluating the impact of impurity radiation on core performance, an open field line code is used to calculate the impurity transport from the first-wall boundary to the pedestal. The impurity particle in the pedestal are used as boundary conditions in a transport code for calculating impurity transport in the core plasma and the impact of core radiation on core performance. Comparison of the results from the multi-dimensional study to those from the zero dimensional code is used to further refine the controlled radiation model. The data transfer between the zero dimensional code and the physical platform, including data iteration and validation, and justification for performance parameters will be presented in this paper.

Hybrid Photonic Integration on a Polymer Platform

Directory of Open Access Journals (Sweden)

Ziyang Zhang

2015-09-01

Full Text Available To fulfill the functionality demands from the fast developing optical networks, a hybrid integration approach allows for combining the advantages of various material platforms. We have established a polymer-based hybrid integration platform (polyboard, which provides flexible optical input/ouptut interfaces (I/Os that allow robust coupling of indium phosphide (InP-based active components, passive insertion of thin-film-based optical elements, and on-chip attachment of optical fibers. This work reviews the recent progress of our polyboard platform. On the fundamental level, multi-core waveguides and polymer/silicon nitride heterogeneous waveguides have been fabricated, broadening device design possibilities and enabling 3D photonic integration. Furthermore, 40-channel optical line terminals and compact, bi-directional optical network units have been developed as highly functional, low-cost devices for the wavelength division multiplexed passive optical network. On a larger scale, thermo-optic elements, thin-film elements and an InP gain chip have been integrated on the polyboard to realize a colorless, dual-polarization optical 90° hybrid as the frontend of a coherent receiver. For high-end applications, a wavelength tunable 100Gbaud transmitter module has been demonstrated, manifesting the joint contribution from the polyboard technology, high speed polymer electro-optic modulator, InP driver electronics and ceramic electronic interconnects.

Anser EMT: the first open-source electromagnetic tracking platform for image-guided interventions.

Science.gov (United States)

Jaeger, Herman Alexander; Franz, Alfred Michael; O'Donoghue, Kilian; Seitel, Alexander; Trauzettel, Fabian; Maier-Hein, Lena; Cantillon-Murphy, Pádraig

2017-06-01

Electromagnetic tracking is the gold standard for instrument tracking and navigation in the clinical setting without line of sight. Whilst clinical platforms exist for interventional bronchoscopy and neurosurgical navigation, the limited flexibility and high costs of electromagnetic tracking (EMT) systems for research investigations mitigate against a better understanding of the technology's characterisation and limitations. The Anser project provides an open-source implementation for EMT with particular application to image-guided interventions. This work provides implementation schematics for our previously reported EMT system which relies on low-cost acquisition and demodulation techniques using both National Instruments and Arduino hardware alongside MATLAB support code. The system performance is objectively compared to other commercial tracking platforms using the Hummel assessment protocol. Positional accuracy of 1.14 mm and angular rotation accuracy of [Formula: see text] are reported. Like other EMT platforms, Anser is susceptible to tracking errors due to eddy current and ferromagnetic distortion. The system is compatible with commercially available EMT sensors as well as the Open Network Interface for image-guided therapy (OpenIGTLink) for easy communication with visualisation and medical imaging toolkits such as MITK and 3D Slicer. By providing an open-source platform for research investigations, we believe that novel and collaborative approaches can overcome the limitations of current EMT technology.

Surface-Enhanced Raman Spectroscopy Integrated Centrifugal Microfluidics Platform

DEFF Research Database (Denmark)

Durucan, Onur

This PhD thesis demonstrates (i) centrifugal microfluidics disc platform integrated with Au capped nanopillar (NP) substrates for surface-enhanced Raman spectroscopy (SERS) based sensing, and (ii) novel sample analysis concepts achieved by synergistical combination of sensing techniques and minia......This PhD thesis demonstrates (i) centrifugal microfluidics disc platform integrated with Au capped nanopillar (NP) substrates for surface-enhanced Raman spectroscopy (SERS) based sensing, and (ii) novel sample analysis concepts achieved by synergistical combination of sensing techniques...... dense array of NP structures. Furthermore, the wicking assisted nanofiltration procedure was accomplished in centrifugal microfluidics platform and as a result additional sample purification was achieved through the centrifugation process. In this way, the Au coated NP substrate was utilized...

Open Ephys: an open-source, plugin-based platform for multichannel electrophysiology.

Science.gov (United States)

Siegle, Joshua H; López, Aarón Cuevas; Patel, Yogi A; Abramov, Kirill; Ohayon, Shay; Voigts, Jakob

2017-08-01

Closed-loop experiments, in which causal interventions are conditioned on the state of the system under investigation, have become increasingly common in neuroscience. Such experiments can have a high degree of explanatory power, but they require a precise implementation that can be difficult to replicate across laboratories. We sought to overcome this limitation by building open-source software that makes it easier to develop and share algorithms for closed-loop control. We created the Open Ephys GUI, an open-source platform for multichannel electrophysiology experiments. In addition to the standard 'open-loop' visualization and recording functionality, the GUI also includes modules for delivering feedback in response to events detected in the incoming data stream. Importantly, these modules can be built and shared as plugins, which makes it possible for users to extend the functionality of the GUI through a simple API, without having to understand the inner workings of the entire application. In combination with low-cost, open-source hardware for amplifying and digitizing neural signals, the GUI has been used for closed-loop experiments that perturb the hippocampal theta rhythm in a phase-specific manner. The Open Ephys GUI is the first widely used application for multichannel electrophysiology that leverages a plugin-based workflow. We hope that it will lower the barrier to entry for electrophysiologists who wish to incorporate real-time feedback into their research.

EVALUATION OF FREE PLATFORMS FOR DELIVERY OF MASSIVE OPEN ONLINE COURSES (MOOCS

Directory of Open Access Journals (Sweden)

Airton ZANCANARO

2017-01-01

Full Text Available For the hosting, management and delivery of Massive Open Online Courses (MOOC it is necessary a technological infrastructure that supports it. Various educational institutions do not have or do not wish to invest in such a structure, possibly because MOOCs are not yet part of official programs of universities, but initiatives by a particular teacher or a research group. Focusing on this problem, this study seeks to identify platforms that make it possible to create, host and provide courses free of charges for the offeror; find in the respective literature, the basic requirements for MOOC platforms and to evaluate the platforms based on the raised requirements. In order to identify the platforms, information was sought in scientific articles and websites dealing with the comparison of platforms and listing the existing MOOC providers. For the definition of evaluation requirements, there was a search in the Web of Science and Scopus databases, looking for the term "Massive Open Online Courses". After applying some filters, 62 works that address platforms and technology were selected for analysis. As a result there is the identification of six platforms that allow the free supply of courses, the proposal for 14 requirements for reviewing them and a frame containing the evaluation of the identified platforms. This assessment is important since it brings knowledge as a basis for selecting a platform that is the most suitable one in terms of the chosen structure and method to store, manage and deliver courses in MOOC format.

The SCEC Broadband Platform: A Collaborative Open-Source Software Package for Strong Ground Motion Simulation and Validation

Science.gov (United States)

Silva, F.; Maechling, P. J.; Goulet, C. A.; Somerville, P.; Jordan, T. H.

2014-12-01

The Southern California Earthquake Center (SCEC) Broadband Platform is a collaborative software development project involving geoscientists, earthquake engineers, graduate students, and the SCEC Community Modeling Environment. The SCEC Broadband Platform (BBP) is open-source scientific software that can generate broadband (0-100Hz) ground motions for earthquakes, integrating complex scientific modules that implement rupture generation, low and high-frequency seismogram synthesis, non-linear site effects calculation, and visualization into a software system that supports easy on-demand computation of seismograms. The Broadband Platform operates in two primary modes: validation simulations and scenario simulations. In validation mode, the Platform runs earthquake rupture and wave propagation modeling software to calculate seismograms for a well-observed historical earthquake. Then, the BBP calculates a number of goodness of fit measurements that quantify how well the model-based broadband seismograms match the observed seismograms for a certain event. Based on these results, the Platform can be used to tune and validate different numerical modeling techniques. In scenario mode, the Broadband Platform can run simulations for hypothetical (scenario) earthquakes. In this mode, users input an earthquake description, a list of station names and locations, and a 1D velocity model for their region of interest, and the Broadband Platform software then calculates ground motions for the specified stations. Working in close collaboration with scientists and research engineers, the SCEC software development group continues to add new capabilities to the Broadband Platform and to release new versions as open-source scientific software distributions that can be compiled and run on many Linux computer systems. Our latest release includes 5 simulation methods, 7 simulation regions covering California, Japan, and Eastern North America, the ability to compare simulation results

Comparison between the use of open and walled platforms by juvenile blue foxes (Alopex lagopus

Directory of Open Access Journals (Sweden)

Hannu Korhonen

1996-03-01

Full Text Available The current European recommendations require that platforms in the cages of farm foxes should have solid sides. The present study aimed to clarify how such a obstructed view affects platform use in farmbred blue foxes (Alopex lagopus. Experimental groups with open (16 males, 14 females and walled (16 males, 14 females platforms were compared from weaning to pelting. Both platform types were 110 cm long x 30 cm wide. Walled platforms had 23 cm high walls at the ends and rear, but open ones were without walls. Data were collected by daytime scanning observations and 24-h video recordings. Results for both sexes were parallel, showing that foxes significantly (p

A Comparative Analysis of MOOC (Massive Open Online Course Platforms

Directory of Open Access Journals (Sweden)

Maria CONACHE

2016-01-01

Full Text Available The MOOC platforms have known a considerable development in recent years due to the enlargement of online space and the shifting between traditional to virtual activities. These plat-forms made it possible for people almost everywhere to take online academic courses offered by top universities via open access to web and with unlimited participation. Thus, it came naturally to us to address the question what makes them so successful? The purpose of this paper is to report comparatively MOOC platforms in terms of features, based on the user’s implication and demands. First, we chose four relevant lifelong learning platforms and then we structured three main categories for the platforms' qualification, depending on which we built our theory regarding the comparison between them. Our analysis consists of three sets of criteria: business model, course design and popularity among online users. Starting from this perspective, we built a range of representative factors for which we highlighted the major aspects for each plat-form in our comparative research

Long-Term Multi-Band and Polarimetric View of Mkn 421: Motivations for an Integrated Open-Data Platform for Blazar Optical Polarimetry

Directory of Open Access Journals (Sweden)

Ulisses Barres de Almeida

2017-11-01

Full Text Available In this work, by making use of the large software and database resources made available through online facilities such as the ASI Science Data Center (ASDC, we present a novel approach to the modelling of blazar emission whereby the multi-epoch SED for Mkn 421 is modelled considering, in a self-consistent way, the temporal lags between bands (both in short and long-timescales. These are obtained via a detailed cross-correlation analysis, spanning data from radio to VHE gamma-rays from 2008 to 2015. In addition to that, long-term optical polarisation data is used to aid and complement our physical interpretation of the state and evolution of the source. Blazar studies constitute a clear example that astrophysics is becoming increasingly dominated by “big data”. Specific questions, such as the interpretation of polarimetric information—namely the evolution of the polarisation degree (PD and specially the polarisation angle (PA of a source—are very sensitive to the density of data coverage. Improving data accessibility and integration, in order to respond to these necessities, is thus extremely important and has a potentially large impact for blazar science. For this reason, we present also the project to create an open-access database for optical polarimetry, aiming to circumvent the issues raised above, by integrating long-term optical polarisation information on a number sources from several observatories and data providers in a consistent way. The platform, to be launched by the end of 2017 is built as part of the Brazilian Science Data Center (BSDC, a project hosted at CBPF, in Rio de Janeiro, and developed with the support of the Italian Space Agency (ASI and ICRANet. The BSDC is Virtual Observatory-compliant and is built in line with “Open Universe”, a global space science open-data initiative to be launched in November under the auspices of the United Nations.

Integrated Spintronic Platforms for Biomolecular Recognition Detection

Science.gov (United States)

Martins, V. C.; Cardoso, F. A.; Loureiro, J.; Mercier, M.; Germano, J.; Cardoso, S.; Ferreira, R.; Fonseca, L. P.; Sousa, L.; Piedade, M. S.; Freitas, P. P.

2008-06-01

This paper covers recent developments in magnetoresistive based biochip platforms fabricated at INESC-MN, and their application to the detection and quantification of pathogenic waterborn microorganisms in water samples for human consumption. Such platforms are intended to give response to the increasing concern related to microbial contaminated water sources. The presented results concern the development of biological active DNA chips and protein chips and the demonstration of the detection capability of the present platforms. Two platforms are described, one including spintronic sensors only (spin-valve based or magnetic tunnel junction based), and the other, a fully scalable platform where each probe site consists of a MTJ in series with a thin film diode (TFD). Two microfluidic systems are described, for cell separation and concentration, and finally, the read out and control integrated electronics are described, allowing the realization of bioassays with a portable point of care unit. The present platforms already allow the detection of complementary biomolecular target recognition with 1 pM concentration.

Performance Measurement of Complex Event Platforms

Directory of Open Access Journals (Sweden)

Eva Zámečníková

2016-12-01

Full Text Available The aim of this paper is to find and compare existing solutions of complex event processing platforms (CEP. CEP platforms generally serve for processing and/or predicting of high frequency data. We intend to use CEP platform for processing of complex time series and integrate a solution for newly proposed method of decision making. The decision making process will be described by formal grammar. As there are lots of CEP solutions we will take the following characteristics under consideration - the processing in real time, possibility of processing of high volume data from multiple sources, platform independence, platform allowing integration with user solution and open license. At first we will talk about existing CEP tools and their specific way of use in praxis. Then we will mention the design of method for formalization of business rules used for decision making. Afterwards, we focus on two platforms which seem to be the best fit for integration of our solution and we will list the main pros and cons of each approach. Next part is devoted to benchmark platforms for CEP. Final part is devoted to experimental measurements of platform with integrated method for decision support.

Mousetrap: An integrated, open-source mouse-tracking package.

Science.gov (United States)

Kieslich, Pascal J; Henninger, Felix

2017-10-01

Mouse-tracking - the analysis of mouse movements in computerized experiments - is becoming increasingly popular in the cognitive sciences. Mouse movements are taken as an indicator of commitment to or conflict between choice options during the decision process. Using mouse-tracking, researchers have gained insight into the temporal development of cognitive processes across a growing number of psychological domains. In the current article, we present software that offers easy and convenient means of recording and analyzing mouse movements in computerized laboratory experiments. In particular, we introduce and demonstrate the mousetrap plugin that adds mouse-tracking to OpenSesame, a popular general-purpose graphical experiment builder. By integrating with this existing experimental software, mousetrap allows for the creation of mouse-tracking studies through a graphical interface, without requiring programming skills. Thus, researchers can benefit from the core features of a validated software package and the many extensions available for it (e.g., the integration with auxiliary hardware such as eye-tracking, or the support of interactive experiments). In addition, the recorded data can be imported directly into the statistical programming language R using the mousetrap package, which greatly facilitates analysis. Mousetrap is cross-platform, open-source and available free of charge from https://github.com/pascalkieslich/mousetrap-os .

Image Harvest: an open-source platform for high-throughput plant image processing and analysis

Science.gov (United States)

Knecht, Avi C.; Campbell, Malachy T.; Caprez, Adam; Swanson, David R.; Walia, Harkamal

2016-01-01

High-throughput plant phenotyping is an effective approach to bridge the genotype-to-phenotype gap in crops. Phenomics experiments typically result in large-scale image datasets, which are not amenable for processing on desktop computers, thus creating a bottleneck in the image-analysis pipeline. Here, we present an open-source, flexible image-analysis framework, called Image Harvest (IH), for processing images originating from high-throughput plant phenotyping platforms. Image Harvest is developed to perform parallel processing on computing grids and provides an integrated feature for metadata extraction from large-scale file organization. Moreover, the integration of IH with the Open Science Grid provides academic researchers with the computational resources required for processing large image datasets at no cost. Image Harvest also offers functionalities to extract digital traits from images to interpret plant architecture-related characteristics. To demonstrate the applications of these digital traits, a rice (Oryza sativa) diversity panel was phenotyped and genome-wide association mapping was performed using digital traits that are used to describe different plant ideotypes. Three major quantitative trait loci were identified on rice chromosomes 4 and 6, which co-localize with quantitative trait loci known to regulate agronomically important traits in rice. Image Harvest is an open-source software for high-throughput image processing that requires a minimal learning curve for plant biologists to analyzephenomics datasets. PMID:27141917

Beyond xMOOCs in healthcare education: study of the feasibility in integrating virtual patient systems and MOOC platforms.

Science.gov (United States)

Stathakarou, Natalia; Zary, Nabil; Kononowicz, Andrzej A

2014-01-01

Background. Massive Open Online Courses (MOOCs) are an emerging trend in online learning. However, their technology is not yet completely adjusted to the needs of healthcare education. Integration of Virtual Patients within MOOCs to increase interactivity and foster clinical reasoning skills training, has been discussed in the past, but not verified by a practical implementation. Objective. To investigate the technical feasibility of integrating MOOCs with Virtual Patients for the purpose of enabling further research into the potential pedagogical benefits of this approach. Methods. We selected OpenEdx and Open Labyrinth as representative constituents of a MOOC platform and Virtual Patient system integration. Based upon our prior experience we selected the most fundamental technical requirement to address. Grounded in the available literature we identified an e-learning standard to guide the integration. We attempted to demonstrate the feasibility of the integration by designing a "proof-of-concept" prototype. The resulting pilot implementation was subject of verification by two test cases. Results. A Single Sign-On mechanism connecting Open Labyrinth with OpenEdx and based on the IMS LTI standard was successfully implemented and verified. Conclusion. We investigated the technical perspective of integrating Virtual Patients with MOOCs. By addressing this crucial technical requirement we set a base for future research on the educational benefits of using virtual patients in MOOCs. This provides new opportunities for integrating specialized software in healthcare education at massive scale.

Beyond xMOOCs in healthcare education: study of the feasibility in integrating virtual patient systems and MOOC platforms

Directory of Open Access Journals (Sweden)

Natalia Stathakarou

2014-11-01

Full Text Available Background. Massive Open Online Courses (MOOCs are an emerging trend in online learning. However, their technology is not yet completely adjusted to the needs of healthcare education. Integration of Virtual Patients within MOOCs to increase interactivity and foster clinical reasoning skills training, has been discussed in the past, but not verified by a practical implementation.Objective. To investigate the technical feasibility of integrating MOOCs with Virtual Patients for the purpose of enabling further research into the potential pedagogical benefits of this approach.Methods. We selected OpenEdx and Open Labyrinth as representative constituents of a MOOC platform and Virtual Patient system integration. Based upon our prior experience we selected the most fundamental technical requirement to address. Grounded in the available literature we identified an e-learning standard to guide the integration. We attempted to demonstrate the feasibility of the integration by designing a “proof-of-concept” prototype. The resulting pilot implementation was subject of verification by two test cases.Results. A Single Sign-On mechanism connecting Open Labyrinth with OpenEdx and based on the IMS LTI standard was successfully implemented and verified.Conclusion. We investigated the technical perspective of integrating Virtual Patients with MOOCs. By addressing this crucial technical requirement we set a base for future research on the educational benefits of using virtual patients in MOOCs. This provides new opportunities for integrating specialized software in healthcare education at massive scale.

Microbial metabolomics in open microscale platforms

Science.gov (United States)

Barkal, Layla J.; Theberge, Ashleigh B.; Guo, Chun-Jun; Spraker, Joe; Rappert, Lucas; Berthier, Jean; Brakke, Kenneth A.; Wang, Clay C. C.; Beebe, David J.; Keller, Nancy P.; Berthier, Erwin

2016-01-01

The microbial secondary metabolome encompasses great synthetic diversity, empowering microbes to tune their chemical responses to changing microenvironments. Traditional metabolomics methods are ill-equipped to probe a wide variety of environments or environmental dynamics. Here we introduce a class of microscale culture platforms to analyse chemical diversity of fungal and bacterial secondary metabolomes. By leveraging stable biphasic interfaces to integrate microculture with small molecule isolation via liquid–liquid extraction, we enable metabolomics-scale analysis using mass spectrometry. This platform facilitates exploration of culture microenvironments (including rare media typically inaccessible using established methods), unusual organic solvents for metabolite isolation and microbial mutants. Utilizing Aspergillus, a fungal genus known for its rich secondary metabolism, we characterize the effects of culture geometry and growth matrix on secondary metabolism, highlighting the potential use of microscale systems to unlock unknown or cryptic secondary metabolites for natural products discovery. Finally, we demonstrate the potential for this class of microfluidic systems to study interkingdom communication between fungi and bacteria. PMID:26842393

Structural Integrity Management for Fixed Offshore Platforms in Malaysia

OpenAIRE

Narayanan Sambu Potty; Mohammad Kabir B. Mohd Akram

2009-01-01

Structural Integrity Management (SIM) is important for the protection of offshore crew, environment, business assets and company and industry reputation. API RP 2A contained guidelines for assessment of existing platforms mostly for the Gulf of Mexico (GOM). ISO 19902 SIM framework also does not specifically cater for Malaysia. There are about 200 platforms in Malaysia with 90 exceeding their design life. The Petronas Carigali Sdn Bhd (PCSB) uses the Asset Integrity Management ...

Architecture Design and Experimental Platform Demonstration of Optical Network based on OpenFlow Protocol

Science.gov (United States)

Xing, Fangyuan; Wang, Honghuan; Yin, Hongxi; Li, Ming; Luo, Shenzi; Wu, Chenguang

2016-02-01

With the extensive application of cloud computing and data centres, as well as the constantly emerging services, the big data with the burst characteristic has brought huge challenges to optical networks. Consequently, the software defined optical network (SDON) that combines optical networks with software defined network (SDN), has attracted much attention. In this paper, an OpenFlow-enabled optical node employed in optical cross-connect (OXC) and reconfigurable optical add/drop multiplexer (ROADM), is proposed. An open source OpenFlow controller is extended on routing strategies. In addition, the experiment platform based on OpenFlow protocol for software defined optical network, is designed. The feasibility and availability of the OpenFlow-enabled optical nodes and the extended OpenFlow controller are validated by the connectivity test, protection switching and load balancing experiments in this test platform.

YouPower : An open source platform for community-oriented smart grid user engagement

NARCIS (Netherlands)

Huang, Yilin; Hasselqvist, Hanna; Poderi, Giacomo; Scepanovic, S.; Kis, F.; Bogdan, Cristian; Warnier, Martijn; Brazier, F.M.

2017-01-01

This paper presents YouPower, an open source platform designed to make people more aware of their energy consumption and encourage sustainable consumption with local communities. The platform is designed iteratively in collaboration with users in the Swedish and Italian test sites of the project

Automics: an integrated platform for NMR-based metabonomics spectral processing and data analysis

Directory of Open Access Journals (Sweden)

Qu Lijia

2009-03-01

Full Text Available Abstract Background Spectral processing and post-experimental data analysis are the major tasks in NMR-based metabonomics studies. While there are commercial and free licensed software tools available to assist these tasks, researchers usually have to use multiple software packages for their studies because software packages generally focus on specific tasks. It would be beneficial to have a highly integrated platform, in which these tasks can be completed within one package. Moreover, with open source architecture, newly proposed algorithms or methods for spectral processing and data analysis can be implemented much more easily and accessed freely by the public. Results In this paper, we report an open source software tool, Automics, which is specifically designed for NMR-based metabonomics studies. Automics is a highly integrated platform that provides functions covering almost all the stages of NMR-based metabonomics studies. Automics provides high throughput automatic modules with most recently proposed algorithms and powerful manual modules for 1D NMR spectral processing. In addition to spectral processing functions, powerful features for data organization, data pre-processing, and data analysis have been implemented. Nine statistical methods can be applied to analyses including: feature selection (Fisher's criterion, data reduction (PCA, LDA, ULDA, unsupervised clustering (K-Mean and supervised regression and classification (PLS/PLS-DA, KNN, SIMCA, SVM. Moreover, Automics has a user-friendly graphical interface for visualizing NMR spectra and data analysis results. The functional ability of Automics is demonstrated with an analysis of a type 2 diabetes metabolic profile. Conclusion Automics facilitates high throughput 1D NMR spectral processing and high dimensional data analysis for NMR-based metabonomics applications. Using Automics, users can complete spectral processing and data analysis within one software package in most cases

Automics: an integrated platform for NMR-based metabonomics spectral processing and data analysis.

Science.gov (United States)

Wang, Tao; Shao, Kang; Chu, Qinying; Ren, Yanfei; Mu, Yiming; Qu, Lijia; He, Jie; Jin, Changwen; Xia, Bin

2009-03-16

Spectral processing and post-experimental data analysis are the major tasks in NMR-based metabonomics studies. While there are commercial and free licensed software tools available to assist these tasks, researchers usually have to use multiple software packages for their studies because software packages generally focus on specific tasks. It would be beneficial to have a highly integrated platform, in which these tasks can be completed within one package. Moreover, with open source architecture, newly proposed algorithms or methods for spectral processing and data analysis can be implemented much more easily and accessed freely by the public. In this paper, we report an open source software tool, Automics, which is specifically designed for NMR-based metabonomics studies. Automics is a highly integrated platform that provides functions covering almost all the stages of NMR-based metabonomics studies. Automics provides high throughput automatic modules with most recently proposed algorithms and powerful manual modules for 1D NMR spectral processing. In addition to spectral processing functions, powerful features for data organization, data pre-processing, and data analysis have been implemented. Nine statistical methods can be applied to analyses including: feature selection (Fisher's criterion), data reduction (PCA, LDA, ULDA), unsupervised clustering (K-Mean) and supervised regression and classification (PLS/PLS-DA, KNN, SIMCA, SVM). Moreover, Automics has a user-friendly graphical interface for visualizing NMR spectra and data analysis results. The functional ability of Automics is demonstrated with an analysis of a type 2 diabetes metabolic profile. Automics facilitates high throughput 1D NMR spectral processing and high dimensional data analysis for NMR-based metabonomics applications. Using Automics, users can complete spectral processing and data analysis within one software package in most cases. Moreover, with its open source architecture, interested

Hybrid Integrated Platforms for Silicon Photonics

Science.gov (United States)

Liang, Di; Roelkens, Gunther; Baets, Roel; Bowers, John E.

2010-01-01

A review of recent progress in hybrid integrated platforms for silicon photonics is presented. Integration of III-V semiconductors onto silicon-on-insulator substrates based on two different bonding techniques is compared, one comprising only inorganic materials, the other technique using an organic bonding agent. Issues such as bonding process and mechanism, bonding strength, uniformity, wafer surface requirement, and stress distribution are studied in detail. The application in silicon photonics to realize high-performance active and passive photonic devices on low-cost silicon wafers is discussed. Hybrid integration is believed to be a promising technology in a variety of applications of silicon photonics.

An Open Data Platform For Africa

Science.gov (United States)

Boulton, G. S.; Hodson, S.

2016-12-01

The International Council for Science's Committee on Data for Science and Technology (CODATA) is collaborating with the South African Department of Science and Technology and other African regional players to create an African Open Data Platform, to be launched in December 2016. Its purpose is to coordinate and support moves in Africa to develop national science systems capacities (political, institutional, individual) that will enable them to exploit the opportunities of the digital revolution for scientific discovery, in reducing costs and increasing efficiency in business and public administration, and in new and powerful ways of addressing issues such as agricultural productivity, disease tracking and control, the production of bio-fuels, and in addressing many global problems where global solutions will only be achieved if there is global participation. Success in avoiding yet another "knowledge divide" between rich and poor depends fundamentally on the extent to which national systems of scientific priority setting, funding and institutional research management respond in a concerted way to the challenge. Although many countries are now addressing these opportunities, it is essential that developing and least developed countries, which have much to gain from the data revolution but which typically have poorly resourced national research systems, do not fail to respond to this imperative, which is also vital for the attainment of the UN Sustainable Development Goals. The Platform will be a basis for political commitment and innovative policy developmen, including shared investment in infrastructure. It will harvest and circulate good ideas, spread and support good practice and develop the capacities of individuals and institutions. It will promote key applications of relevance to African economies and societies, but also act as a conduit for links with international open data programmes and standards that will be vital if it is to flourish.

2009 Integrated Biorefinery Platform Review Report

Energy Technology Data Exchange (ETDEWEB)

Ferrell, John [Office of Energy Efficiency and Renewable Energy (EERE), Washington, DC (United States)

2009-12-01

This document summarizes the recommendations and evaluations provided by an independent external panel of experts at the U.S. Department of Energy Biomass Program‘s Integrated Biorefinery (IBR) platform review meeting, held on February 18–19, 2009, at the Westin National Harbor, National Harbor, Maryland.

Raven-II: an open platform for surgical robotics research.

Science.gov (United States)

Hannaford, Blake; Rosen, Jacob; Friedman, Diana W; King, Hawkeye; Roan, Phillip; Cheng, Lei; Glozman, Daniel; Ma, Ji; Kosari, Sina Nia; White, Lee

2013-04-01

The Raven-II is a platform for collaborative research on advances in surgical robotics. Seven universities have begun research using this platform. The Raven-II system has two 3-DOF spherical positioning mechanisms capable of attaching interchangeable four DOF instruments. The Raven-II software is based on open standards such as Linux and ROS to maximally facilitate software development. The mechanism is robust enough for repeated experiments and animal surgery experiments, but is not engineered to sufficient safety standards for human use. Mechanisms in place for interaction among the user community and dissemination of results include an electronic forum, an online software SVN repository, and meetings and workshops at major robotics conferences.

SEnviro: A Sensorized Platform Proposal Using Open Hardware and Open Standards

Directory of Open Access Journals (Sweden)

Sergio Trilles

2015-03-01

Full Text Available The need for constant monitoring of environmental conditions has produced an increase in the development of wireless sensor networks (WSN. The drive towards smart cities has produced the need for smart sensors to be able to monitor what is happening in our cities. This, combined with the decrease in hardware component prices and the increase in the popularity of open hardware, has favored the deployment of sensor networks based on open hardware. The new trends in Internet Protocol (IP communication between sensor nodes allow sensor access via the Internet, turning them into smart objects (Internet of Things and Web of Things. Currently, WSNs provide data in different formats. There is a lack of communication protocol standardization, which turns into interoperability issues when connecting different sensor networks or even when connecting different sensor nodes within the same network. This work presents a sensorized platform proposal that adheres to the principles of the Internet of Things and theWeb of Things. Wireless sensor nodes were built using open hardware solutions, and communications rely on the HTTP/IP Internet protocols. The Open Geospatial Consortium (OGC SensorThings API candidate standard was used as a neutral format to avoid interoperability issues. An environmental WSN developed following the proposed architecture was built as a proof of concept. Details on how to build each node and a study regarding energy concerns are presented.

SEnviro: a sensorized platform proposal using open hardware and open standards.

Science.gov (United States)

Trilles, Sergio; Luján, Alejandro; Belmonte, Óscar; Montoliu, Raúl; Torres-Sospedra, Joaquín; Huerta, Joaquín

2015-03-06

The need for constant monitoring of environmental conditions has produced an increase in the development of wireless sensor networks (WSN). The drive towards smart cities has produced the need for smart sensors to be able to monitor what is happening in our cities. This, combined with the decrease in hardware component prices and the increase in the popularity of open hardware, has favored the deployment of sensor networks based on open hardware. The new trends in Internet Protocol (IP) communication between sensor nodes allow sensor access via the Internet, turning them into smart objects (Internet of Things and Web of Things). Currently, WSNs provide data in different formats. There is a lack of communication protocol standardization, which turns into interoperability issues when connecting different sensor networks or even when connecting different sensor nodes within the same network. This work presents a sensorized platform proposal that adheres to the principles of the Internet of Things and theWeb of Things. Wireless sensor nodes were built using open hardware solutions, and communications rely on the HTTP/IP Internet protocols. The Open Geospatial Consortium (OGC) SensorThings API candidate standard was used as a neutral format to avoid interoperability issues. An environmental WSN developed following the proposed architecture was built as a proof of concept. Details on how to build each node and a study regarding energy concerns are presented.

Integration of the HTC Vive into the medical platform MeVisLab

Science.gov (United States)

Egger, Jan; Gall, Markus; Wallner, Jürgen; de Almeida Germano Boechat, Pedro; Hann, Alexander; Li, Xing; Chen, Xiaojun; Schmalstieg, Dieter

2017-03-01

Virtual Reality (VR) is an immersive technology that replicates an environment via computer-simulated reality. VR gets a lot of attention in computer games but has also great potential in other areas, like the medical domain. Examples are planning, simulations and training of medical interventions, like for facial surgeries where an aesthetic outcome is important. However, importing medical data into VR devices is not trivial, especially when a direct connection and visualization from your own application is needed. Furthermore, most researcher don't build their medical applications from scratch, rather they use platforms, like MeVisLab, Slicer or MITK. The platforms have in common that they integrate and build upon on libraries like ITK and VTK, further providing a more convenient graphical interface to them for the user. In this contribution, we demonstrate the usage of a VR device for medical data under MeVisLab. Therefore, we integrated the OpenVR library into MeVisLab as an own module. This enables the direct and uncomplicated usage of head mounted displays, like the HTC Vive under MeVisLab. Summarized, medical data from other MeVisLab modules can directly be connected per drag-and-drop to our VR module and will be rendered inside the HTC Vive for an immersive inspection.

Connecting societal issues, users and data : Scenario-based design of open data platforms

NARCIS (Netherlands)

Ruijer, Erna; Grimmelikhuijsen, Stephan; Hogan, Michael; Enzerink, Sem; Ojo, Adegboyega; Meijer, Albert

Governments around the world make their data available through platforms but, disappointingly, the use of this data is lagging behind. This problem has been recognized in the literature and to facilitate use of open datasets, scholars have focused on identifying general user requirements for open

Image Harvest: an open-source platform for high-throughput plant image processing and analysis.

Science.gov (United States)

Knecht, Avi C; Campbell, Malachy T; Caprez, Adam; Swanson, David R; Walia, Harkamal

2016-05-01

High-throughput plant phenotyping is an effective approach to bridge the genotype-to-phenotype gap in crops. Phenomics experiments typically result in large-scale image datasets, which are not amenable for processing on desktop computers, thus creating a bottleneck in the image-analysis pipeline. Here, we present an open-source, flexible image-analysis framework, called Image Harvest (IH), for processing images originating from high-throughput plant phenotyping platforms. Image Harvest is developed to perform parallel processing on computing grids and provides an integrated feature for metadata extraction from large-scale file organization. Moreover, the integration of IH with the Open Science Grid provides academic researchers with the computational resources required for processing large image datasets at no cost. Image Harvest also offers functionalities to extract digital traits from images to interpret plant architecture-related characteristics. To demonstrate the applications of these digital traits, a rice (Oryza sativa) diversity panel was phenotyped and genome-wide association mapping was performed using digital traits that are used to describe different plant ideotypes. Three major quantitative trait loci were identified on rice chromosomes 4 and 6, which co-localize with quantitative trait loci known to regulate agronomically important traits in rice. Image Harvest is an open-source software for high-throughput image processing that requires a minimal learning curve for plant biologists to analyzephenomics datasets. © The Author 2016. Published by Oxford University Press on behalf of the Society for Experimental Biology.

Integrated numerical platforms for environmental dose assessments of large tritium inventory facilities

International Nuclear Information System (INIS)

Castro, P.; Ardao, J.; Velarde, M.; Sedano, L.; Xiberta, J.

2013-01-01

Related with a prospected new scenario of large inventory tritium facilities [KATRIN at TLK, CANDUs, ITER, EAST, other coming] the prescribed dosimetric limits by ICRP-60 for tritium committed-doses are under discussion requiring, in parallel, to surmount the highly conservative assessments by increasing the refinement of dosimetric-assessments in many aspects. Precise Lagrangian-computations of dosimetric cloud-evolution after standardized (normal/incidental/SBO) tritium cloud emissions are today numerically open to the perfect match of real-time meteorological-data, and patterns data at diverse scales for prompt/early and chronic tritium dose assessments. The trends towards integrated-numerical-platforms for environmental-dose assessments of large tritium inventory facilities under development.

Hybrid Integrated Platforms for Silicon Photonics

Directory of Open Access Journals (Sweden)

John E. Bowers

2010-03-01

Full Text Available A review of recent progress in hybrid integrated platforms for silicon photonics is presented. Integration of III-V semiconductors onto silicon-on-insulator substrates based on two different bonding techniques is compared, one comprising only inorganic materials, the other technique using an organic bonding agent. Issues such as bonding process and mechanism, bonding strength, uniformity, wafer surface requirement, and stress distribution are studied in detail. The application in silicon photonics to realize high-performance active and passive photonic devices on low-cost silicon wafers is discussed. Hybrid integration is believed to be a promising technology in a variety of applications of silicon photonics.

A Platform for Innovation and Standards Evaluation: a Case Study from the OpenMRS Open-Source Radiology Information System.

Science.gov (United States)

Gichoya, Judy W; Kohli, Marc; Ivange, Larry; Schmidt, Teri S; Purkayastha, Saptarshi

2018-05-10

Open-source development can provide a platform for innovation by seeking feedback from community members as well as providing tools and infrastructure to test new standards. Vendors of proprietary systems may delay adoption of new standards until there are sufficient incentives such as legal mandates or financial incentives to encourage/mandate adoption. Moreover, open-source systems in healthcare have been widely adopted in low- and middle-income countries and can be used to bridge gaps that exist in global health radiology. Since 2011, the authors, along with a community of open-source contributors, have worked on developing an open-source radiology information system (RIS) across two communities-OpenMRS and LibreHealth. The main purpose of the RIS is to implement core radiology workflows, on which others can build and test new radiology standards. This work has resulted in three major releases of the system, with current architectural changes driven by changing technology, development of new standards in health and imaging informatics, and changing user needs. At their core, both these communities are focused on building general-purpose EHR systems, but based on user contributions from the fringes, we have been able to create an innovative system that has been used by hospitals and clinics in four different countries. We provide an overview of the history of the LibreHealth RIS, the architecture of the system, overview of standards integration, describe challenges of developing an open-source product, and future directions. Our goal is to attract more participation and involvement to further develop the LibreHealth RIS into an Enterprise Imaging System that can be used in other clinical imaging including pathology and dermatology.

EmuStack: An OpenStack-Based DTN Network Emulation Platform (Extended Version

Directory of Open Access Journals (Sweden)

Haifeng Li

2016-01-01

Full Text Available With the advancement of computing and network virtualization technology, the networking research community shows great interest in network emulation. Compared with network simulation, network emulation can provide more relevant and comprehensive details. In this paper, EmuStack, a large-scale real-time emulation platform for Delay Tolerant Network (DTN, is proposed. EmuStack aims at empowering network emulation to become as simple as network simulation. Based on OpenStack, distributed synchronous emulation modules are developed to enable EmuStack to implement synchronous and dynamic, precise, and real-time network emulation. Meanwhile, the lightweight approach of using Docker container technology and network namespaces allows EmuStack to support a (up to hundreds of nodes large-scale topology with only several physical nodes. In addition, EmuStack integrates the Linux Traffic Control (TC tools with OpenStack for managing and emulating the virtual link characteristics which include variable bandwidth, delay, loss, jitter, reordering, and duplication. Finally, experiences with our initial implementation suggest the ability to run and debug experimental network protocol in real time. EmuStack environment would bring qualitative change in network research works.

Integration of the TNXYZ computer program inside the platform Salome

International Nuclear Information System (INIS)

Chaparro V, F. J.

2014-01-01

The present work shows the procedure carried out to integrate the code TNXYZ as a calculation tool at the graphical simulation platform Salome. The TNXYZ code propose a numerical solution of the neutron transport equation, in several groups of energy, steady-state and three-dimensional geometry. In order to discretized the variables of the transport equation, the code uses the method of discrete ordinates for the angular variable, and a nodal method for the spatial dependence. The Salome platform is a graphical environment designed for building, editing and simulating mechanical models mainly focused on the industry and unlike other software, in order to form a complete scheme of pre and post processing of information, to integrate and control an external source code. Before the integration the in the Salome platform TNXYZ code was upgraded. TNXYZ was programmed in the 90s using Fortran 77 compiler; for this reason the code was adapted to the characteristics of the current Fortran compilers; in addition, with the intention of extracting partial results over the process sequence, the original structure of the program underwent a modularization process, i.e. the main program was divided into sections where the code performs major operations. This procedure is controlled by the information module (YACS) on Salome platform, and it could be useful for a subsequent coupling with thermal-hydraulics codes. Finally, with the help of the Monte Carlo code Serpent several study cases were defined in order to check the process of integration; the verification process consisted in performing a comparison of the results obtained with the code executed as stand-alone and after modernized, integrated and controlled by the Salome platform. (Author)

Opening the SMS platform to users : Deliverable D7.2 - RISIS project

NARCIS (Netherlands)

van den Besselaar, P.A.A.; Khalili, A.; de Graaf, K.A.; Idrissou, O.A.K.; van Harmelen, Frank

2017-01-01

In this deliverable we describe the SMS (Semantically Mapping Science) data integration platform (http://sms.risis.eu), the technical core within the RISIS data infrastructure for Science, Technology and Innovation Studies (STI). The aim of the platform is to produce richer data to be used in social

A modular open platform for systematic functional studies under physiological conditions

Science.gov (United States)

Mulholland, Christopher B.; Smets, Martha; Schmidtmann, Elisabeth; Leidescher, Susanne; Markaki, Yolanda; Hofweber, Mario; Qin, Weihua; Manzo, Massimiliano; Kremmer, Elisabeth; Thanisch, Katharina; Bauer, Christina; Rombaut, Pascaline; Herzog, Franz; Leonhardt, Heinrich; Bultmann, Sebastian

2015-01-01

Any profound comprehension of gene function requires detailed information about the subcellular localization, molecular interactions and spatio-temporal dynamics of gene products. We developed a multifunctional integrase (MIN) tag for rapid and versatile genome engineering that serves not only as a genetic entry site for the Bxb1 integrase but also as a novel epitope tag for standardized detection and precipitation. For the systematic study of epigenetic factors, including Dnmt1, Dnmt3a, Dnmt3b, Tet1, Tet2, Tet3 and Uhrf1, we generated MIN-tagged embryonic stem cell lines and created a toolbox of prefabricated modules that can be integrated via Bxb1-mediated recombination. We used these functional modules to study protein interactions and their spatio-temporal dynamics as well as gene expression and specific mutations during cellular differentiation and in response to external stimuli. Our genome engineering strategy provides a versatile open platform for efficient generation of multiple isogenic cell lines to study gene function under physiological conditions. PMID:26007658

Neurokernel: An Open Source Platform for Emulating the Fruit Fly Brain.

Directory of Open Access Journals (Sweden)

Lev E Givon

Full Text Available We have developed an open software platform called Neurokernel for collaborative development of comprehensive models of the brain of the fruit fly Drosophila melanogaster and their execution and testing on multiple Graphics Processing Units (GPUs. Neurokernel provides a programming model that capitalizes upon the structural organization of the fly brain into a fixed number of functional modules to distinguish between these modules' local information processing capabilities and the connectivity patterns that link them. By defining mandatory communication interfaces that specify how data is transmitted between models of each of these modules regardless of their internal design, Neurokernel explicitly enables multiple researchers to collaboratively model the fruit fly's entire brain by integration of their independently developed models of its constituent processing units. We demonstrate the power of Neurokernel's model integration by combining independently developed models of the retina and lamina neuropils in the fly's visual system and by demonstrating their neuroinformation processing capability. We also illustrate Neurokernel's ability to take advantage of direct GPU-to-GPU data transfers with benchmarks that demonstrate scaling of Neurokernel's communication performance both over the number of interface ports exposed by an emulation's constituent modules and the total number of modules comprised by an emulation.

Pulseq-Graphical Programming Interface: Open source visual environment for prototyping pulse sequences and integrated magnetic resonance imaging algorithm development.

Science.gov (United States)

Ravi, Keerthi Sravan; Potdar, Sneha; Poojar, Pavan; Reddy, Ashok Kumar; Kroboth, Stefan; Nielsen, Jon-Fredrik; Zaitsev, Maxim; Venkatesan, Ramesh; Geethanath, Sairam

2018-03-11

To provide a single open-source platform for comprehensive MR algorithm development inclusive of simulations, pulse sequence design and deployment, reconstruction, and image analysis. We integrated the "Pulseq" platform for vendor-independent pulse programming with Graphical Programming Interface (GPI), a scientific development environment based on Python. Our integrated platform, Pulseq-GPI, permits sequences to be defined visually and exported to the Pulseq file format for execution on an MR scanner. For comparison, Pulseq files using either MATLAB only ("MATLAB-Pulseq") or Python only ("Python-Pulseq") were generated. We demonstrated three fundamental sequences on a 1.5 T scanner. Execution times of the three variants of implementation were compared on two operating systems. In vitro phantom images indicate equivalence with the vendor supplied implementations and MATLAB-Pulseq. The examples demonstrated in this work illustrate the unifying capability of Pulseq-GPI. The execution times of all the three implementations were fast (a few seconds). The software is capable of user-interface based development and/or command line programming. The tool demonstrated here, Pulseq-GPI, integrates the open-source simulation, reconstruction and analysis capabilities of GPI Lab with the pulse sequence design and deployment features of Pulseq. Current and future work includes providing an ISMRMRD interface and incorporating Specific Absorption Ratio and Peripheral Nerve Stimulation computations. Copyright © 2018 Elsevier Inc. All rights reserved.

Multi-function microfluidic platform for sensor integration

DEFF Research Database (Denmark)

Fernandes, Ana C.; Semenova, Daria; Panjan, Peter

2018-01-01

The limited availability of metabolite-specific sensors for continuous sampling and monitoring is one of the main bottlenecks contributing to failures in bioprocess development. Furthermore, only a limited number of approaches exist to connect currently available measurement systems with high...... throughput reactor units. This is especially relevant in the biocatalyst screening and characterization stage of process development. In this work, a strategy for sensor integration in microfluidic platforms is demonstrated, to address the need for rapid, cost-effective and high-throughput screening...... of the sample solution up to 10 times. In order to highlight the features of the proposed platform, inline monitoring of glucose levels is presented and discussed. Glucose was chosen due to its importance in biotechnology as a relevant substrate. The platform demonstrated continuous measurement of substrate...

An ultra-efficient nonlinear planar integrated platform for optical signal processing and generation

DEFF Research Database (Denmark)

Pu, Minhao; Ottaviano, Luisa; Semenova, Elizaveta

2017-01-01

This paper will discuss the recently developed integrated platform: AlGaAs-oninsulator and its broad range of nonlinear applications. Recent demonstrations of broadband optical signal processing and efficient frequency comb generations in this platform will be reviewed.......This paper will discuss the recently developed integrated platform: AlGaAs-oninsulator and its broad range of nonlinear applications. Recent demonstrations of broadband optical signal processing and efficient frequency comb generations in this platform will be reviewed....

A Versatile Integrated Ambient Ionization Source Platform

Science.gov (United States)

Ai, Wanpeng; Nie, Honggang; Song, Shiyao; Liu, Xiaoyun; Bai, Yu; Liu, Huwei

2018-04-01

The pursuit of high-throughput sample analysis from complex matrix demands development of multiple ionization techniques with complementary specialties. A versatile integrated ambient ionization source (iAmIS) platform is proposed in this work, based on the idea of integrating multiple functions, enhancing the efficiency of current ionization techniques, extending the applications, and decreasing the cost of the instrument. The design of the iAmIS platform combines flowing atmospheric pressure afterglow (FAPA) source/direct analysis in real time (DART), dielectric barrier discharge ionization (DBDI)/low-temperature plasma (LTP), desorption electrospray ionization (DESI), and laser desorption (LD) technique. All individual and combined ionization modes can be easily attained by modulating parameters. In particular, the FAPA/DART&DESI mode can realize the detection of polar and nonpolar compounds at the same time with two different ionization mechanisms: proton transfer and charge transfer. The introduction of LD contributes to the mass spectrometry imaging and the surface-assisted laser desorption (SALDI) under ambient condition. Compared with other individual or multi-mode ion source, the iAmIS platform provides the flexibility of choosing different ionization modes, broadens the scope of the analyte detection, and facilitates the analysis of complex samples. [Figure not available: see fulltext.

BioFoV - An open platform for forensic video analysis and biometric data extraction

DEFF Research Database (Denmark)

Almeida, Miguel; Correia, Paulo Lobato; Larsen, Peter Kastmand

2016-01-01

to tailor-made software, based on state of art knowledge in fields such as soft biometrics, gait recognition, photogrammetry, etc. This paper proposes an open and extensible platform, BioFoV (Biometric Forensic Video tool), for forensic video analysis and biometric data extraction, aiming to host some...... of the developments that researchers come up with for solving specific problems, but that are often not shared with the community. BioFoV includes a simple to use Graphical User Interface (GUI), is implemented with open software that can run in multiple software platforms, and its implementation is publicly available....

Future mobile access for open-data platforms and the BBC-DaaS system

Science.gov (United States)

Edlich, Stefan; Singh, Sonam; Pfennigstorf, Ingo

2013-03-01

In this paper, we develop an open data platform on multimedia devices to act as marketplace of data for information seekers and data providers. We explore the important aspects of Data-as-a-Service (DaaS) service in the cloud with a mobile access point. The basis of the DaaS service is to act as a marketplace for information, utilizing new technologies and recent new scalable polyglot architectures based on NoSql databases. Whereas Open-Data platforms are beginning to be widely accepted, its mobile use is not. We compare similar products, their approach and a possible mobile usage. We discuss several approaches to address the mobile access as a native app, html5 and a mobile first approach together with the several frontend presentation techniques. Big data visualization itself is in the early days and we explore some possibilities to get big data / open data accessed by mobile users.

Quantum photonics hybrid integration platform

Energy Technology Data Exchange (ETDEWEB)

Murray, E.; Floether, F. F. [Cambridge Research Laboratory, Toshiba Research Europe Limited, 208 Science Park, Milton Road, Cambridge CB4 0GZ (United Kingdom); Cavendish Laboratory, University of Cambridge, J.J. Thomson Avenue, Cambridge CB3 0HE (United Kingdom); Ellis, D. J. P.; Meany, T.; Bennett, A. J., E-mail: anthony.bennet@crl.toshiba.co.uk; Shields, A. J. [Cambridge Research Laboratory, Toshiba Research Europe Limited, 208 Science Park, Milton Road, Cambridge CB4 0GZ (United Kingdom); Lee, J. P. [Cambridge Research Laboratory, Toshiba Research Europe Limited, 208 Science Park, Milton Road, Cambridge CB4 0GZ (United Kingdom); Engineering Department, University of Cambridge, 9 J. J. Thomson Avenue, Cambridge CB3 0FA (United Kingdom); Griffiths, J. P.; Jones, G. A. C.; Farrer, I.; Ritchie, D. A. [Cavendish Laboratory, University of Cambridge, J.J. Thomson Avenue, Cambridge CB3 0HE (United Kingdom)

2015-10-26

Fundamental to integrated photonic quantum computing is an on-chip method for routing and modulating quantum light emission. We demonstrate a hybrid integration platform consisting of arbitrarily designed waveguide circuits and single-photon sources. InAs quantum dots (QD) embedded in GaAs are bonded to a SiON waveguide chip such that the QD emission is coupled to the waveguide mode. The waveguides are SiON core embedded in a SiO{sub 2} cladding. A tuneable Mach Zehnder interferometer (MZI) modulates the emission between two output ports and can act as a path-encoded qubit preparation device. The single-photon nature of the emission was verified using the on-chip MZI as a beamsplitter in a Hanbury Brown and Twiss measurement.

Open Source Based Sensor Platform for Mobile Environmental Monitoring and Data Acquisition

Science.gov (United States)

Schima, Robert; Goblirsch, Tobias; Misterek, René; Salbach, Christoph; Schlink, Uwe; Francyk, Bogdan; Dietrich, Peter; Bumberger, Jan

2016-04-01

data processing, data provision and data visualization. The smart phone app allows the configuration of the mobile sensor devices and provides some built-in functions such as simple data visualization or data transmission via e-mail whereas the web service provides the visualization of the data and tools for data processing. In an initial field experiment, a methane monitoring based on our sensor integration platform was performed in the city area of Leipzig (Germany) in late June 2015. The study has shown that an urban monitoring can be conducted based on open source components. Moreover, the system enabled the detection of hot spots and methane emission sources. In September 2015, a larger scaled city monitoring based on the mobile monitoring platform was performed by five independently driving cyclists through the city center of Leipzig (Germany). As a result we were able to instantly show a heat and humidity map of the inner city center as well as an exposure map for each cyclist. This emphasizes the feasibility and high potential of open source based monitoring approaches for future research in the field of urban area monitoring in general, citizen science or the validation of remote sensing data.

Novel data visualizations of X-ray data for aviation security applications using the Open Threat Assessment Platform (OTAP)

Science.gov (United States)

Gittinger, Jaxon M.; Jimenez, Edward S.; Holswade, Erica A.; Nunna, Rahul S.

2017-02-01

This work will demonstrate the implementation of a traditional and non-traditional visualization of x-ray images for aviation security applications that will be feasible with open system architecture initiatives such as the Open Threat Assessment Platform (OTAP). Anomalies of interest to aviation security are fluid, where characteristic signals of anomalies of interest can evolve rapidly. OTAP is a limited scope open architecture baggage screening prototype that intends to allow 3rd-party vendors to develop and easily implement, integrate, and deploy detection algorithms and specialized hardware on a field deployable screening technology [13]. In this study, stereoscopic images were created using an unmodified, field-deployed system and rendered on the Oculus Rift, a commercial virtual reality video gaming headset. The example described in this work is not dependent on the Oculus Rift, and is possible using any comparable hardware configuration capable of rendering stereoscopic images. The depth information provided from viewing the images will aid in the detection of characteristic signals from anomalies of interest. If successful, OTAP has the potential to allow for aviation security to become more fluid in its adaptation to the evolution of anomalies of interest. This work demonstrates one example that is easily implemented using the OTAP platform, that could lead to the future generation of ATR algorithms and data visualization approaches.

HTC Vive MeVisLab integration via OpenVR for medical applications.

Science.gov (United States)

Egger, Jan; Gall, Markus; Wallner, Jürgen; Boechat, Pedro; Hann, Alexander; Li, Xing; Chen, Xiaojun; Schmalstieg, Dieter

2017-01-01

Virtual Reality, an immersive technology that replicates an environment via computer-simulated reality, gets a lot of attention in the entertainment industry. However, VR has also great potential in other areas, like the medical domain, Examples are intervention planning, training and simulation. This is especially of use in medical operations, where an aesthetic outcome is important, like for facial surgeries. Alas, importing medical data into Virtual Reality devices is not necessarily trivial, in particular, when a direct connection to a proprietary application is desired. Moreover, most researcher do not build their medical applications from scratch, but rather leverage platforms like MeVisLab, MITK, OsiriX or 3D Slicer. These platforms have in common that they use libraries like ITK and VTK, and provide a convenient graphical interface. However, ITK and VTK do not support Virtual Reality directly. In this study, the usage of a Virtual Reality device for medical data under the MeVisLab platform is presented. The OpenVR library is integrated into the MeVisLab platform, allowing a direct and uncomplicated usage of the head mounted display HTC Vive inside the MeVisLab platform. Medical data coming from other MeVisLab modules can directly be connected per drag-and-drop to the Virtual Reality module, rendering the data inside the HTC Vive for immersive virtual reality inspection.

HTC Vive MeVisLab integration via OpenVR for medical applications.

Directory of Open Access Journals (Sweden)

Jan Egger

Full Text Available Virtual Reality, an immersive technology that replicates an environment via computer-simulated reality, gets a lot of attention in the entertainment industry. However, VR has also great potential in other areas, like the medical domain, Examples are intervention planning, training and simulation. This is especially of use in medical operations, where an aesthetic outcome is important, like for facial surgeries. Alas, importing medical data into Virtual Reality devices is not necessarily trivial, in particular, when a direct connection to a proprietary application is desired. Moreover, most researcher do not build their medical applications from scratch, but rather leverage platforms like MeVisLab, MITK, OsiriX or 3D Slicer. These platforms have in common that they use libraries like ITK and VTK, and provide a convenient graphical interface. However, ITK and VTK do not support Virtual Reality directly. In this study, the usage of a Virtual Reality device for medical data under the MeVisLab platform is presented. The OpenVR library is integrated into the MeVisLab platform, allowing a direct and uncomplicated usage of the head mounted display HTC Vive inside the MeVisLab platform. Medical data coming from other MeVisLab modules can directly be connected per drag-and-drop to the Virtual Reality module, rendering the data inside the HTC Vive for immersive virtual reality inspection.

Wireless, smartphone controlled potentiostat integrated with lab-on-disc platform

DEFF Research Database (Denmark)

Cheng, Chung-Hsiang; Zor, Kinga; Wang, Jen-Hung

A smartphone controlled wireless data transmitting and inductive powering Power Lab-on-disc (PLoD) platform is developed based on 2.4 GHz Bluetooth and 205 kHz Qi techniques, respectively. A potentiostat is integrated on the PLoD platform, and amperometric measurements are performed. The wireless...

Closed-loop, multichannel experimentation using the open-source NeuroRighter electrophysiology platform

Directory of Open Access Journals (Sweden)

Jonathan Paul Newman

2013-01-01

Full Text Available Single neuron feedback control techniques, such as voltage clamp and dynamic clamp, have enabled numerous advances in our understanding of ion channels, electrochemical signaling, and neural dynamics. Although commercially available multichannel recording and stimulation systems are commonly used for studying neural processing at the network level, they provide little native support for real-time feedback. We developed the open-source NeuroRighter multichannel electrophysiology hardware and software platform for closed-loop multichannel control with a focus on accessibility and low cost. NeuroRighter allows 64 channels of stimulation and recording for around US $10,000, along with the ability to integrate with other software and hardware. Here, we present substantial enhancements to the NeuroRighter platform, including a redesigned desktop application, a new stimulation subsystem allowing arbitrary stimulation patterns, low-latency data servers for accessing data streams, and a new application programming interface (API for creating closed-loop protocols that can be inserted into NeuroRighter as plugin programs. This greatly simplifies the design of sophisticated real-time experiments without sacrificing the power and speed of a compiled programming language. Here we present a detailed description of NeuroRighter as a stand alone application, its plugin API, and an extensive set of case studies that highlight the system's abilities for conducting closed-loop, multichannel interfacing experiments.

PRINCIPLES OF MODERN UNIVERSITY "ACADEMIC CLOUD" FORMATION BASED ON OPEN SOFTWARE PLATFORM

Directory of Open Access Journals (Sweden)

Olena H. Hlazunova

2014-09-01

Full Text Available In the article approaches to the use of cloud technology in teaching of higher education students are analyzed. The essence of the concept of "academic cloud" and its structural elements are justified. The model of academic clouds of the modern university, which operates on the basis of open software platforms, are proposed. Examples of functional software and platforms, that provide the needs of students in e-learning resources, are given. The models of deployment Cloud-oriented environment in higher education: private cloud, infrastructure as a service and platform as a service, are analyzed. The comparison of the cost of deployment "academic cloud" based on its own infrastructure of the institution and lease infrastructure vendor are substantiated.

OpenVX-based Python Framework for real-time cross platform acceleration of embedded computer vision applications

Directory of Open Access Journals (Sweden)

Ori Heimlich

2016-11-01

Full Text Available Embedded real-time vision applications are being rapidly deployed in a large realm of consumer electronics, ranging from automotive safety to surveillance systems. However, the relatively limited computational power of embedded platforms is considered as a bottleneck for many vision applications, necessitating optimization. OpenVX is a standardized interface, released in late 2014, in an attempt to provide both system and kernel level optimization to vision applications. With OpenVX, Vision processing are modeled with coarse-grained data flow graphs, which can be optimized and accelerated by the platform implementer. Current full implementations of OpenVX are given in the programming language C, which does not support advanced programming paradigms such as object-oriented, imperative and functional programming, nor does it have runtime or type-checking. Here we present a python-based full Implementation of OpenVX, which eliminates much of the discrepancies between the object-oriented paradigm used by many modern applications and the native C implementations. Our open-source implementation can be used for rapid development of OpenVX applications in embedded platforms. Demonstration includes static and real-time image acquisition and processing using a Raspberry Pi and a GoPro camera. Code is given as supplementary information. Code project and linked deployable virtual machine are located on GitHub: https://github.com/NBEL-lab/PythonOpenVX.

An open-access platform for camera-trapping data

Directory of Open Access Journals (Sweden)

Mario César Lavariega

2018-02-01

Full Text Available In southern Mexico, local communities have been playing important roles in the design and collection of wildlife data through camera-trapping in community-based monitoring of biodiversity projects. However, the methods used to store the data have limited their use in matters of decision-making and research. Thus, we present the Platform for Community-based Monitoring of Biodiversity (PCMB, a repository, which allows storage, visualization, and downloading of photographs captured by community-based monitoring of biodiversity projects in protected areas of southern Mexico. The platform was developed using agile software development with extensive interaction between computer scientists and biologists. System development included gathering data, design, built, database and attributes creation, and quality control. The PCMB currently contains 28,180 images of 6478 animals (69.4% mammals and 30.3% birds. Of the 32 species of mammals recorded in 18 PA since 2012, approximately a quarter of all photographs were of white-tailed deer (Odocoileus virginianus. Platforms permitting access to camera-trapping data are a valuable step in opening access to data of biodiversity; the PCMB is a practical new tool for wildlife management and research with data generated through local participation. Thus, this work encourages research on the data generated through the community-based monitoring of biodiversity projects in protected areas, to provide an important information infrastructure for effective management and conservation of wildlife.

Open-source telemedicine platform for wireless medical video communication.

Science.gov (United States)

Panayides, A; Eleftheriou, I; Pantziaris, M

2013-01-01

An m-health system for real-time wireless communication of medical video based on open-source software is presented. The objective is to deliver a low-cost telemedicine platform which will allow for reliable remote diagnosis m-health applications such as emergency incidents, mass population screening, and medical education purposes. The performance of the proposed system is demonstrated using five atherosclerotic plaque ultrasound videos. The videos are encoded at the clinically acquired resolution, in addition to lower, QCIF, and CIF resolutions, at different bitrates, and four different encoding structures. Commercially available wireless local area network (WLAN) and 3.5G high-speed packet access (HSPA) wireless channels are used to validate the developed platform. Objective video quality assessment is based on PSNR ratings, following calibration using the variable frame delay (VFD) algorithm that removes temporal mismatch between original and received videos. Clinical evaluation is based on atherosclerotic plaque ultrasound video assessment protocol. Experimental results show that adequate diagnostic quality wireless medical video communications are realized using the designed telemedicine platform. HSPA cellular networks provide for ultrasound video transmission at the acquired resolution, while VFD algorithm utilization bridges objective and subjective ratings.

Open-Source Telemedicine Platform for Wireless Medical Video Communication

Science.gov (United States)

Panayides, A.; Eleftheriou, I.; Pantziaris, M.

2013-01-01

An m-health system for real-time wireless communication of medical video based on open-source software is presented. The objective is to deliver a low-cost telemedicine platform which will allow for reliable remote diagnosis m-health applications such as emergency incidents, mass population screening, and medical education purposes. The performance of the proposed system is demonstrated using five atherosclerotic plaque ultrasound videos. The videos are encoded at the clinically acquired resolution, in addition to lower, QCIF, and CIF resolutions, at different bitrates, and four different encoding structures. Commercially available wireless local area network (WLAN) and 3.5G high-speed packet access (HSPA) wireless channels are used to validate the developed platform. Objective video quality assessment is based on PSNR ratings, following calibration using the variable frame delay (VFD) algorithm that removes temporal mismatch between original and received videos. Clinical evaluation is based on atherosclerotic plaque ultrasound video assessment protocol. Experimental results show that adequate diagnostic quality wireless medical video communications are realized using the designed telemedicine platform. HSPA cellular networks provide for ultrasound video transmission at the acquired resolution, while VFD algorithm utilization bridges objective and subjective ratings. PMID:23573082

Open-Source Telemedicine Platform for Wireless Medical Video Communication

Directory of Open Access Journals (Sweden)

A. Panayides

2013-01-01

Full Text Available An m-health system for real-time wireless communication of medical video based on open-source software is presented. The objective is to deliver a low-cost telemedicine platform which will allow for reliable remote diagnosis m-health applications such as emergency incidents, mass population screening, and medical education purposes. The performance of the proposed system is demonstrated using five atherosclerotic plaque ultrasound videos. The videos are encoded at the clinically acquired resolution, in addition to lower, QCIF, and CIF resolutions, at different bitrates, and four different encoding structures. Commercially available wireless local area network (WLAN and 3.5G high-speed packet access (HSPA wireless channels are used to validate the developed platform. Objective video quality assessment is based on PSNR ratings, following calibration using the variable frame delay (VFD algorithm that removes temporal mismatch between original and received videos. Clinical evaluation is based on atherosclerotic plaque ultrasound video assessment protocol. Experimental results show that adequate diagnostic quality wireless medical video communications are realized using the designed telemedicine platform. HSPA cellular networks provide for ultrasound video transmission at the acquired resolution, while VFD algorithm utilization bridges objective and subjective ratings.

A middleware-based platform for the integration of bioinformatic services

Directory of Open Access Journals (Sweden)

Guzmán Llambías

2015-08-01

Full Text Available Performing Bioinformatic´s experiments involve an intensive access to distributed services and information resources through Internet. Although existing tools facilitate the implementation of workflow-oriented applications, they lack of capabilities to integrate services beyond low-scale applications, particularly integrating services with heterogeneous interaction patterns and in a larger scale. This is particularly required to enable a large-scale distributed processing of biological data generated by massive sequencing technologies. On the other hand, such integration mechanisms are provided by middleware products like Enterprise Service Buses (ESB, which enable to integrate distributed systems following a Service Oriented Architecture. This paper proposes an integration platform, based on enterprise middleware, to integrate Bioinformatics services. It presents a multi-level reference architecture and focuses on ESB-based mechanisms to provide asynchronous communications, event-based interactions and data transformation capabilities. The paper presents a formal specification of the platform using the Event-B model.

Health Care Transformation Through Collaboration on Open-Source Informatics Projects: Integrating a Medical Applications Platform, Research Data Repository, and Patient Summarization

Science.gov (United States)

McCoy, Allison B; Wright, Adam; Wattanasin, Nich; Sittig, Dean F; Murphy, Shawn N

2013-01-01

Background The Strategic Health IT Advanced Research Projects (SHARP) program seeks to conquer well-understood challenges in medical informatics through breakthrough research. Two SHARP centers have found alignment in their methodological needs: (1) members of the National Center for Cognitive Informatics and Decision-making (NCCD) have developed knowledge bases to support problem-oriented summarizations of patient data, and (2) Substitutable Medical Apps, Reusable Technologies (SMART), which is a platform for reusable medical apps that can run on participating platforms connected to various electronic health records (EHR). Combining the work of these two centers will ensure wide dissemination of new methods for synthesized views of patient data. Informatics for Integrating Biology and the Bedside (i2b2) is an NIH-funded clinical research data repository platform in use at over 100 sites worldwide. By also working with a co-occurring initiative to SMART-enabling i2b2, we can confidently write one app that can be used extremely broadly. Objective Our goal was to facilitate development of intuitive, problem-oriented views of the patient record using NCCD knowledge bases that would run in any EHR. To do this, we developed a collaboration between the two SHARPs and an NIH center, i2b2. Methods First, we implemented collaborative tools to connect researchers at three institutions. Next, we developed a patient summarization app using the SMART platform and a previously validated NCCD problem-medication linkage knowledge base derived from the National Drug File-Reference Terminology (NDF-RT). Finally, to SMART-enable i2b2, we implemented two new Web service “cells” that expose the SMART application programming interface (API), and we made changes to the Web interface of i2b2 to host a “carousel” of SMART apps. Results We deployed our SMART-based, NDF-RT-derived patient summarization app in this SMART-i2b2 container. It displays a problem-oriented view of

Health care transformation through collaboration on open-source informatics projects: integrating a medical applications platform, research data repository, and patient summarization.

Science.gov (United States)

Klann, Jeffrey G; McCoy, Allison B; Wright, Adam; Wattanasin, Nich; Sittig, Dean F; Murphy, Shawn N

2013-05-30

The Strategic Health IT Advanced Research Projects (SHARP) program seeks to conquer well-understood challenges in medical informatics through breakthrough research. Two SHARP centers have found alignment in their methodological needs: (1) members of the National Center for Cognitive Informatics and Decision-making (NCCD) have developed knowledge bases to support problem-oriented summarizations of patient data, and (2) Substitutable Medical Apps, Reusable Technologies (SMART), which is a platform for reusable medical apps that can run on participating platforms connected to various electronic health records (EHR). Combining the work of these two centers will ensure wide dissemination of new methods for synthesized views of patient data. Informatics for Integrating Biology and the Bedside (i2b2) is an NIH-funded clinical research data repository platform in use at over 100 sites worldwide. By also working with a co-occurring initiative to SMART-enabling i2b2, we can confidently write one app that can be used extremely broadly. Our goal was to facilitate development of intuitive, problem-oriented views of the patient record using NCCD knowledge bases that would run in any EHR. To do this, we developed a collaboration between the two SHARPs and an NIH center, i2b2. First, we implemented collaborative tools to connect researchers at three institutions. Next, we developed a patient summarization app using the SMART platform and a previously validated NCCD problem-medication linkage knowledge base derived from the National Drug File-Reference Terminology (NDF-RT). Finally, to SMART-enable i2b2, we implemented two new Web service "cells" that expose the SMART application programming interface (API), and we made changes to the Web interface of i2b2 to host a "carousel" of SMART apps. We deployed our SMART-based, NDF-RT-derived patient summarization app in this SMART-i2b2 container. It displays a problem-oriented view of medications and presents a line-graph display of

Proof-of-Concept Prototyping for Observis Platform

OpenAIRE

Ekimov, Victor

2012-01-01

Observis Oy is a start-up company first appeared in January 2011. The company is building up a measurement platform that is open and easy to connect. It helps measurement device suppliers, system and service providers, and analyzing services to found and combine each other’s products to create more value to the end customers. Observis Oy intends to develop a platform for integration with other services in order to provide management functionality in environmental field of business. Platform i...

Third-party Reverse logistics platform and method Based on Bilateral Resource Integration

Directory of Open Access Journals (Sweden)

Zheng Hong Zhen

2016-01-01

Full Text Available Dispersion of reverse logistics resources makes it difficult to create relationships between demanders and providers, thereby the personalized demand for the construction of enterprise reverse logistics cannot be satisfied and the service quality cannot be guaranteed. Aiming at these problems, this paper presents a platform and method of enterprise reverse logistics based on bilateral resource integration (RLBRI. The method creates a third-party reverse logistics platform to accumulate a mass of reverse logistics demanders and providers together. And the platform integrates bilateral resources and acts as an intermediary to establish relationships between two sides. Through the platform, a complete and high-quality business chain for enterprise reverse logistics will be built efficiently. Finally put forward an effective strategy of non-defective reverse logistics depends on the integrity checking service provided by third-party logistics. By using this strategy it can short the distance of non-defective reverse transportation. Computational tests validate the strategy.

KinomeXplorer: an integrated platform for kinome biology studies

DEFF Research Database (Denmark)

Horn, Heiko; Schoof, Erwin; Kim, Jinho

2014-01-01

A letter to the editor is presented related to the KinomeXplorer, an integrated platform providing workflows to efficiently analyze phosphorylation dependent interaction networks or kinase signaling networks....

MRMer, an interactive open source and cross-platform system for data extraction and visualization of multiple reaction monitoring experiments.

Science.gov (United States)

Martin, Daniel B; Holzman, Ted; May, Damon; Peterson, Amelia; Eastham, Ashley; Eng, Jimmy; McIntosh, Martin

2008-11-01

Multiple reaction monitoring (MRM) mass spectrometry identifies and quantifies specific peptides in a complex mixture with very high sensitivity and speed and thus has promise for the high throughput screening of clinical samples for candidate biomarkers. We have developed an interactive software platform, called MRMer, for managing highly complex MRM-MS experiments, including quantitative analyses using heavy/light isotopic peptide pairs. MRMer parses and extracts information from MS files encoded in the platform-independent mzXML data format. It extracts and infers precursor-product ion transition pairings, computes integrated ion intensities, and permits rapid visual curation for analyses exceeding 1000 precursor-product pairs. Results can be easily output for quantitative comparison of consecutive runs. Additionally MRMer incorporates features that permit the quantitative analysis experiments including heavy and light isotopic peptide pairs. MRMer is open source and provided under the Apache 2.0 license.

Study on integrated design and analysis platform of NPP

International Nuclear Information System (INIS)

Lu Dongsen; Gao Zuying; Zhou Zhiwei

2001-01-01

Many calculation software have been developed to nuclear system's design and safety analysis, such as structure design software, fuel design and manage software, thermal hydraulic analysis software, severe accident simulation software, etc. This study integrates those software to a platform, develops visual modeling tool for Retran, NGFM90. And in this platform, a distribution calculation method is also provided for couple calculation between different software. The study will improve the design and analysis of NPP

Multi-function microfluidic platform for sensor integration.

Science.gov (United States)

Fernandes, Ana C; Semenova, Daria; Panjan, Peter; Sesay, Adama M; Gernaey, Krist V; Krühne, Ulrich

2018-03-06

The limited availability of metabolite-specific sensors for continuous sampling and monitoring is one of the main bottlenecks contributing to failures in bioprocess development. Furthermore, only a limited number of approaches exist to connect currently available measurement systems with high throughput reactor units. This is especially relevant in the biocatalyst screening and characterization stage of process development. In this work, a strategy for sensor integration in microfluidic platforms is demonstrated, to address the need for rapid, cost-effective and high-throughput screening in bioprocesses. This platform is compatible with different sensor formats by enabling their replacement and was built in order to be highly flexible and thus suitable for a wide range of applications. Moreover, this re-usable platform can easily be connected to analytical equipment, such as HPLC, laboratory scale reactors or other microfluidic chips through the use of standardized fittings. In addition, the developed platform includes a two-sensor system interspersed with a mixing channel, which allows the detection of samples that might be outside the first sensor's range of detection, through dilution of the sample solution up to 10 times. In order to highlight the features of the proposed platform, inline monitoring of glucose levels is presented and discussed. Glucose was chosen due to its importance in biotechnology as a relevant substrate. The platform demonstrated continuous measurement of substrate solutions for up to 12 h. Furthermore, the influence of the fluid velocity on substrate diffusion was observed, indicating the need for in-flow calibration to achieve a good quantitative output. Copyright © 2018 Elsevier B.V. All rights reserved.

Paleomagnetism.org : An online multi-platform open source environment for paleomagnetic data analysis

NARCIS (Netherlands)

Koymans, Mathijs R.; Langereis, C.G.; Pastor-Galán, D.; van Hinsbergen, D.J.J.

2016-01-01

This contribution provides an overview of Paleomagnetism.org, an open-source, multi-platform online environment for paleomagnetic data analysis. Paleomagnetism.org provides an interactive environment where paleomagnetic data can be interpreted, evaluated, visualized, and exported. The

A multi-purpose open-source triggering platform for magnetic resonance

Science.gov (United States)

Ruytenberg, T.; Webb, A. G.; Beenakker, J. W. M.

2014-10-01

Many MR scans need to be synchronised with external events such as the cardiac or respiratory cycles. For common physiological functions commercial trigger equipment exists, but for more experimental inputs these are not available. This paper describes the design of a multi-purpose open-source trigger platform for MR systems. The heart of the system is an open-source Arduino Due microcontroller. This microcontroller samples an analogue input and digitally processes these data to determine the trigger. The output of the microcontroller is programmed to mimic a physiological signal which is fed into the electrocardiogram (ECG) or pulse oximeter port of MR scanner. The microcontroller is connected to a Bluetooth dongle that allows wireless monitoring and control outside the scanner room. This device can be programmed to generate a trigger based on various types of input. As one example, this paper describes how it can be used as an acoustic cardiac triggering unit. For this, a plastic stethoscope is connected to a microphone which is used as an input for the system. This test setup was used to acquire retrospectively-triggered cardiac scans in ten volunteers. Analysis showed that this platform produces a reliable trigger (>99% triggers are correct) with a small average 8 ms variation between the exact trigger points.

A hybrid approach to device integration on a genetic analysis platform

International Nuclear Information System (INIS)

Brennan, Des; Justice, John; Aherne, Margaret; Galvin, Paul; Jary, Dorothee; Kurg, Ants; Berik, Evgeny; Macek, Milan

2012-01-01

Point-of-care (POC) systems require significant component integration to implement biochemical protocols associated with molecular diagnostic assays. Hybrid platforms where discrete components are combined in a single platform are a suitable approach to integration, where combining multiple device fabrication steps on a single substrate is not possible due to incompatible or costly fabrication steps. We integrate three devices each with a specific system functionality: (i) a silicon electro-wetting-on-dielectric (EWOD) device to move and mix sample and reagent droplets in an oil phase, (ii) a polymer microfluidic chip containing channels and reservoirs and (iii) an aqueous phase glass microarray for fluorescence microarray hybridization detection. The EWOD device offers the possibility of fully integrating on-chip sample preparation using nanolitre sample and reagent volumes. A key challenge is sample transfer from the oil phase EWOD device to the aqueous phase microarray for hybridization detection. The EWOD device, waveguide performance and functionality are maintained during the integration process. An on-chip biochemical protocol for arrayed primer extension (APEX) was implemented for single nucleotide polymorphism (SNiP) analysis. The prepared sample is aspirated from the EWOD oil phase to the aqueous phase microarray for hybridization. A bench-top instrumentation system was also developed around the integrated platform to drive the EWOD electrodes, implement APEX sample heating and image the microarray after hybridization. (paper)

Genomics Portals: integrative web-platform for mining genomics data.

Science.gov (United States)

Shinde, Kaustubh; Phatak, Mukta; Johannes, Freudenberg M; Chen, Jing; Li, Qian; Vineet, Joshi K; Hu, Zhen; Ghosh, Krishnendu; Meller, Jaroslaw; Medvedovic, Mario

2010-01-13

A large amount of experimental data generated by modern high-throughput technologies is available through various public repositories. Our knowledge about molecular interaction networks, functional biological pathways and transcriptional regulatory modules is rapidly expanding, and is being organized in lists of functionally related genes. Jointly, these two sources of information hold a tremendous potential for gaining new insights into functioning of living systems. Genomics Portals platform integrates access to an extensive knowledge base and a large database of human, mouse, and rat genomics data with basic analytical visualization tools. It provides the context for analyzing and interpreting new experimental data and the tool for effective mining of a large number of publicly available genomics datasets stored in the back-end databases. The uniqueness of this platform lies in the volume and the diversity of genomics data that can be accessed and analyzed (gene expression, ChIP-chip, ChIP-seq, epigenomics, computationally predicted binding sites, etc), and the integration with an extensive knowledge base that can be used in such analysis. The integrated access to primary genomics data, functional knowledge and analytical tools makes Genomics Portals platform a unique tool for interpreting results of new genomics experiments and for mining the vast amount of data stored in the Genomics Portals backend databases. Genomics Portals can be accessed and used freely at http://GenomicsPortals.org.

Model Fusion Tool - the Open Environmental Modelling Platform Concept

Science.gov (United States)

Kessler, H.; Giles, J. R.

2010-12-01

data to groundwater models but these models are only aimed at solving one specific part of the earth’s system, e.g. the flow of groundwater to an abstraction borehole or the availability of water for irrigation. Particular problems arise when model data from two or more disciplines are incompatible in terms of data formats, scientific concepts or language. Other barriers include the cultural segregation within and between science disciplines as well as impediments to data exchange due to ownership and copyright restrictions. OpenMI and GeoSciML are initiatives that are trying to overcome these barriers by building international communities that share vocabularies and data formats. This paper gives examples of the successful merging of geological and hydrological models from the UK and will introduce the vision of an open Environmental Modelling Platform which aims to link data, knowledge and concepts seamlessly to numerical process models. Last but not least there is an urgent need to create a Subsurface Information System akin to a Geographic Information System in which all results of subsurface modelling can be visualised and analysed in an integrated manner and thereby become useful for decision makers.

National Community Solar Platform

Energy Technology Data Exchange (ETDEWEB)

Rupert, Bart [Clean Energy Collective, Louisville, CO (United States)

2016-06-30

This project was created to provide a National Community Solar Platform (NCSP) portal known as Community Solar Hub, that is available to any entity or individual who wants to develop community solar. This has been done by providing a comprehensive portal to make CEC’s solutions, and other proven community solar solutions, externally available for everyone to access – making the process easy through proven platforms to protect subscribers, developers and utilities. The successful completion of this project provides these tools via a web platform and integration APIs, a wide spectrum of community solar projects included in the platform, multiple groups of customers (utilities, EPCs, and advocates) using the platform to develop community solar, and open access to anyone interested in community solar. CEC’s Incubator project includes web-based informational resources, integrated systems for project information and billing systems, and engagement with customers and users by community solar experts. The combined effort externalizes much of Clean Energy Collective’s industry-leading expertise, allowing third parties to develop community solar without duplicating expensive start-up efforts. The availability of this platform creates community solar projects that are cheaper to build and cheaper to participate in, furthering the goals of DOE’s SunShot Initiative. Final SF 425 Final SF 428 Final DOE F 2050.11 Final Report Narrative

Beyond Open Source Software: Solving Common Library Problems Using the Open Source Hardware Arduino Platform

Directory of Open Access Journals (Sweden)

Jonathan Younker

2013-06-01

Full Text Available Using open source hardware platforms like the Arduino, libraries have the ability to quickly and inexpensively prototype custom hardware solutions to common library problems. The authors present the Arduino environment, what it is, what it does, and how it was used at the James A. Gibson Library at Brock University to create a production portable barcode-scanning utility for in-house use statistics collection as well as a prototype for a service desk statistics tabulation program’s hardware interface.

Full scale test platform for European TBM systems integration and maintenance

Energy Technology Data Exchange (ETDEWEB)

Vála, Ladislav, E-mail: ladislav.vala@cvrez.cz; Reungoat, Mathieu; Vician, Martin

2016-11-01

Highlights: • A platform for EU-TBS maintenance and integration tests is described. • Its modular design allows adaptation to non-EU TBSs. • Assembling of the facility will be followed by initial tests in 2016. - Abstract: This article deals with description and current status of a project of a non-nuclear, full size (1:1 scale) test platform dedicated to tests, optimization and validation of integration and maintenance operations for the European TBM systems in the ITER port cell #16. The facility called TBM platform reproduces the ITER port cell #16 and port interspace with all the relevant interfaces and mock-ups of the corresponding main components. Thanks to the modular design of the platform, it is possible to adapt or change completely the interfaces in the future if needed or required according to the updated configuration of TBSs. In the same way, based on customer requirements, it will be possible to adapt the interfaces and piping inside the mock-ups in order to represent also the other, non-EU configurations of TBM systems designed for port cells #02 and #18. Construction of this test platform is realized and funded within the scope of the SUSEN project.

Open Source GIS based integrated watershed management

Science.gov (United States)

Byrne, J. M.; Lindsay, J.; Berg, A. A.

2013-12-01

Optimal land and water management to address future and current resource stresses and allocation challenges requires the development of state-of-the-art geomatics and hydrological modelling tools. Future hydrological modelling tools should be of high resolution, process based with real-time capability to assess changing resource issues critical to short, medium and long-term enviromental management. The objective here is to merge two renowned, well published resource modeling programs to create an source toolbox for integrated land and water management applications. This work will facilitate a much increased efficiency in land and water resource security, management and planning. Following an 'open-source' philosophy, the tools will be computer platform independent with source code freely available, maximizing knowledge transfer and the global value of the proposed research. The envisioned set of water resource management tools will be housed within 'Whitebox Geospatial Analysis Tools'. Whitebox, is an open-source geographical information system (GIS) developed by Dr. John Lindsay at the University of Guelph. The emphasis of the Whitebox project has been to develop a user-friendly interface for advanced spatial analysis in environmental applications. The plugin architecture of the software is ideal for the tight-integration of spatially distributed models and spatial analysis algorithms such as those contained within the GENESYS suite. Open-source development extends knowledge and technology transfer to a broad range of end-users and builds Canadian capability to address complex resource management problems with better tools and expertise for managers in Canada and around the world. GENESYS (Generate Earth Systems Science input) is an innovative, efficient, high-resolution hydro- and agro-meteorological model for complex terrain watersheds developed under the direction of Dr. James Byrne. GENESYS is an outstanding research and applications tool to address

Migration of the Almaraz NPP integrated operation management system to a new computer platform

International Nuclear Information System (INIS)

Gonzalez Crego, E.; Martin Lopez-Suevos, C.

1996-01-01

In all power plants, it becomes necessary, with the passage of time, to migrate the initial operation management systems to adapt them to current technologies. That is a good time to improve the inclusion of data in the corporative database and standardize the system interfaces and operation, whilst maintaining data system operability. This article contains Almaraz experience in migrating its Integrated Operation Management System to an advanced computer platform based on open systems (UNIX), communications network (ETHERNET) and database (ORACLE). To this effect, clear objectives and strict standards were established to facilitate the work. The most noteworthy results obtained are: Better quality of information and structure in the corporative database Standardised user interface in all applications. Joint migration of applications for Maintenance, Components and Spare parts, Warehouses and Purchases. Integration of new applications into the system. Introduction of the navigator, which allows movement around the database using all available applications. (Author)

Droplet-based Biosensing for Lab-on-a-Chip, Open Microfluidics Platforms

Directory of Open Access Journals (Sweden)

Piyush Dak

2016-04-01

Full Text Available Low cost, portable sensors can transform health care by bringing easily available diagnostic devices to low and middle income population, particularly in developing countries. Sample preparation, analyte handling and labeling are primary cost concerns for traditional lab-based diagnostic systems. Lab-on-a-chip (LoC platforms based on droplet-based microfluidics promise to integrate and automate these complex and expensive laboratory procedures onto a single chip; the cost will be further reduced if label-free biosensors could be integrated onto the LoC platforms. Here, we review some recent developments of label-free, droplet-based biosensors, compatible with “open” digital microfluidic systems. These low-cost droplet-based biosensors overcome some of the fundamental limitations of the classical sensors, enabling timely diagnosis. We identify the key challenges that must be addressed to make these sensors commercially viable and summarize a number of promising research directions.

mmpdb: An Open-Source Matched Molecular Pair Platform for Large Multiproperty Data Sets.

Science.gov (United States)

Dalke, Andrew; Hert, Jérôme; Kramer, Christian

2018-05-29

Matched molecular pair analysis (MMPA) enables the automated and systematic compilation of medicinal chemistry rules from compound/property data sets. Here we present mmpdb, an open-source matched molecular pair (MMP) platform to create, compile, store, retrieve, and use MMP rules. mmpdb is suitable for the large data sets typically found in pharmaceutical and agrochemical companies and provides new algorithms for fragment canonicalization and stereochemistry handling. The platform is written in Python and based on the RDKit toolkit. It is freely available from https://github.com/rdkit/mmpdb .

OpenICE medical device interoperability platform overview and requirement analysis.

Science.gov (United States)

Arney, David; Plourde, Jeffrey; Goldman, Julian M

2018-02-23

We give an overview of OpenICE, an open source implementation of the ASTM standard F2761 for the Integrated Clinical Environment (ICE) that leverages medical device interoperability, together with an analysis of the clinical and non-functional requirements and community process that inspired its design.

Design and Development of ChemInfoCloud: An Integrated Cloud Enabled Platform for Virtual Screening.

Science.gov (United States)

Karthikeyan, Muthukumarasamy; Pandit, Deepak; Bhavasar, Arvind; Vyas, Renu

2015-01-01

The power of cloud computing and distributed computing has been harnessed to handle vast and heterogeneous data required to be processed in any virtual screening protocol. A cloud computing platorm ChemInfoCloud was built and integrated with several chemoinformatics and bioinformatics tools. The robust engine performs the core chemoinformatics tasks of lead generation, lead optimisation and property prediction in a fast and efficient manner. It has also been provided with some of the bioinformatics functionalities including sequence alignment, active site pose prediction and protein ligand docking. Text mining, NMR chemical shift (1H, 13C) prediction and reaction fingerprint generation modules for efficient lead discovery are also implemented in this platform. We have developed an integrated problem solving cloud environment for virtual screening studies that also provides workflow management, better usability and interaction with end users using container based virtualization, OpenVz.

Going Open: Does it Mean Giving Away Control?

Directory of Open Access Journals (Sweden)

Michael Weiss

2013-01-01

Full Text Available Open source software has evolved from being an effort driven by a collective of volunteers to become an integral part of commercial software. Constant demands for new features besides maintaining product quality made companies seek open source as an answer for these demands. These growing demands brought with them control of quality, architecture, contribution management, and community management. This article explores the governance strategies adopted by open source software projects to manage the quality of complements (such as plug-ins that extend a platform's functionality developed by community members outside the core team. The outcomes of the research contribute to our understanding of the strategies followed by different open source platform owners (the open source project initiators to manage external innovation in the case of platform extensions in two areas: i governance models and ii regulatory tools.

An integrated biotechnology platform for developing sustainable chemical processes.

Science.gov (United States)

Barton, Nelson R; Burgard, Anthony P; Burk, Mark J; Crater, Jason S; Osterhout, Robin E; Pharkya, Priti; Steer, Brian A; Sun, Jun; Trawick, John D; Van Dien, Stephen J; Yang, Tae Hoon; Yim, Harry

2015-03-01

Genomatica has established an integrated computational/experimental metabolic engineering platform to design, create, and optimize novel high performance organisms and bioprocesses. Here we present our platform and its use to develop E. coli strains for production of the industrial chemical 1,4-butanediol (BDO) from sugars. A series of examples are given to demonstrate how a rational approach to strain engineering, including carefully designed diagnostic experiments, provided critical insights about pathway bottlenecks, byproducts, expression balancing, and commercial robustness, leading to a superior BDO production strain and process.

Integrating pipeline data management application and Google maps dataset on web based GIS application unsing open source technology Sharp Map and Open Layers

Energy Technology Data Exchange (ETDEWEB)

Wisianto, Arie; Sania, Hidayatus [PT PERTAMINA GAS, Bontang (Indonesia); Gumilar, Oki [PT PERTAMINA GAS, Jakarta (Indonesia)

2010-07-01

PT Pertamina Gas operates 3 pipe segments carrying natural gas from producers to PT Pupuk Kaltim in the Kalimantan area. The company wants to build a pipeline data management system consisting of pipeline facilities, inspections and risk assessments which would run on Geographic Information Systems (GIS) platforms. The aim of this paper is to present the integration of the pipeline data management system with GIS. A web based GIS application is developed using the combination of Google maps datasets with local spatial datasets. In addition, Open Layers is used to integrate pipeline data model and Google Map dataset into a single map display on Sharp Map. The GIS based pipeline data management system developed herein constitutes a low cost, powerful and efficient web based GIS solution.

A multi-purpose open-source triggering platform for magnetic resonance.

Science.gov (United States)

Ruytenberg, T; Webb, A G; Beenakker, J W M

2014-10-01

Many MR scans need to be synchronised with external events such as the cardiac or respiratory cycles. For common physiological functions commercial trigger equipment exists, but for more experimental inputs these are not available. This paper describes the design of a multi-purpose open-source trigger platform for MR systems. The heart of the system is an open-source Arduino Due microcontroller. This microcontroller samples an analogue input and digitally processes these data to determine the trigger. The output of the microcontroller is programmed to mimic a physiological signal which is fed into the electrocardiogram (ECG) or pulse oximeter port of MR scanner. The microcontroller is connected to a Bluetooth dongle that allows wireless monitoring and control outside the scanner room. This device can be programmed to generate a trigger based on various types of input. As one example, this paper describes how it can be used as an acoustic cardiac triggering unit. For this, a plastic stethoscope is connected to a microphone which is used as an input for the system. This test setup was used to acquire retrospectively-triggered cardiac scans in ten volunteers. Analysis showed that this platform produces a reliable trigger (>99% triggers are correct) with a small average 8 ms variation between the exact trigger points. Copyright © 2014 Elsevier Inc. All rights reserved.

An integrated platform for biomolecule interaction analysis

Science.gov (United States)

Jan, Chia-Ming; Tsai, Pei-I.; Chou, Shin-Ting; Lee, Shu-Sheng; Lee, Chih-Kung

2013-02-01

We developed a new metrology platform which can detect real-time changes in both a phase-interrogation mode and intensity mode of a SPR (surface plasmon resonance). We integrated a SPR and ellipsometer to a biosensor chip platform to create a new biomolecular interaction measurement mechanism. We adopted a conductive ITO (indium-tinoxide) film to the bio-sensor platform chip to expand the dynamic range and improve measurement accuracy. The thickness of the conductive film and the suitable voltage constants were found to enhance performance. A circularly polarized ellipsometry configuration was incorporated into the newly developed platform to measure the label-free interactions of recombinant human C-reactive protein (CRP) with immobilized biomolecule target monoclonal human CRP antibody at various concentrations. CRP was chosen as it is a cardiovascular risk biomarker and is an acute phase reactant as well as a specific prognostic indicator for inflammation. We found that the sensitivity of a phaseinterrogation SPR is predominantly dependent on the optimization of the sample incidence angle. The effect of the ITO layer effective index under DC and AC effects as well as an optimal modulation were experimentally performed and discussed. Our experimental results showed that the modulated dynamic range for phase detection was 10E-2 RIU based on a current effect and 10E-4 RIU based on a potential effect of which a 0.55 (°/RIU) measurement was found by angular-interrogation. The performance of our newly developed metrology platform was characterized to have a higher sensitivity and less dynamic range when compared to a traditional full-field measurement system.

Genomics Portals: integrative web-platform for mining genomics data

Directory of Open Access Journals (Sweden)

Ghosh Krishnendu

2010-01-01

Full Text Available Abstract Background A large amount of experimental data generated by modern high-throughput technologies is available through various public repositories. Our knowledge about molecular interaction networks, functional biological pathways and transcriptional regulatory modules is rapidly expanding, and is being organized in lists of functionally related genes. Jointly, these two sources of information hold a tremendous potential for gaining new insights into functioning of living systems. Results Genomics Portals platform integrates access to an extensive knowledge base and a large database of human, mouse, and rat genomics data with basic analytical visualization tools. It provides the context for analyzing and interpreting new experimental data and the tool for effective mining of a large number of publicly available genomics datasets stored in the back-end databases. The uniqueness of this platform lies in the volume and the diversity of genomics data that can be accessed and analyzed (gene expression, ChIP-chip, ChIP-seq, epigenomics, computationally predicted binding sites, etc, and the integration with an extensive knowledge base that can be used in such analysis. Conclusion The integrated access to primary genomics data, functional knowledge and analytical tools makes Genomics Portals platform a unique tool for interpreting results of new genomics experiments and for mining the vast amount of data stored in the Genomics Portals backend databases. Genomics Portals can be accessed and used freely at http://GenomicsPortals.org.

Fundamentals of power integrity for computer platforms and systems

CERN Document Server

DiBene, Joseph T

2014-01-01

An all-encompassing text that focuses on the fundamentals of power integrity Power integrity is the study of power distribution from the source to the load and the system level issues that can occur across it. For computer systems, these issues can range from inside the silicon to across the board and may egress into other parts of the platform, including thermal, EMI, and mechanical. With a focus on computer systems and silicon level power delivery, this book sheds light on the fundamentals of power integrity, utilizing the author's extensive background in the power integrity industry and un

Exploration and implementation of ontology-based cultural relic knowledge map integration platform

Science.gov (United States)

Yang, Weiqiang; Dong, Yiqiang

2018-05-01

To help designers to better carry out creative design and improve the ability of searching traditional cultural relic information, the ontology-based knowledge map construction method was explored and an integrated platform for cultural relic knowledge map was developed. First of all, the construction method of the ontology of cultural relics was put forward, and the construction of the knowledge map of cultural relics was completed based on the constructed cultural relic otology. Then, a personalized semantic retrieval framework for creative design was proposed. Finally, the integrated platform of the knowledge map of cultural relics was designed and realized. The platform was divided into two parts. One was the foreground display system, which was used for designers to search and browse cultural relics. The other was the background management system, which was for cultural experts to manage cultural relics' knowledge. The research results showed that the platform designed could improve the retrieval ability of cultural relic information. To sum up, the platform can provide a good support for the designer's creative design.

An Integrated Platform for Dynamic Software Updating and its Application in Self-* systems

DEFF Research Database (Denmark)

Gregersen, Allan Raundahl; Jørgensen, Bo Nørregaard; Hadaytullah

2012-01-01

Practical dynamic updating of modern Java applications requires tool support to become an integral part of the software development and maintenance lifecycle. In this paper we present Javeleon, an easy-to-use tool for dynamic updates of Java applications. To support integration with specific...... frameworks, component systems and application servers, Javeleon currently provides tight integration with the NetBeans Platform, facilitating dynamic updating for applications built on top of the NetBeans Platform in an unconstrained manner. Javeleon supports state-preserving unanticipated runtime evolution...

Towards an Open Software Platform for Field Robots in Precision Agriculture

Directory of Open Access Journals (Sweden)

Kjeld Jensen

2014-06-01

Full Text Available Robotics in precision agriculture has the potential to improve competitiveness and increase sustainability compared to current crop production methods and has become an increasingly active area of research. Tractor guidance systems for supervised navigation and implement control have reached the market, and prototypes of field robots performing precision agriculture tasks without human intervention also exist. But research in advanced cognitive perception and behaviour that is required to enable a more efficient, reliable and safe autonomy becomes increasingly demanding due to the growing software complexity. A lack of collaboration between research groups contributes to the problem. Scientific publications describe methods and results from the work, but little field robot software is released and documented for others to use. We hypothesize that a common open software platform tailored to field robots in precision agriculture will significantly decrease development time and resources required to perform experiments due to efficient reuse of existing work across projects and robot platforms. In this work we present the FroboMind software platform and evaluate the performance when applied to precision agriculture tasks.

Methods for open innovation on a genome-design platform associating scientific, commercial, and educational communities in synthetic biology.

Science.gov (United States)

Toyoda, Tetsuro

2011-01-01

Synthetic biology requires both engineering efficiency and compliance with safety guidelines and ethics. Focusing on the rational construction of biological systems based on engineering principles, synthetic biology depends on a genome-design platform to explore the combinations of multiple biological components or BIO bricks for quickly producing innovative devices. This chapter explains the differences among various platform models and details a methodology for promoting open innovation within the scope of the statutory exemption of patent laws. The detailed platform adopts a centralized evaluation model (CEM), computer-aided design (CAD) bricks, and a freemium model. It is also important for the platform to support the legal aspects of copyrights as well as patent and safety guidelines because intellectual work including DNA sequences designed rationally by human intelligence is basically copyrightable. An informational platform with high traceability, transparency, auditability, and security is required for copyright proof, safety compliance, and incentive management for open innovation in synthetic biology. GenoCon, which we have organized and explained here, is a competition-styled, open-innovation method involving worldwide participants from scientific, commercial, and educational communities that aims to improve the designs of genomic sequences that confer a desired function on an organism. Using only a Web browser, a participating contributor proposes a design expressed with CAD bricks that generate a relevant DNA sequence, which is then experimentally and intensively evaluated by the GenoCon organizers. The CAD bricks that comprise programs and databases as a Semantic Web are developed, executed, shared, reused, and well stocked on the secure Semantic Web platform called the Scientists' Networking System or SciNetS/SciNeS, based on which a CEM research center for synthetic biology and open innovation should be established. Copyright © 2011 Elsevier Inc

A Platform for Mobile Service Provisioning Based on SOA-Integration

Science.gov (United States)

Decker, Michael; Bulander, Rebecca

A middleware platform designed for the provisioning of data services for mobile computers using wireless data communication (e.g. smartphones or PDAs) has to offer a variety of different features. Some of these features have to be provided by external parties, e.g. billing or content syndication. The integration of all these features while considering mobile-specific challenges is a demanding task. In the article at hand we thus describe a middleware platform for mobile services which follows the idea of a so called Enterprise Service Bus (ESB). We explain the concept of ESB and argue why an ESB is an appropriate fundament for a platform for mobile service provisioning.

Practicing theory and theorizing practice: Using an Open Collaborative Platform to facilitate meaningful interactions between academia and industry

DEFF Research Database (Denmark)

Baka, Vasiliki

2015-01-01

The aim of this paper is to explore how a technological platform can connect multiple stakeholders towards educating open innovation ambassadors. In other words, how both academics and practitioners focusing on open innovation can ‘meet’ to constructively nurture openness in practice. The paper...

REopt: A Platform for Energy System Integration and Optimization: Preprint

Energy Technology Data Exchange (ETDEWEB)

Simpkins, T.; Cutler, D.; Anderson, K.; Olis, D.; Elgqvist, E.; Callahan, M.; Walker, A.

2014-08-01

REopt is NREL's energy planning platform offering concurrent, multi-technology integration and optimization capabilities to help clients meet their cost savings and energy performance goals. The REopt platform provides techno-economic decision-support analysis throughout the energy planning process, from agency-level screening and macro planning to project development to energy asset operation. REopt employs an integrated approach to optimizing a site?s energy costs by considering electricity and thermal consumption, resource availability, complex tariff structures including time-of-use, demand and sell-back rates, incentives, net-metering, and interconnection limits. Formulated as a mixed integer linear program, REopt recommends an optimally-sized mix of conventional and renewable energy, and energy storage technologies; estimates the net present value associated with implementing those technologies; and provides the cost-optimal dispatch strategy for operating them at maximum economic efficiency. The REopt platform can be customized to address a variety of energy optimization scenarios including policy, microgrid, and operational energy applications. This paper presents the REopt techno-economic model along with two examples of recently completed analysis projects.

Offshore platform integration and floatover technology

CERN Document Server

Liu, Gengshen

2017-01-01

This book discusses offshore platform integration technology, focusing on the floatover methodology and its applications. It also addresses topics related to safety and cost-effectiveness, as well as ensuring the success of a project through careful planning and established detailed operation procedure/working manuals, which are rarely found in the published literature. Unlike other publications in this area, the book not only includes details of technology development, but also presents real project cases in the discussion to make it more comprehensible. Each topic is illustrated with carefully created sketches to show the complex operation procedures. .

Study on the E-commerce platform based on the agent

Science.gov (United States)

Fu, Ruixue; Qin, Lishuan; Gao, Yinmin

2011-10-01

To solve problem of dynamic integration in e-commerce, the Multi-Agent architecture of electronic commerce platform system based on Agent and Ontology has been introduced, which includes three major types of agent, Ontology and rule collection. In this architecture, service agent and rule are used to realize the business process reengineering, the reuse of software component, and agility of the electronic commerce platform. To illustrate the architecture, a simulation work has been done and the results imply that the architecture provides a very efficient method to design and implement the flexible, distributed, open and intelligent electronic commerce platform system to solve problem of dynamic integration in ecommerce. The objective of this paper is to illustrate the architecture of electronic commerce platform system, and the approach how Agent and Ontology support the electronic commerce platform system.

Open soundcard as a platform for practical, laboratory study of digital audio

DEFF Research Database (Denmark)

Dimitrov, Smilen; Serafin, Stefania

2014-01-01

This article investigates how lacking suitable platforms for laboratory exercises becomes a learning problem, limiting the practical experience students gain. In engineering education, laboratory demonstration difficulty of issues like real-time streaming in digital signal and audio processing...... afforded by such laboratories, and their open nature, could testably improve the diversity of demonstrated practical topics, while maintaining engineering students' motivation....

Ginseng Genome Database: an open-access platform for genomics of Panax ginseng.

Science.gov (United States)

Jayakodi, Murukarthick; Choi, Beom-Soon; Lee, Sang-Choon; Kim, Nam-Hoon; Park, Jee Young; Jang, Woojong; Lakshmanan, Meiyappan; Mohan, Shobhana V G; Lee, Dong-Yup; Yang, Tae-Jin

2018-04-12

The ginseng (Panax ginseng C.A. Meyer) is a perennial herbaceous plant that has been used in traditional oriental medicine for thousands of years. Ginsenosides, which have significant pharmacological effects on human health, are the foremost bioactive constituents in this plant. Having realized the importance of this plant to humans, an integrated omics resource becomes indispensable to facilitate genomic research, molecular breeding and pharmacological study of this herb. The first draft genome sequences of P. ginseng cultivar "Chunpoong" were reported recently. Here, using the draft genome, transcriptome, and functional annotation datasets of P. ginseng, we have constructed the Ginseng Genome Database http://ginsengdb.snu.ac.kr /, the first open-access platform to provide comprehensive genomic resources of P. ginseng. The current version of this database provides the most up-to-date draft genome sequence (of approximately 3000 Mbp of scaffold sequences) along with the structural and functional annotations for 59,352 genes and digital expression of genes based on transcriptome data from different tissues, growth stages and treatments. In addition, tools for visualization and the genomic data from various analyses are provided. All data in the database were manually curated and integrated within a user-friendly query page. This database provides valuable resources for a range of research fields related to P. ginseng and other species belonging to the Apiales order as well as for plant research communities in general. Ginseng genome database can be accessed at http://ginsengdb.snu.ac.kr /.

Wolfram technologies as an integrated scalable platform for interactive learning

Science.gov (United States)

Kaurov, Vitaliy

2012-02-01

We rely on technology profoundly with the prospect of even greater integration in the future. Well known challenges in education are a technology-inadequate curriculum and many software platforms that are difficult to scale or interconnect. We'll review an integrated technology, much of it free, that addresses these issues for individuals and small schools as well as for universities. Topics include: Mathematica, a programming environment that offers a diverse range of functionality; natural language programming for getting started quickly and accessing data from Wolfram|Alpha; quick and easy construction of interactive courseware and scientific applications; partnering with publishers to create interactive e-textbooks; course assistant apps for mobile platforms; the computable document format (CDF); teacher-student and student-student collaboration on interactive projects and web publishing at the Wolfram Demonstrations site.

Posting Traditional Ecological Knowledge on Open Access Biodiversity Platforms: Implications for Learning Design

Science.gov (United States)

Funk, Johanna; Guthadjaka, Kathy; Kong, Gary

2015-01-01

BowerBird is an open platform biodiversity website (http://www.BowerBird.org.au) and a nationally funded project under management of the Atlas of Living Australia (ALA) and Museum Victoria. Members post sightings and information about local species of plants and animals, and record other features of ecosystems. Charles Darwin University's Northern…

Development and application of knowledge-based subject group integration platforms:A case study of Shanghai Institute of Ceramics,CAS

Institute of Scientific and Technical Information of China (English)

Yu; LIU; Jian; FU; Huijun; ZHENG; Hao; CHEN; Zhiping; YANG

2014-01-01

Purpose:According to the different requirements of research group users,we established the knowledge-based subject group integration platforms of Shanghai Institute of Ceramics,the Chinese Academy of Sciences(abbreviated as SIC CAS hereinafter),which were designed and constructed to better meet the needs of CAS research groups for their development,collaboration and communication.Design/methodology/approach:We first identified the requirements of users via preliminary investigation,and then chose CASI1 P,iLibrary and XKE technology,respectively as the building tools compatible with the major demands of users.These steps helped us complete the layout design of SIC CAS integration platforms,as well as its knowledge organization and integration.Findings:According to the need of users,we applied three types of platform construction technologies to five SIC integration platforms,and formulated standard norms for the further construction process,which could provide useful reference for a sustainable development for the extensive construction in CAS institutes.Research limitations:In order to make the SIC integration platforms more intelligent and have more functions,we need to enlarge the scale of the Platforms and upgrade the building tools for the platform construction.Practical implications:The nature of SIC sub-project integration platforms is to construct a content-sensitive environment which can embed knowledge services and knowledge applications seamlessly into scientific activities,so the Platform is expected to be a useful tool to help researchers better understand the recent development of the research field and form collaborations with their peers.Originality/value:SIC integration platforms are the only pilot construction that used 3different platform technologies in the first batch of knowledge-based subject group integration platforms of the Chinese Academy of Sciences.The construction is user-centered throughout the whole process,namely,from the technology

Developing an Open Source, Reusable Platform for Distributed Collaborative Information Management in the Early Detection Research Network

Science.gov (United States)

Hart, Andrew F.; Verma, Rishi; Mattmann, Chris A.; Crichton, Daniel J.; Kelly, Sean; Kincaid, Heather; Hughes, Steven; Ramirez, Paul; Goodale, Cameron; Anton, Kristen;

A Comparative Study on Metadata Scheme of Chinese and American Open Data Platforms

Directory of Open Access Journals (Sweden)

Yang Sinan

2018-01-01

Full Text Available [Purpose/significance] Open government data is conducive to the rational development and utilization of data resources. It can encourage social innovation and promote economic development. Besides, in order to ensure effective utilization and social increment of open government data, high-quality metadata schemes is necessary. [Method/process] Firstly, this paper analyzed the related research of open government data at home and abroad. Then, it investigated the open metadata schemes of some Chinese main local governments’ data platforms, and made a comparison with the metadata standard of American open government data. [Result/conclusion] This paper reveals that there are some disadvantages about Chinese local government open data affect the use effect of open data, which including that different governments use different data metadata schemes, the description of data set is too simple for further utilization and usually presented in HTML Web page format with lower machine-readable. Therefore, our government should come up with a standardized metadata schemes by drawing on the international mature and effective metadata standard, to ensure the social needs of high quality and high value data.

An open-source automated continuous condition-based maintenance platform for commercial buildings

Energy Technology Data Exchange (ETDEWEB)

Katipamula, Srinivas; Gowri, Krishnan; Hernandez, George

2016-09-09

This paper describes one such reference process that can be deployed to provide continuous automated conditioned-based maintenance management for buildings that have BIM, a building automation system (BAS) and a computerized maintenance management software (CMMS) systems. The process can be deployed using an open source transactional network platform, VOLTTRON™, designed for distributed sensing and controls and supports both energy efficiency and grid services.

Biomass Program 2007 Peer Review - Integrated Biorefinery Platform Summary

Energy Technology Data Exchange (ETDEWEB)

none,

2009-10-27

This document discloses the comments provided by a review panel at the U.S. Department of Energy Office of the Biomass Program Peer Review held on November 15-16, 2007 in Baltimore, MD and the Integrated Biorefinery Platform Review held on August 13-15, 2007 in Golden, Colorado.

Unraveling Platform Strategies: A Review from an Organizational Ambidexterity Perspective

Directory of Open Access Journals (Sweden)

Xing Wan

2017-05-01

Full Text Available Platform strategies, which highlight the interdependence in and evolution of business ecosystems, are increasingly relevant for sustainable business models in the digital era. So far, platform research has existed as a fragmented body of insights from different fields, but an integrated theoretical perspective can lead to a more coherent understanding of the research overall. Organizational ambidexterity emphasizes the balance between exploration and exploitation, which is particularly conducive to understanding the sustainability of a firm. Using an organizational ambidexterity perspective, the authors analyze five platform strategies: pricing, openness, integration, differentiation, and envelopment. This paper provides a systematic review of the theoretical and empirical studies in leading management, economics, and information systems journals from 2000 to 2016. The findings show that platform strategies can help platform owners achieve ambidexterity by domain, temporal, and organizational separation. Finally, this paper proposes an agenda for future research.

Fully integrated biochip platforms for advanced healthcare.

Science.gov (United States)

Carrara, Sandro; Ghoreishizadeh, Sara; Olivo, Jacopo; Taurino, Irene; Baj-Rossi, Camilla; Cavallini, Andrea; de Beeck, Maaike Op; Dehollain, Catherine; Burleson, Wayne; Moussy, Francis Gabriel; Guiseppi-Elie, Anthony; De Micheli, Giovanni

2012-01-01

Recent advances in microelectronics and biosensors are enabling developments of innovative biochips for advanced healthcare by providing fully integrated platforms for continuous monitoring of a large set of human disease biomarkers. Continuous monitoring of several human metabolites can be addressed by using fully integrated and minimally invasive devices located in the sub-cutis, typically in the peritoneal region. This extends the techniques of continuous monitoring of glucose currently being pursued with diabetic patients. However, several issues have to be considered in order to succeed in developing fully integrated and minimally invasive implantable devices. These innovative devices require a high-degree of integration, minimal invasive surgery, long-term biocompatibility, security and privacy in data transmission, high reliability, high reproducibility, high specificity, low detection limit and high sensitivity. Recent advances in the field have already proposed possible solutions for several of these issues. The aim of the present paper is to present a broad spectrum of recent results and to propose future directions of development in order to obtain fully implantable systems for the continuous monitoring of the human metabolism in advanced healthcare applications.

GeNNet: an integrated platform for unifying scientific workflows and graph databases for transcriptome data analysis

Directory of Open Access Journals (Sweden)

Raquel L. Costa

2017-07-01

analyzed. The results are integrated into GeNNet-DB, a database about genes, clusters, experiments and their properties and relationships. The resulting graph database is explored with queries that demonstrate the expressiveness of this data model for reasoning about gene interaction networks. GeNNet is the first platform to integrate the analytical process of transcriptome data with graph databases. It provides a comprehensive set of tools that would otherwise be challenging for non-expert users to install and use. Developers can add new functionality to components of GeNNet. The derived data allows for testing previous hypotheses about an experiment and exploring new ones through the interactive graph database environment. It enables the analysis of different data on humans, rhesus, mice and rat coming from Affymetrix platforms. GeNNet is available as an open source platform at https://github.com/raquele/GeNNet and can be retrieved as a software container with the command docker pull quelopes/gennet.

Participatory Planning, Monitoring and Evaluation of Multi-Stakeholder Platforms in Integrated Landscape Initiatives.

Science.gov (United States)

Kusters, Koen; Buck, Louise; de Graaf, Maartje; Minang, Peter; van Oosten, Cora; Zagt, Roderick

2017-03-21

Integrated landscape initiatives typically aim to strengthen landscape governance by developing and facilitating multi-stakeholder platforms. These are institutional coordination mechanisms that enable discussions, negotiations, and joint planning between stakeholders from various sectors in a given landscape. Multi-stakeholder platforms tend to involve complex processes with diverse actors, whose objectives and focus may be subjected to periodic re-evaluation, revision or reform. In this article we propose a participatory method to aid planning, monitoring, and evaluation of such platforms, and we report on experiences from piloting the method in Ghana and Indonesia. The method is comprised of three components. The first can be used to look ahead, identifying priorities for future multi-stakeholder collaboration in the landscape. It is based on the identification of four aspirations that are common across multi-stakeholder platforms in integrated landscape initiatives. The second can be used to look inward. It focuses on the processes within an existing multi-stakeholder platform in order to identify areas for possible improvement. The third can be used to look back, identifying the main outcomes of an existing platform and comparing them to the original objectives. The three components can be implemented together or separately. They can be used to inform planning and adaptive management of the platform, as well as to demonstrate performance and inform the design of new interventions.

Data Platforms and Cities

DEFF Research Database (Denmark)

Blok, Anders; Courmont, Antoine; Hoyng, Rolien

2017-01-01

This section offers a series of joint reflections on (open) data platform from a variety of cases, from cycling, traffic and mapping to activism, environment and data brokering. Data platforms play a key role in contemporary urban governance. Linked to open data initiatives, such platforms are of...

A service platform architecture design towards a light integration of heterogeneous systems in the wellbeing domain.

Science.gov (United States)

Yang, Yaojin; Ahtinen, Aino; Lahteenmaki, Jaakko; Nyman, Petri; Paajanen, Henrik; Peltoniemi, Teijo; Quiroz, Carlos

2007-01-01

System integration is one of the major challenges for building wellbeing or healthcare related information systems. In this paper, we are going to share our experiences on how to design a service platform called Nuadu service platform, for providing integrated services in occupational health promotion and health risk management through two heterogeneous systems. Our design aims for a light integration covering the layers, from data through service up to presentation, while maintaining the integrity of the underlying systems.

moocRP: Enabling Open Learning Analytics with an Open Source Platform for Data Distribution, Analysis, and Visualization

Science.gov (United States)

Pardos, Zachary A.; Whyte, Anthony; Kao, Kevin

2016-01-01

In this paper, we address issues of transparency, modularity, and privacy with the introduction of an open source, web-based data repository and analysis tool tailored to the Massive Open Online Course community. The tool integrates data request/authorization and distribution workflow features as well as provides a simple analytics module upload…

The Strategy of Creating a Virtual Interactive Platform for the Low-Carbon Open Innovations Relay

OpenAIRE

Mykola S. Shestavin

2013-01-01

A strategy for the creation of a Virtual Interactive Platform (or Networking Platform) to combine the four web-baseness of expert systems on the transfer and diffusion of low-carbon technologies. It used the concept of “Open Innovation” and “Triple Helix” with regard to theories of “Green Growth” and “Carbon Footprint”. Interpreters expert systems operate on the basis of models of the “Predator-Prey” for the process of transfer and diffusion of technologies, taking into account the features c...

NASA World Wind, Open Source 4D Geospatial Visualization Platform: *.NET & Java*

Science.gov (United States)

Hogan, P.; Coughlan, J.

2006-12-01

NASA World Wind has only one goal, to provide the maximum opportunity for geospatial information to be experienced, be it education, science, research, business, or government. The benefits to understanding for information delivered in the context of its 4D virtual reality are extraordinary. The NASA World Wind visualization platform is open source and therefore lends itself well to being extended to service *any* requirements, be they proprietary and commercial or simply available. Data accessibility is highly optimized using standard formats including internationally certified open standards (W*S). Although proprietary applications can be built based on World Wind, and proprietary data delivered that leverage World Wind, there is nothing proprietary about the visualization platform itself or the multiple planetary data sets readily available, including global animations of live weather. NASA World Wind is being used by NASA research teams as well as being a formal part of high school and university curriculum. The National Guard uses World Wind for emergency response activities and State governments have incorporated high resolution imagery for GIS management as well as for their cross-agency emergency response activities. The U.S. federal government uses NASA World Wind for a myriad of GIS and security-related issues (NSA, NGA, DOE, FAA, etc.).

Integration of the program TNXYZ in the platform SALOME

International Nuclear Information System (INIS)

Chaparro V, F. J.; Silva A, L.; Del Valle G, E.; Gomez T, A. M.; Vargas E, S.

2013-10-01

This work presents the procedure realized to integrate the code TNXYZ like a processing tool to the graphic simulation platform SALOME. The code TNXYZ solves the neutron transport equation in stationary state, for several energy groups, quantizing the angular variable by the discrete ordinates method and the space variable by nodal methods. The platform SALOME is a graphic surrounding designed for the construction, edition and simulation of mechanical models focused to the industry and contrary to other software, it allows to integrate external source codes to the surrounding, to form a complete scheme of execution, supervision, pre and post information processing. The code TNXYZ was programmed in the 90s in a Fortran compiler, but to be used at the present time the code should be actualized to the current compiler characteristics; also, in the original scheme was carried out a modularization process, that is to say, the main program was divided in sections where the code carries out important operations, with the intention of flexibility the data extraction process along its processing sequence and that can be useful in a later development of coupling. Finally, to verify the integration a fuel assembly BWR was modeled, as well as a control cell. The cross sections were obtained with the Monte Carlo Serpent code. Some results obtained with Serpent were used to verify and to begin with the validation of the code, being obtained an acceptable comparison in the infinite multiplication factor. The validation process should extend and one has planned to present in a future work. This work is part of the development of the research group formed between the Escuela Superior de Fisica y Matematicas del Instituto Politecnico Nacional (IPN) and the Instituto Nacional de Investigaciones Nucleares (ININ) in which a simulation Mexican platform of nuclear reactors is developed. (Author)

Time-varying spatial data integration and visualization: 4 Dimensions Environmental Observations Platform (4-DEOS)

Science.gov (United States)

Paciello, Rossana; Coviello, Irina; Filizzola, Carolina; Genzano, Nicola; Lisi, Mariano; Mazzeo, Giuseppe; Pergola, Nicola; Sileo, Giancanio; Tramutoli, Valerio

2014-05-01

In environmental studies the integration of heterogeneous and time-varying data, is a very common requirement for investigating and possibly visualize correlations among physical parameters underlying the dynamics of complex phenomena. Datasets used in such kind of applications has often different spatial and temporal resolutions. In some case superimposition of asynchronous layers is required. Traditionally the platforms used to perform spatio-temporal visual data analyses allow to overlay spatial data, managing the time using 'snapshot' data model, each stack of layers being labeled with different time. But this kind of architecture does not incorporate the temporal indexing neither the third spatial dimension which is usually given as an independent additional layer. Conversely, the full representation of a generic environmental parameter P(x,y,z,t) in the 4D space-time domain could allow to handle asynchronous datasets as well as less traditional data-products (e.g. vertical sections, punctual time-series, etc.) . In this paper we present the 4 Dimensions Environmental Observation Platform (4-DEOS), a system based on a web services architecture Client-Broker-Server. This platform is a new open source solution for both a timely access and an easy integration and visualization of heterogeneous (maps, vertical profiles or sections, punctual time series, etc.) asynchronous, geospatial products. The innovative aspect of the 4-DEOS system is that users can analyze data/products individually moving through time, having also the possibility to stop the display of some data/products and focus on other parameters for better studying their temporal evolution. This platform gives the opportunity to choose between two distinct display modes for time interval or for single instant. Users can choose to visualize data/products in two ways: i) showing each parameter in a dedicated window or ii) visualize all parameters overlapped in a single window. A sliding time bar, allows

Fully Integrated Biochip Platforms for Advanced Healthcare

Directory of Open Access Journals (Sweden)

Giovanni De Micheli

2012-08-01

Full Text Available Recent advances in microelectronics and biosensors are enabling developments of innovative biochips for advanced healthcare by providing fully integrated platforms for continuous monitoring of a large set of human disease biomarkers. Continuous monitoring of several human metabolites can be addressed by using fully integrated and minimally invasive devices located in the sub-cutis, typically in the peritoneal region. This extends the techniques of continuous monitoring of glucose currently being pursued with diabetic patients. However, several issues have to be considered in order to succeed in developing fully integrated and minimally invasive implantable devices. These innovative devices require a high-degree of integration, minimal invasive surgery, long-term biocompatibility, security and privacy in data transmission, high reliability, high reproducibility, high specificity, low detection limit and high sensitivity. Recent advances in the field have already proposed possible solutions for several of these issues. The aim of the present paper is to present a broad spectrum of recent results and to propose future directions of development in order to obtain fully implantable systems for the continuous monitoring of the human metabolism in advanced healthcare applications.

DESIGNING AN INTEGRATED OPEN INNOVATION SYSTEM: TOWARDS ORGANIZATIONAL WHOLENESS

DEFF Research Database (Denmark)

Baka, Vasiliki

2014-01-01

sociotechnical arrangement within the paradigm of open innovation. We explore how effectively technological platforms address emergent collaboration and innovation practices within and across organizations and to which extent existing technologies act as strategic catalysts of open innovation. We argue...... that in embracing wholeness and in treating technologies as inseparable constitutive parts of organizational architecture, we foster organizational and institutional collaboration and encourage innovative practices. The focus of the paper is on how the design of sociotechnical systems as wholes, that is systems...... that are concurrently acting as corporate websites, internal collaboration spaces, extranets and social media aggregators, actively promotes open innovation in practice. We close with a presentation of six cases that are illustrative of how such a system could be applicable within the open innovation paradigm, namely...

The collaboration between and contribution of a digital open innovation platform to a local design process

DEFF Research Database (Denmark)

del Castillo, Jacqueline; Bhatti, Yasser; Hossain, Mokter

2017-01-01

We examine the potential of an open innovation digital platform to expose a local innovation process to a greater number of ideas and a more inclusive set of stakeholders. To do so we studied an online innovation challenge on the OpenIDEO to reimagine the end-of-life experience sponsored by Sutte...... it leads to a greater number of ideas from a wider and more inclusive set of stakeholders. We offer insights for the literatures on open innovation and design thinking in a healthcare context....

Open Source Platform Application to Groundwater Characterization and Monitoring

Science.gov (United States)

Ntarlagiannis, D.; Day-Lewis, F. D.; Falzone, S.; Lane, J. W., Jr.; Slater, L. D.; Robinson, J.; Hammett, S.

2017-12-01

Groundwater characterization and monitoring commonly rely on the use of multiple point sensors and human labor. Due to the number of sensors, labor, and other resources needed, establishing and maintaining an adequate groundwater monitoring network can be both labor intensive and expensive. To improve and optimize the monitoring network design, open source software and hardware components could potentially provide the platform to control robust and efficient sensors thereby reducing costs and labor. This work presents early attempts to create a groundwater monitoring system incorporating open-source software and hardware that will control the remote operation of multiple sensors along with data management and file transfer functions. The system is built around a Raspberry PI 3, that controls multiple sensors in order to perform on-demand, continuous or `smart decision' measurements while providing flexibility to incorporate additional sensors to meet the demands of different projects. The current objective of our technology is to monitor exchange of ionic tracers between mobile and immobile porosity using a combination of fluid and bulk electrical-conductivity measurements. To meet this objective, our configuration uses four sensors (pH, specific conductance, pressure, temperature) that can monitor the fluid electrical properties of interest and guide the bulk electrical measurement. This system highlights the potential of using open source software and hardware components for earth sciences applications. The versatility of the system makes it ideal for use in a large number of applications, and the low cost allows for high resolution (spatially and temporally) monitoring.

NeuroVR: an open source virtual reality platform for clinical psychology and behavioral neurosciences.

Science.gov (United States)

Riva, Giuseppe; Gaggioli, Andrea; Villani, Daniela; Preziosa, Alessandra; Morganti, Francesca; Corsi, Riccardo; Faletti, Gianluca; Vezzadini, Luca

2007-01-01

In the past decade, the use of virtual reality for clinical and research applications has become more widespread. However, the diffusion of this approach is still limited by three main issues: poor usability, lack of technical expertise among clinical professionals, and high costs. To address these challenges, we introduce NeuroVR (http://www.neurovr.org--http://www.neurotiv.org), a cost-free virtual reality platform based on open-source software, that allows non-expert users to adapt the content of a pre-designed virtual environment to meet the specific needs of the clinical or experimental setting. Using the NeuroVR Editor, the user can choose the appropriate psychological stimuli/stressors from a database of objects (both 2D and 3D) and videos, and easily place them into the virtual environment. The edited scene can then be visualized in the NeuroVR Player using either immersive or non-immersive displays. Currently, the NeuroVR library includes different virtual scenes (apartment, office, square, supermarket, park, classroom, etc.), covering two of the most studied clinical applications of VR: specific phobias and eating disorders. The NeuroVR Editor is based on Blender (http://www.blender.org), the open source, cross-platform suite of tools for 3D creation, and is available as a completely free resource. An interesting feature of the NeuroVR Editor is the possibility to add new objects to the database. This feature allows the therapist to enhance the patient's feeling of familiarity and intimacy with the virtual scene, i.e., by using photos or movies of objects/people that are part of the patient's daily life, thereby improving the efficacy of the exposure. The NeuroVR platform runs on standard personal computers with Microsoft Windows; the only requirement for the hardware is related to the graphics card, which must support OpenGL.

SALOME. A software integration platform for multi-physics, pre-processing and visualisation

International Nuclear Information System (INIS)

Bergeaud, Vincent; Lefebvre, Vincent

2010-01-01

In order to ease the development of applications integrating simulation codes, CAD modelers and post-processing tools. CEA and EDF R and D have invested in the SALOME platform, a tool dedicated to the environment of the scientific codes. The platform comes in the shape of a toolbox which offers functionalities for CAD, meshing, code coupling, visualization, GUI development. These tools can be combined to create integrated applications that make the scientific codes easier to use and well-interfaced with their environment be it other codes, CAD and meshing tools or visualization software. Many projects in CEA and EDF R and D now use SALOME, bringing technical coherence to the software suites of our institutions. (author)

CoreFlow: A computational platform for integration, analysis and modeling of complex biological data

DEFF Research Database (Denmark)

Pasculescu, Adrian; Schoof, Erwin; Creixell, Pau

2014-01-01

between data generation, analysis and manuscript writing. CoreFlow is being released to the scientific community as an open-sourced software package complete with proteomics-specific examples, which include corrections for incomplete isotopic labeling of peptides (SILAC) or arginine-to-proline conversion......A major challenge in mass spectrometry and other large-scale applications is how to handle, integrate, and model the data that is produced. Given the speed at which technology advances and the need to keep pace with biological experiments, we designed a computational platform, CoreFlow, which...... provides programmers with a framework to manage data in real-time. It allows users to upload data into a relational database (MySQL), and to create custom scripts in high-level languages such as R, Python, or Perl for processing, correcting and modeling this data. CoreFlow organizes these scripts...

IBEX: an open infrastructure software platform to facilitate collaborative work in radiomics.

Science.gov (United States)

Zhang, Lifei; Fried, David V; Fave, Xenia J; Hunter, Luke A; Yang, Jinzhong; Court, Laurence E

2015-03-01

Radiomics, which is the high-throughput extraction and analysis of quantitative image features, has been shown to have considerable potential to quantify the tumor phenotype. However, at present, a lack of software infrastructure has impeded the development of radiomics and its applications. Therefore, the authors developed the imaging biomarker explorer (IBEX), an open infrastructure software platform that flexibly supports common radiomics workflow tasks such as multimodality image data import and review, development of feature extraction algorithms, model validation, and consistent data sharing among multiple institutions. The IBEX software package was developed using the MATLAB and c/c++ programming languages. The software architecture deploys the modern model-view-controller, unit testing, and function handle programming concepts to isolate each quantitative imaging analysis task, to validate if their relevant data and algorithms are fit for use, and to plug in new modules. On one hand, IBEX is self-contained and ready to use: it has implemented common data importers, common image filters, and common feature extraction algorithms. On the other hand, IBEX provides an integrated development environment on top of MATLAB and c/c++, so users are not limited to its built-in functions. In the IBEX developer studio, users can plug in, debug, and test new algorithms, extending IBEX's functionality. IBEX also supports quality assurance for data and feature algorithms: image data, regions of interest, and feature algorithm-related data can be reviewed, validated, and/or modified. More importantly, two key elements in collaborative workflows, the consistency of data sharing and the reproducibility of calculation result, are embedded in the IBEX workflow: image data, feature algorithms, and model validation including newly developed ones from different users can be easily and consistently shared so that results can be more easily reproduced between institutions

The EMeRGE modular robot, an open platform for quick testing of evolved robot morphologies

DEFF Research Database (Denmark)

Moreno Garcia, Rodrigo; Liu, Ceyue; Faina, Andres

2017-01-01

This work presents the hardware design and implementation of the EMeRGE open modular robot platform. EMeRGE (Easy Modular Embodied Robot Generation) modules are designed to be cheap and easy to build and their hardware is open for anyone to use and modify. Four magnetic connectors enable the quick...... assembly of different complex robot morphologies like the ones generated by evolutionary robotics experiments. Non-human agents, like robotic manipulators, can also take advantage of the magnetic connectors to assemble and disassemble morphologies....

Integrating cell on chip—Novel waveguide platform employing ultra-long optical paths

Directory of Open Access Journals (Sweden)

Lena Simone Fohrmann

2017-09-01

Full Text Available Optical waveguides are the most fundamental building blocks of integrated optical circuits. They are extremely well understood, yet there is still room for surprises. Here, we introduce a novel 2D waveguide platform which affords a strong interaction of the evanescent tail of a guided optical wave with an external medium while only employing a very small geometrical footprint. The key feature of the platform is its ability to integrate the ultra-long path lengths by combining low propagation losses in a silicon slab with multiple reflections of the guided wave from photonic crystal (PhC mirrors. With a reflectivity of 99.1% of our tailored PhC-mirrors, we achieve interaction paths of 25 cm within an area of less than 10 mm2. This corresponds to 0.17 dB/cm effective propagation which is much lower than the state-of-the-art loss of approximately 1 dB/cm of single mode silicon channel waveguides. In contrast to conventional waveguides, our 2D-approach leads to a decay of the guided wave power only inversely proportional to the optical path length. This entirely different characteristic is the major advantage of the 2D integrating cell waveguide platform over the conventional channel waveguide concepts that obey the Beer-Lambert law.

Integrating cell on chip—Novel waveguide platform employing ultra-long optical paths

Science.gov (United States)

Fohrmann, Lena Simone; Sommer, Gerrit; Pitruzzello, Giampaolo; Krauss, Thomas F.; Petrov, Alexander Yu.; Eich, Manfred

2017-09-01

Optical waveguides are the most fundamental building blocks of integrated optical circuits. They are extremely well understood, yet there is still room for surprises. Here, we introduce a novel 2D waveguide platform which affords a strong interaction of the evanescent tail of a guided optical wave with an external medium while only employing a very small geometrical footprint. The key feature of the platform is its ability to integrate the ultra-long path lengths by combining low propagation losses in a silicon slab with multiple reflections of the guided wave from photonic crystal (PhC) mirrors. With a reflectivity of 99.1% of our tailored PhC-mirrors, we achieve interaction paths of 25 cm within an area of less than 10 mm2. This corresponds to 0.17 dB/cm effective propagation which is much lower than the state-of-the-art loss of approximately 1 dB/cm of single mode silicon channel waveguides. In contrast to conventional waveguides, our 2D-approach leads to a decay of the guided wave power only inversely proportional to the optical path length. This entirely different characteristic is the major advantage of the 2D integrating cell waveguide platform over the conventional channel waveguide concepts that obey the Beer-Lambert law.

Integration of Fractal Biosensor in a Digital Microfluidic Platform

KAUST Repository

Mashraei, Yousof

2016-06-08

The digital microfluidic (DMF) platform introduces many applications in biomedical assays. If it is to be commercially available to the public, it needs to have the essential features of smart sensing and a compact size. In this work, we report on a fractal electrode biosensor that is used for both droplet actuation and sensing C-reactive protein (CRP) concentration levels to assess cardiac disease risk. Our proposed electrode is the first two-terminal electrode design to be integrated into DMF platforms. A simulation of the electrical field distribution shows reduced peak intensities and uniform distribution of the field. When compared to a V-notch square electrode, the fractal electrode shows a superior performance in both aspects, i.e. field uniformity and intensity. These improvements are translated into a successful and responsive actuation of a water droplet with 100V. Likewise, the effective dielectric strength is improved by a 33% increase in the fractal electrode breakdown voltage. Additionally, the capability of the fractal electrode to work as a capacitive biosensor is evaluated with CRP quantification test. Selected fractal electrodes undergo a surface treatment to immobilize anti-CRP antibodies on their surface. The measurement shows a response to the added CRP in capacitance within three minutes. When the untreated electrodes were used for quantification, there was no significant change in capacitance, and this suggested that immobilization was necessary. The electrodes configuration in the fabricated DMF platform allows the fractal electrodes to be selectively used as biosensors, which means the device could be integrated into point-of-care applications.

Open Source, Social Activism and "Necessary Trade-offs" in the Digital Enclosure: A Case Study of Platform Co-operative, Loomio.org

Directory of Open Access Journals (Sweden)

Sam K Jackson

2016-10-01

Full Text Available This article explores the tensions and tradeoffs facing the open source platform co-operative Loomio.org, an online tool that aims to decentralize power through deliberative decision-making. Combining discourse analysis with political economy, we demonstrate how Loomio’s politics of resistance is built directly into the architectural design and platform structure, which invites users to participate in its development and evolution. Yet by prioritizing its social justice mission, Loomio must make certain tradeoffs around data storage and management that paradoxically threatens to compromise its wider social goals. The realities of operating an open source platform are discussed in the context of the contemporary digital economy. We argue that if platform co-operatives like Loomio are to fully realize their goals, a digital commons unencumbered by capitalism requires access to reliable, affordable and accessible alternatives to the existing Internet infrastructure.

Virtual Networking Performance in OpenStack Platform for Network Function Virtualization

Directory of Open Access Journals (Sweden)

Franco Callegati

2016-01-01

Full Text Available The emerging Network Function Virtualization (NFV paradigm, coupled with the highly flexible and programmatic control of network devices offered by Software Defined Networking solutions, enables unprecedented levels of network virtualization that will definitely change the shape of future network architectures, where legacy telco central offices will be replaced by cloud data centers located at the edge. On the one hand, this software-centric evolution of telecommunications will allow network operators to take advantage of the increased flexibility and reduced deployment costs typical of cloud computing. On the other hand, it will pose a number of challenges in terms of virtual network performance and customer isolation. This paper intends to provide some insights on how an open-source cloud computing platform such as OpenStack implements multitenant network virtualization and how it can be used to deploy NFV, focusing in particular on packet forwarding performance issues. To this purpose, a set of experiments is presented that refer to a number of scenarios inspired by the cloud computing and NFV paradigms, considering both single tenant and multitenant scenarios. From the results of the evaluation it is possible to highlight potentials and limitations of running NFV on OpenStack.

GITEWS, an extensible and open integration platform for manifold sensor systems and processing components based on Sensor Web Enablement and the principles of Service Oriented Architectures

Science.gov (United States)

Haener, Rainer; Waechter, Joachim; Fleischer, Jens; Herrnkind, Stefan; Schwarting, Herrmann

2010-05-01

The German Indonesian Tsunami Early Warning System (GITEWS) is a multifaceted system consisting of various sensor types like seismometers, sea level sensors or GPS stations, and processing components, all with their own system behavior and proprietary data structure. To operate a warning chain, beginning from measurements scaling up to warning products, all components have to interact in a correct way, both syntactically and semantically. Designing the system great emphasis was laid on conformity to the Sensor Web Enablement (SWE) specification by the Open Geospatial Consortium (OGC). The technical infrastructure, the so called Tsunami Service Bus (TSB) follows the blueprint of Service Oriented Architectures (SOA). The TSB is an integration concept (SWE) where functionality (observe, task, notify, alert, and process) is grouped around business processes (Monitoring, Decision Support, Sensor Management) and packaged as interoperable services (SAS, SOS, SPS, WNS). The benefits of using a flexible architecture together with SWE lead to an open integration platform: • accessing and controlling heterogeneous sensors in a uniform way (Functional Integration) • assigns functionality to distinct services (Separation of Concerns) • allows resilient relationship between systems (Loose Coupling) • integrates services so that they can be accessed from everywhere (Location Transparency) • enables infrastructures which integrate heterogeneous applications (Encapsulation) • allows combination of services (Orchestration) and data exchange within business processes Warning systems will evolve over time: New sensor types might be added, old sensors will be replaced and processing components will be improved. From a collection of few basic services it shall be possible to compose more complex functionality essential for specific warning systems. Given these requirements a flexible infrastructure is a prerequisite for sustainable systems and their architecture must be

From NHS Choices to the integrated customer service platform.

Science.gov (United States)

Gann, Bob; Grant, Maria J

2013-03-01

In 2013 the NHS Commissioning Board launches its new integrated customer service platform. The new service utilises the full range of channels (web, telephone, apps etc) to provide access to information to support transparency, participation and transactions. Digital health services have proven benefits in informed choice, shared decision making and patient participation. © 2013 The authors. Health Information and Libraries Journal © 2013 Health Libraries Group.

Thermo-economic assessment of the integration of steam cycles on offshore platforms

DEFF Research Database (Denmark)

Nguyen, Tuong-Van; Tock, Laurence; Breuhaus, Peter

2014-01-01

thermodynamic and economic performance indicators. The results illustrate the benefits of converting the gas turbines into a combined cycle. Using seawater results in smaller power generation and greater CO2-emissions than using process water, as the additional power generation in the combined cycle......The integration of steam bottoming cycles on oil platforms is often seen as a possible route to mitigate the CO2-emissions offshore. In this paper, a North Sea platform and its energy requirements are systematically analysed. The site-scale integration of steam networks is assessed by using...... is compensated by the significant pumping demand. This work emphasises that energy improvement efforts should be analysed at the scale of the overall site and not solely at the level of the combined cycle....

Gene Expression Commons: an open platform for absolute gene expression profiling.

Directory of Open Access Journals (Sweden)

Jun Seita

Full Text Available Gene expression profiling using microarrays has been limited to comparisons of gene expression between small numbers of samples within individual experiments. However, the unknown and variable sensitivities of each probeset have rendered the absolute expression of any given gene nearly impossible to estimate. We have overcome this limitation by using a very large number (>10,000 of varied microarray data as a common reference, so that statistical attributes of each probeset, such as the dynamic range and threshold between low and high expression, can be reliably discovered through meta-analysis. This strategy is implemented in a web-based platform named "Gene Expression Commons" (https://gexc.stanford.edu/ which contains data of 39 distinct highly purified mouse hematopoietic stem/progenitor/differentiated cell populations covering almost the entire hematopoietic system. Since the Gene Expression Commons is designed as an open platform, investigators can explore the expression level of any gene, search by expression patterns of interest, submit their own microarray data, and design their own working models representing biological relationship among samples.

Virtual Labs (Science Gateways) as platforms for Free and Open Source Science

Science.gov (United States)

Lescinsky, David; Car, Nicholas; Fraser, Ryan; Friedrich, Carsten; Kemp, Carina; Squire, Geoffrey

2016-04-01

The Free and Open Source Software (FOSS) movement promotes community engagement in software development, as well as provides access to a range of sophisticated technologies that would be prohibitively expensive if obtained commercially. However, as geoinformatics and eResearch tools and services become more dispersed, it becomes more complicated to identify and interface between the many required components. Virtual Laboratories (VLs, also known as Science Gateways) simplify the management and coordination of these components by providing a platform linking many, if not all, of the steps in particular scientific processes. These enable scientists to focus on their science, rather than the underlying supporting technologies. We describe a modular, open source, VL infrastructure that can be reconfigured to create VLs for a wide range of disciplines. Development of this infrastructure has been led by CSIRO in collaboration with Geoscience Australia and the National Computational Infrastructure (NCI) with support from the National eResearch Collaboration Tools and Resources (NeCTAR) and the Australian National Data Service (ANDS). Initially, the infrastructure was developed to support the Virtual Geophysical Laboratory (VGL), and has subsequently been repurposed to create the Virtual Hazards Impact and Risk Laboratory (VHIRL) and the reconfigured Australian National Virtual Geophysics Laboratory (ANVGL). During each step of development, new capabilities and services have been added and/or enhanced. We plan on continuing to follow this model using a shared, community code base. The VL platform facilitates transparent and reproducible science by providing access to both the data and methodologies used during scientific investigations. This is further enhanced by the ability to set up and run investigations using computational resources accessed through the VL. Data is accessed using registries pointing to catalogues within public data repositories (notably including the

Wafer-scale integrated micro-supercapacitors on an ultrathin and highly flexible biomedical platform.

Science.gov (United States)

Maeng, Jimin; Meng, Chuizhou; Irazoqui, Pedro P

2015-02-01

We present wafer-scale integrated micro-supercapacitors on an ultrathin and highly flexible parylene platform, as progress toward sustainably powering biomedical microsystems suitable for implantable and wearable applications. All-solid-state, low-profile (supercapacitors are formed on an ultrathin (~20 μm) freestanding parylene film by a wafer-scale parylene packaging process in combination with a polyaniline (PANI) nanowire growth technique assisted by surface plasma treatment. These micro-supercapacitors are highly flexible and shown to be resilient toward flexural stress. Further, direct integration of micro-supercapacitors into a radio frequency (RF) rectifying circuit is achieved on a single parylene platform, yielding a complete RF energy harvesting microsystem. The system discharging rate is shown to improve by ~17 times in the presence of the integrated micro-supercapacitors. This result suggests that the integrated micro-supercapacitor technology described herein is a promising strategy for sustainably powering biomedical microsystems dedicated to implantable and wearable applications.

History and structures of telecommunication in pathology, focusing on open access platforms.

Science.gov (United States)

Kayser, Klaus; Borkenfeld, Stephan; Djenouni, Amina; Kayser, Gian

2011-11-07

Telecommunication has matured to a broadly applied tool in diagnostic pathology. Contemporary with the development of fast electronic communication lines (Integrated digital network services (ISDN), broad band connections, and fibre optics, as well as the digital imaging technology (digital camera), telecommunication in tissue--based diagnosis (telepathology) has matured. Open access (internet) and server--based communication have induced the development of specific medical information platforms, such as iPATH, UICC-TPCC (telepathology consultation centre of the Union International against Cancer), or the Armed Forces Institute of Pathology (AFIP) teleconsultation system. They have been closed, and are subject to be replaced by specific open access forums (Medical Electronic Expert Communication System (MECES) with embedded virtual slide (VS) technology). MECES uses php language, data base driven mySqL architecture, X/L-AMPP infrastructure, and browser friendly W3C conform standards. The server--based medical communication systems (AFIP, iPATH, UICC-TPCC) have been reported to be a useful and easy to handle tool for expert consultation. Correct sampling and evaluation of transmitted still images by experts reported revealed no or only minor differences to the original images and good practice of the involved experts. β tests with the new generation medical expert consultation systems (MECES) revealed superior results in terms of performance, still image viewing, and system handling, especially as this is closely related to the use of so--called social forums (facebook, youtube, etc.). In addition to the acknowledged advantages of the former established systems (assistance of pathologists working in developing countries, diagnosis confirmation, international information exchange, etc.), the new generation offers additional benefits such as acoustic information transfer, assistance in image screening, VS technology, and teaching in diagnostic sampling, judgement

A platform for dynamic simulation and control of movement based on OpenSim and MATLAB.

Science.gov (United States)

Mansouri, Misagh; Reinbolt, Jeffrey A

2012-05-11

Numerical simulations play an important role in solving complex engineering problems and have the potential to revolutionize medical decision making and treatment strategies. In this paper, we combine the rapid model-based design, control systems and powerful numerical method strengths of MATLAB/Simulink with the simulation and human movement dynamics strengths of OpenSim by developing a new interface between the two software tools. OpenSim is integrated with Simulink using the MATLAB S-function mechanism, and the interface is demonstrated using both open-loop and closed-loop control systems. While the open-loop system uses MATLAB/Simulink to separately reproduce the OpenSim Forward Dynamics Tool, the closed-loop system adds the unique feature of feedback control to OpenSim, which is necessary for most human movement simulations. An arm model example was successfully used in both open-loop and closed-loop cases. For the open-loop case, the simulation reproduced results from the OpenSim Forward Dynamics Tool with root mean square (RMS) differences of 0.03° for the shoulder elevation angle and 0.06° for the elbow flexion angle. MATLAB's variable step-size integrator reduced the time required to generate the forward dynamic simulation from 7.1s (OpenSim) to 2.9s (MATLAB). For the closed-loop case, a proportional-integral-derivative controller was used to successfully balance a pole on model's hand despite random force disturbances on the pole. The new interface presented here not only integrates the OpenSim and MATLAB/Simulink software tools, but also will allow neuroscientists, physiologists, biomechanists, and physical therapists to adapt and generate new solutions as treatments for musculoskeletal conditions. Copyright © 2012 Elsevier Ltd. All rights reserved.

PaaS for web applications with OpenShift Origin

OpenAIRE

Lossent, A; Rodriguez Peon, A; Wagner, A

2017-01-01

The CERN Web Frameworks team has deployed OpenShift Origin to facilitate deployment of web applications and to improving efficiency in terms of computing resource usage. OpenShift leverages Docker containers and Kubernetes orchestration to provide a Platform-as-a-service solution oriented for web applications. We will review use cases and how OpenShift was integrated with other services such as source control, web site management and authentication services.

PaaS for web applications with OpenShift Origin

Science.gov (United States)

Lossent, A.; Rodriguez Peon, A.; Wagner, A.

2017-10-01

The CERN Web Frameworks team has deployed OpenShift Origin to facilitate deployment of web applications and to improving efficiency in terms of computing resource usage. OpenShift leverages Docker containers and Kubernetes orchestration to provide a Platform-as-a-service solution oriented for web applications. We will review use cases and how OpenShift was integrated with other services such as source control, web site management and authentication services.

An Open Platform for Seamless Sensor Support in Healthcare for the Internet of Things

Directory of Open Access Journals (Sweden)

Jorge Miranda

2016-12-01

Full Text Available Population aging and increasing pressure on health systems are two issues that demand solutions. Involving and empowering citizens as active managers of their health represents a desirable shift from the current culture mainly focused on treatment of disease, to one also focused on continuous health management and well-being. Current developments in technological areas such as the Internet of Things (IoT, lead to new technological solutions that can aid this shift in the healthcare sector. This study presents the design, development, implementation and evaluation of a platform called Common Recognition and Identification Platform (CRIP, a part of the CareStore project, which aims at supporting caregivers and citizens to manage health routines in a seamless way. Specifically, the CRIP offers sensor-based support for seamless identification of users and health devices. A set of initial requirements was defined with a focus on usability limitations and current sensor technologies. The CRIP was designed and implemented using several technologies that enable seamless integration and interaction of sensors and people, namely Near Field Communication and fingerprint biometrics for identification and authentication, Bluetooth for communication with health devices and web services for wider integration with other platforms. Two CRIP prototypes were implemented and evaluated in laboratory during a period of eight months. The evaluations consisted of identifying users and devices, as well as seamlessly configure and acquire vital data from the last. Also, the entire Carestore platform was deployed in a nursing home where its usability was evaluated with caregivers. The evaluations helped assess that seamless identification of users and seamless configuration and communication with health devices is feasible and can help enable the IoT on healthcare applications. Therefore, the CRIP and similar platforms could be transformed into a valuable enabling

An Open Platform for Seamless Sensor Support in Healthcare for the Internet of Things

Science.gov (United States)

Miranda, Jorge; Cabral, Jorge; Wagner, Stefan Rahr; Fischer Pedersen, Christian; Ravelo, Blaise; Memon, Mukhtiar; Mathiesen, Morten

2016-01-01

Population aging and increasing pressure on health systems are two issues that demand solutions. Involving and empowering citizens as active managers of their health represents a desirable shift from the current culture mainly focused on treatment of disease, to one also focused on continuous health management and well-being. Current developments in technological areas such as the Internet of Things (IoT), lead to new technological solutions that can aid this shift in the healthcare sector. This study presents the design, development, implementation and evaluation of a platform called Common Recognition and Identification Platform (CRIP), a part of the CareStore project, which aims at supporting caregivers and citizens to manage health routines in a seamless way. Specifically, the CRIP offers sensor-based support for seamless identification of users and health devices. A set of initial requirements was defined with a focus on usability limitations and current sensor technologies. The CRIP was designed and implemented using several technologies that enable seamless integration and interaction of sensors and people, namely Near Field Communication and fingerprint biometrics for identification and authentication, Bluetooth for communication with health devices and web services for wider integration with other platforms. Two CRIP prototypes were implemented and evaluated in laboratory during a period of eight months. The evaluations consisted of identifying users and devices, as well as seamlessly configure and acquire vital data from the last. Also, the entire Carestore platform was deployed in a nursing home where its usability was evaluated with caregivers. The evaluations helped assess that seamless identification of users and seamless configuration and communication with health devices is feasible and can help enable the IoT on healthcare applications. Therefore, the CRIP and similar platforms could be transformed into a valuable enabling technology for secure and

An Open Platform for Seamless Sensor Support in Healthcare for the Internet of Things.

Science.gov (United States)

Miranda, Jorge; Cabral, Jorge; Wagner, Stefan Rahr; Fischer Pedersen, Christian; Ravelo, Blaise; Memon, Mukhtiar; Mathiesen, Morten

2016-12-08

Population aging and increasing pressure on health systems are two issues that demand solutions. Involving and empowering citizens as active managers of their health represents a desirable shift from the current culture mainly focused on treatment of disease, to one also focused on continuous health management and well-being. Current developments in technological areas such as the Internet of Things (IoT), lead to new technological solutions that can aid this shift in the healthcare sector. This study presents the design, development, implementation and evaluation of a platform called Common Recognition and Identification Platform (CRIP), a part of the CareStore project, which aims at supporting caregivers and citizens to manage health routines in a seamless way. Specifically, the CRIP offers sensor-based support for seamless identification of users and health devices. A set of initial requirements was defined with a focus on usability limitations and current sensor technologies. The CRIP was designed and implemented using several technologies that enable seamless integration and interaction of sensors and people, namely Near Field Communication and fingerprint biometrics for identification and authentication, Bluetooth for communication with health devices and web services for wider integration with other platforms. Two CRIP prototypes were implemented and evaluated in laboratory during a period of eight months. The evaluations consisted of identifying users and devices, as well as seamlessly configure and acquire vital data from the last. Also, the entire Carestore platform was deployed in a nursing home where its usability was evaluated with caregivers. The evaluations helped assess that seamless identification of users and seamless configuration and communication with health devices is feasible and can help enable the IoT on healthcare applications. Therefore, the CRIP and similar platforms could be transformed into a valuable enabling technology for secure and

Multi-octave spectral beam combiner on ultra-broadband photonic integrated circuit platform.

Science.gov (United States)

Stanton, Eric J; Heck, Martijn J R; Bovington, Jock; Spott, Alexander; Bowers, John E

2015-05-04

We present the design of a novel platform that is able to combine optical frequency bands spanning 4.2 octaves from ultraviolet to mid-wave infrared into a single, low M2 output waveguide. We present the design and realization of a key component in this platform that combines the wavelength bands of 350 nm - 1500 nm and 1500 nm - 6500 nm with demonstrated efficiency greater than 90% in near-infrared and mid-wave infrared. The multi-octave spectral beam combiner concept is realized using an integrated platform with silicon nitride waveguides and silicon waveguides. Simulated bandwidth is shown to be over four octaves, and measured bandwidth is shown over two octaves, limited by the availability of sources.

Integrative set enrichment testing for multiple omics platforms

Directory of Open Access Journals (Sweden)

Poisson Laila M

2011-11-01

Full Text Available Abstract Background Enrichment testing assesses the overall evidence of differential expression behavior of the elements within a defined set. When we have measured many molecular aspects, e.g. gene expression, metabolites, proteins, it is desirable to assess their differential tendencies jointly across platforms using an integrated set enrichment test. In this work we explore the properties of several methods for performing a combined enrichment test using gene expression and metabolomics as the motivating platforms. Results Using two simulation models we explored the properties of several enrichment methods including two novel methods: the logistic regression 2-degree of freedom Wald test and the 2-dimensional permutation p-value for the sum-of-squared statistics test. In relation to their univariate counterparts we find that the joint tests can improve our ability to detect results that are marginal univariately. We also find that joint tests improve the ranking of associated pathways compared to their univariate counterparts. However, there is a risk of Type I error inflation with some methods and self-contained methods lose specificity when the sets are not representative of underlying association. Conclusions In this work we show that consideration of data from multiple platforms, in conjunction with summarization via a priori pathway information, leads to increased power in detection of genomic associations with phenotypes.

Photonic integration and photonics-electronics convergence on silicon platform

CERN Document Server

Liu, Jifeng; Baba, Toshihiko; Vivien, Laurent; Xu, Dan-Xia

2015-01-01

Silicon photonics technology, which has the DNA of silicon electronics technology, promises to provide a compact photonic integration platform with high integration density, mass-producibility, and excellent cost performance. This technology has been used to develop and to integrate various photonic functions on silicon substrate. Moreover, photonics-electronics convergence based on silicon substrate is now being pursued. Thanks to these features, silicon photonics will have the potential to be a superior technology used in the construction of energy-efficient cost-effective apparatuses for various applications, such as communications, information processing, and sensing. Considering the material characteristics of silicon and difficulties in microfabrication technology, however, silicon by itself is not necessarily an ideal material. For example, silicon is not suitable for light emitting devices because it is an indirect transition material. The resolution and dynamic range of silicon-based interference de...

Framework programmable platform for the advanced software development workstation. Integration mechanism design document

Science.gov (United States)

Mayer, Richard J.; Blinn, Thomas M.; Mayer, Paula S. D.; Reddy, Uday; Ackley, Keith; Futrell, Mike

1991-01-01

The Framework Programmable Software Development Platform (FPP) is a project aimed at combining effective tool and data integration mechanisms with a model of the software development process in an intelligent integrated software development environment. Guided by this model, this system development framework will take advantage of an integrated operating environment to automate effectively the management of the software development process so that costly mistakes during the development phase can be eliminated.

Milestones of European Integration: Which matters most for Export Openness?

DEFF Research Database (Denmark)

Hiller, Sanne; Kruse, Robinson

The European integration process has removed barriers to trade within Europe. We analyze which integration step has most profoundly influenced the trending behavior of export openness. We endogenously determine the single most decisive break in the trend, account for strong cross-country heteroge......The European integration process has removed barriers to trade within Europe. We analyze which integration step has most profoundly influenced the trending behavior of export openness. We endogenously determine the single most decisive break in the trend, account for strong cross...... and the Netherlands are the Euro introduction, the Maastricht Treaty, the Exchange Rate Mechanism I and the merge of EFTA and EEC to the European Economic Area, respectively. Our empirical results have important implications for inner-European economic development, as export openness feeds back into growth...

IBEX: An open infrastructure software platform to facilitate collaborative work in radiomics

Energy Technology Data Exchange (ETDEWEB)

Zhang, Lifei; Yang, Jinzhong [Department of Radiation Physics, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030 (United States); Fried, David V.; Fave, Xenia J.; Hunter, Luke A.; Court, Laurence E., E-mail: LECourt@mdanderson.org [Department of Radiation Physics, The University of Texas MD Anderson Cancer Center, Houston, Texas 77030 and The University of Texas Graduate School of Biomedical Sciences at Houston, Houston, Texas 77030 (United States)

2015-03-15

Purpose: Radiomics, which is the high-throughput extraction and analysis of quantitative image features, has been shown to have considerable potential to quantify the tumor phenotype. However, at present, a lack of software infrastructure has impeded the development of radiomics and its applications. Therefore, the authors developed the imaging biomarker explorer (IBEX), an open infrastructure software platform that flexibly supports common radiomics workflow tasks such as multimodality image data import and review, development of feature extraction algorithms, model validation, and consistent data sharing among multiple institutions. Methods: The IBEX software package was developed using the MATLAB and C/C++ programming languages. The software architecture deploys the modern model-view-controller, unit testing, and function handle programming concepts to isolate each quantitative imaging analysis task, to validate if their relevant data and algorithms are fit for use, and to plug in new modules. On one hand, IBEX is self-contained and ready to use: it has implemented common data importers, common image filters, and common feature extraction algorithms. On the other hand, IBEX provides an integrated development environment on top of MATLAB and C/C++, so users are not limited to its built-in functions. In the IBEX developer studio, users can plug in, debug, and test new algorithms, extending IBEX’s functionality. IBEX also supports quality assurance for data and feature algorithms: image data, regions of interest, and feature algorithm-related data can be reviewed, validated, and/or modified. More importantly, two key elements in collaborative workflows, the consistency of data sharing and the reproducibility of calculation result, are embedded in the IBEX workflow: image data, feature algorithms, and model validation including newly developed ones from different users can be easily and consistently shared so that results can be more easily reproduced between

IBEX: An open infrastructure software platform to facilitate collaborative work in radiomics

International Nuclear Information System (INIS)

Zhang, Lifei; Yang, Jinzhong; Fried, David V.; Fave, Xenia J.; Hunter, Luke A.; Court, Laurence E.

2015-01-01

Purpose: Radiomics, which is the high-throughput extraction and analysis of quantitative image features, has been shown to have considerable potential to quantify the tumor phenotype. However, at present, a lack of software infrastructure has impeded the development of radiomics and its applications. Therefore, the authors developed the imaging biomarker explorer (IBEX), an open infrastructure software platform that flexibly supports common radiomics workflow tasks such as multimodality image data import and review, development of feature extraction algorithms, model validation, and consistent data sharing among multiple institutions. Methods: The IBEX software package was developed using the MATLAB and C/C++ programming languages. The software architecture deploys the modern model-view-controller, unit testing, and function handle programming concepts to isolate each quantitative imaging analysis task, to validate if their relevant data and algorithms are fit for use, and to plug in new modules. On one hand, IBEX is self-contained and ready to use: it has implemented common data importers, common image filters, and common feature extraction algorithms. On the other hand, IBEX provides an integrated development environment on top of MATLAB and C/C++, so users are not limited to its built-in functions. In the IBEX developer studio, users can plug in, debug, and test new algorithms, extending IBEX’s functionality. IBEX also supports quality assurance for data and feature algorithms: image data, regions of interest, and feature algorithm-related data can be reviewed, validated, and/or modified. More importantly, two key elements in collaborative workflows, the consistency of data sharing and the reproducibility of calculation result, are embedded in the IBEX workflow: image data, feature algorithms, and model validation including newly developed ones from different users can be easily and consistently shared so that results can be more easily reproduced between

National Bioenergy Center - Biochemical Platform Integration Project: Quarterly Update, Winter 2010

Energy Technology Data Exchange (ETDEWEB)

Schell, D.

2011-02-01

Winter 2011 edition of the National Bioenergy Center's Biochemical Platform Integration Project quarterly newsletter. Issue topics: 33rd Symposium on Biotechnology for Fuels and Chemicals program topic areas; results from reactive membrane extraction of inhibitors from dilute-acid pretreated corn stover; list of 2010 task publications.

Open architecture design and approach for the Integrated Sensor Architecture (ISA)

Science.gov (United States)

Moulton, Christine L.; Krzywicki, Alan T.; Hepp, Jared J.; Harrell, John; Kogut, Michael

2015-05-01

Integrated Sensor Architecture (ISA) is designed in response to stovepiped integration approaches. The design, based on the principles of Service Oriented Architectures (SOA) and Open Architectures, addresses the problem of integration, and is not designed for specific sensors or systems. The use of SOA and Open Architecture approaches has led to a flexible, extensible architecture. Using these approaches, and supported with common data formats, open protocol specifications, and Department of Defense Architecture Framework (DoDAF) system architecture documents, an integration-focused architecture has been developed. ISA can help move the Department of Defense (DoD) from costly stovepipe solutions to a more cost-effective plug-and-play design to support interoperability.

Heterogeneous computing with OpenCL

CERN Document Server

2013-01-01

Heterogeneous Computing with OpenCL teaches OpenCL and parallel programming for complex systems that may include a variety of device architectures: multi-core CPUs, GPUs, and fully-integrated Accelerated Processing Units (APUs) such as AMD Fusion technology. Designed to work on multiple platforms and with wide industry support, OpenCL will help you more effectively program for a heterogeneous future. Written by leaders in the parallel computing and OpenCL communities, this book will give you hands-on OpenCL experience to address a range of fundamental parallel algorithms. The authors explore memory spaces, optimization techniques, graphics interoperability, extensions, and debugging and profiling. Intended to support a parallel programming course, Heterogeneous Computing with OpenCL includes detailed examples throughout, plus additional online exercises and other supporting materials.

Design and construction of a first-generation high-throughput integrated robotic molecular biology platform for bioenergy applications.

Science.gov (United States)

Hughes, Stephen R; Butt, Tauseef R; Bartolett, Scott; Riedmuller, Steven B; Farrelly, Philip

2011-08-01

The molecular biological techniques for plasmid-based assembly and cloning of gene open reading frames are essential for elucidating the function of the proteins encoded by the genes. High-throughput integrated robotic molecular biology platforms that have the capacity to rapidly clone and express heterologous gene open reading frames in bacteria and yeast and to screen large numbers of expressed proteins for optimized function are an important technology for improving microbial strains for biofuel production. The process involves the production of full-length complementary DNA libraries as a source of plasmid-based clones to express the desired proteins in active form for determination of their functions. Proteins that were identified by high-throughput screening as having desired characteristics are overexpressed in microbes to enable them to perform functions that will allow more cost-effective and sustainable production of biofuels. Because the plasmid libraries are composed of several thousand unique genes, automation of the process is essential. This review describes the design and implementation of an automated integrated programmable robotic workcell capable of producing complementary DNA libraries, colony picking, isolating plasmid DNA, transforming yeast and bacteria, expressing protein, and performing appropriate functional assays. These operations will allow tailoring microbial strains to use renewable feedstocks for production of biofuels, bioderived chemicals, fertilizers, and other coproducts for profitable and sustainable biorefineries. Published by Elsevier Inc.

Sharing Lessons-Learned on Effective Open Data, Open-Source Practices from OpenAQ, a Global Open Air Quality Community.

Science.gov (United States)

Hasenkopf, C. A.

2017-12-01

Increasingly, open data, open-source projects are unearthing rich datasets and tools, previously impossible for more traditional avenues to generate. These projects are possible, in part, because of the emergence of online collaborative and code-sharing tools, decreasing costs of cloud-based services to fetch, store, and serve data, and increasing interest of individuals to contribute their time and skills to 'open projects.' While such projects have generated palpable enthusiasm from many sectors, many of these projects face uncharted paths for sustainability, visibility, and acceptance. Our project, OpenAQ, is an example of an open-source, open data community that is currently forging its own uncharted path. OpenAQ is an open air quality data platform that aggregates and universally formats government and research-grade air quality data from 50 countries across the world. To date, we make available more than 76 million air quality (PM2.5, PM10, SO2, NO2, O3, CO and black carbon) data points through an open Application Programming Interface (API) and a user-customizable download interface at https://openaq.org. The goal of the platform is to enable an ecosystem of users to advance air pollution efforts from science to policy to the private sector. The platform is also an open-source project (https://github.com/openaq) and has only been made possible through the coding and data contributions of individuals around the world. In our first two years of existence, we have seen requests for data to our API skyrocket to more than 6 million datapoints per month, and use-cases as varied as ingesting data aggregated from our system into real-time models of wildfires to building open-source statistical packages (e.g. ropenaq and py-openaq) on top of the platform to creating public-friendly apps and chatbots. We will share a whirl-wind trip through our evolution and the many lessons learned so far related to platform structure, community engagement, organizational model type

Building integrated business environments: analysing open-source ESB

Science.gov (United States)

Martínez-Carreras, M. A.; García Jimenez, F. J.; Gómez Skarmeta, A. F.

2015-05-01

Integration and interoperability are two concepts that have gained significant prominence in the business field, providing tools which enable enterprise application integration (EAI). In this sense, enterprise service bus (ESB) has played a crucial role as the underpinning technology for creating integrated environments in which companies may connect all their legacy-applications. However, the potential of these technologies remains unknown and some important features are not used to develop suitable business environments. The aim of this paper is to describe and detail the elements for building the next generation of integrated business environments (IBE) and to analyse the features of ESBs as the core of this infrastructure. For this purpose, we evaluate how well-known open-source ESB products fulfil these needs. Moreover, we introduce a scenario in which the collaborative system 'Alfresco' is integrated in the business infrastructure. Finally, we provide a comparison of the different open-source ESBs available for IBE requirements. According to this study, Fuse ESB provides the best results, considering features such as support for a wide variety of standards and specifications, documentation and implementation, security, advanced business trends, ease of integration and performance.

A Platform for Closing the Open Data Feedback Loop Based on Web2.0 Functionality

Directory of Open Access Journals (Sweden)

Charalampos Alexopoulos

2014-11-01

Full Text Available One essential element of open data ecosystems concerns their development through feedback loops, discussions and dynamic supplier and user interactions. These user-centric features communicate the users’ needs to the open data community as well to the public sector bodies responsible for data publication. Addressing these needs by the corresponding public sector bodies or even by utilising the power of the community as ENGAGE supports will actually accelerate innovation. However, these elements appear barely to be part of existing open data practices. We conducted a survey which showed that most professional open data users did not know at least one open data infrastructure that enabled five specific types of discussion and feedback mechanisms. The survey showed that much can still be done to improve feedback and discussion on open data infrastructures. In this paper we discuss an open data platform which has started to contribute to filling this gap and present a usage scenario explaining the sequence of the underlined functionality. The discussed ENGAGE open data infrastructure combines functionalities to close the feedback loop and to return information to public authorities for better open data use and publication as well as establishing communication channels between stakeholders. This may effectively lead to the stimulation and facilitation of value generation from open data, as such functionality position the user at the centre of the open data publication process.

Integrating and scheduling an open set of static analyses

DEFF Research Database (Denmark)

Eichberg, Michael; Mezini, Mira; Kloppenburg, Sven

2006-01-01

to keep the set of analyses open. We propose an approach to integrating and scheduling an open set of static analyses which decouples the individual analyses and coordinates the analysis executions such that the overall time and space consumption is minimized. The approach has been implemented...... for the Eclipse IDE and has been used to integrate a wide range of analyses such as finding bug patterns, detecting violations of design guidelines, or type system extensions for Java....

MSiReader: an open-source interface to view and analyze high resolving power MS imaging files on Matlab platform.

Science.gov (United States)

Robichaud, Guillaume; Garrard, Kenneth P; Barry, Jeremy A; Muddiman, David C

2013-05-01

During the past decade, the field of mass spectrometry imaging (MSI) has greatly evolved, to a point where it has now been fully integrated by most vendors as an optional or dedicated platform that can be purchased with their instruments. However, the technology is not mature and multiple research groups in both academia and industry are still very actively studying the fundamentals of imaging techniques, adapting the technology to new ionization sources, and developing new applications. As a result, there important varieties of data file formats used to store mass spectrometry imaging data and, concurrent to the development of MSi, collaborative efforts have been undertaken to introduce common imaging data file formats. However, few free software packages to read and analyze files of these different formats are readily available. We introduce here MSiReader, a free open source application to read and analyze high resolution MSI data from the most common MSi data formats. The application is built on the Matlab platform (Mathworks, Natick, MA, USA) and includes a large selection of data analysis tools and features. People who are unfamiliar with the Matlab language will have little difficult navigating the user-friendly interface, and users with Matlab programming experience can adapt and customize MSiReader for their own needs.

SmartR: an open-source platform for interactive visual analytics for translational research data.

Science.gov (United States)

Herzinger, Sascha; Gu, Wei; Satagopam, Venkata; Eifes, Serge; Rege, Kavita; Barbosa-Silva, Adriano; Schneider, Reinhard

2017-07-15

In translational research, efficient knowledge exchange between the different fields of expertise is crucial. An open platform that is capable of storing a multitude of data types such as clinical, pre-clinical or OMICS data combined with strong visual analytical capabilities will significantly accelerate the scientific progress by making data more accessible and hypothesis generation easier. The open data warehouse tranSMART is capable of storing a variety of data types and has a growing user community including both academic institutions and pharmaceutical companies. tranSMART, however, currently lacks interactive and dynamic visual analytics and does not permit any post-processing interaction or exploration. For this reason, we developed SmartR , a plugin for tranSMART, that equips the platform not only with several dynamic visual analytical workflows, but also provides its own framework for the addition of new custom workflows. Modern web technologies such as D3.js or AngularJS were used to build a set of standard visualizations that were heavily improved with dynamic elements. The source code is licensed under the Apache 2.0 License and is freely available on GitHub: https://github.com/transmart/SmartR . reinhard.schneider@uni.lu. Supplementary data are available at Bioinformatics online. © The Author(s) 2017. Published by Oxford University Press.

NASA World Wind, Open Source 4D Geospatial Visualization Platform: *.NET & Java* for EDUCATION

Science.gov (United States)

Hogan, P.; Kuehnel, F.

2006-12-01

NASA World Wind has only one goal, to provide the maximum opportunity for geospatial information to be experienced, be it education, science, research, business, or government. The benefits to understanding for information delivered in the context of its 4D virtual reality are extraordinary. The NASA World Wind visualization platform is open source and therefore lends itself well to being extended to service *any* requirements, be they proprietary and commercial or simply available. Data accessibility is highly optimized using standard formats including internationally certified open standards (W*S). Although proprietary applications can be built based on World Wind, and proprietary data delivered that leverage World Wind, there is nothing proprietary about the visualization platform itself or the multiple planetary data sets readily available, including global animations of live weather. NASA World Wind is being used by NASA research teams as well as being a formal part of high school and university curriculum. The National Guard uses World Wind for emergency response activities and State governments have incorporated high resolution imagery for GIS management as well as for their cross-agency emergency response activities. The U.S. federal government uses NASA World Wind for a myriad of GIS and security-related issues (NSA, NGA, DOE, FAA, etc.).

Towards a fully integrated indium-phosphide membrane on silicon photonics platform

NARCIS (Netherlands)

van Engelen, J.P.; Pogoretskiy, V.; Smit, M.K.; van der Tol, J.J.G.M.; Jiao, Y.

2017-01-01

Recently a uni-traveling-carrier photodetector with high speed (> 67GHz) and a high-gain optical amplifier (110/cm at 4 kA/cm2) have been demonstrated using the InP membrane-on-Silicon (IMOS) integration technology. Passives in IMOS have shown features comparable to SOI platforms due to the tight

GeneLab: NASA's Open Access, Collaborative Platform for Systems Biology and Space Medicine

Science.gov (United States)

Berrios, Daniel C.; Thompson, Terri G.; Fogle, Homer W.; Rask, Jon C.; Coughlan, Joseph C.

2015-01-01

NASA is investing in GeneLab1 (http:genelab.nasa.gov), a multi-year effort to maximize utilization of the limited resources to conduct biological and medical research in space, principally aboard the International Space Station (ISS). High-throughput genomic, transcriptomic, proteomic or other omics analyses from experiments conducted on the ISS will be stored in the GeneLab Data Systems (GLDS), an open-science information system that will also include a biocomputation platform with collaborative science capabilities, to enable the discovery and validation of molecular networks.

Bioclipse: an open source workbench for chemo- and bioinformatics

Directory of Open Access Journals (Sweden)

Wagener Johannes

2007-02-01

Full Text Available Abstract Background There is a need for software applications that provide users with a complete and extensible toolkit for chemo- and bioinformatics accessible from a single workbench. Commercial packages are expensive and closed source, hence they do not allow end users to modify algorithms and add custom functionality. Existing open source projects are more focused on providing a framework for integrating existing, separately installed bioinformatics packages, rather than providing user-friendly interfaces. No open source chemoinformatics workbench has previously been published, and no sucessful attempts have been made to integrate chemo- and bioinformatics into a single framework. Results Bioclipse is an advanced workbench for resources in chemo- and bioinformatics, such as molecules, proteins, sequences, spectra, and scripts. It provides 2D-editing, 3D-visualization, file format conversion, calculation of chemical properties, and much more; all fully integrated into a user-friendly desktop application. Editing supports standard functions such as cut and paste, drag and drop, and undo/redo. Bioclipse is written in Java and based on the Eclipse Rich Client Platform with a state-of-the-art plugin architecture. This gives Bioclipse an advantage over other systems as it can easily be extended with functionality in any desired direction. Conclusion Bioclipse is a powerful workbench for bio- and chemoinformatics as well as an advanced integration platform. The rich functionality, intuitive user interface, and powerful plugin architecture make Bioclipse the most advanced and user-friendly open source workbench for chemo- and bioinformatics. Bioclipse is released under Eclipse Public License (EPL, an open source license which sets no constraints on external plugin licensing; it is totally open for both open source plugins as well as commercial ones. Bioclipse is freely available at http://www.bioclipse.net.

Novel remote monitoring platform for RES-hydrogen based smart microgrid

International Nuclear Information System (INIS)

González, I.; Calderón, A.J.; Andújar, J.M.

2017-01-01

Highlights: • A remote monitoring platform is developed to monitor an experimental smart microgrid. • Smart microgrid integrates renewable energy sources (solar and wind) and hydrogen. • The platform is implemented using open-source tool Easy Java/Javascript Simulations. • Remote user accesses online to graphical/numerical information of all components. • Results show proper operation of the SMG and prove effective real-time monitoring. - Abstract: In the context of the future power grids – Smart Grids (SGs) – Smart MicroGrids (SMGs) play a paramount role. These ones are very specific portions of the SGs that deal with integration of small-rated distributed energy and storage resources closer to the loads – chiefly within the distribution domain. Data acquisition and monitoring tasks are vital functions that must be developed at every stage of the grid for a proper operation. This paper presents a remote monitoring platform (RMP) to monitor an experimental SMG. It integrates Renewable Energy Sources (RESs) (solar and wind) and hydrogen to operate in isolated regime. The RMP has been developed using the open-source authoring tool Easy Java/Javascript Simulations (EJsS). The interface has been designed to be intuitive and easy-to-use, providing real-time information of all the involved magnitudes over the network. Scalability, easy development, portability and cost effective are the main features of the proposed framework. The microgrid and the proposed monitoring platform are described and the successful results are reported. The remote user executes a ready-to-use file with low computational requirements and is enabled to graphically and numerically track the SMG behaviour. These results prove the suitability of the RMP as an effective means for continuous visualization of the coordinated energy flows of a real SMG.

JBioWH: an open-source Java framework for bioinformatics data integration.

Science.gov (United States)

Vera, Roberto; Perez-Riverol, Yasset; Perez, Sonia; Ligeti, Balázs; Kertész-Farkas, Attila; Pongor, Sándor

2013-01-01

The Java BioWareHouse (JBioWH) project is an open-source platform-independent programming framework that allows a user to build his/her own integrated database from the most popular data sources. JBioWH can be used for intensive querying of multiple data sources and the creation of streamlined task-specific data sets on local PCs. JBioWH is based on a MySQL relational database scheme and includes JAVA API parser functions for retrieving data from 20 public databases (e.g. NCBI, KEGG, etc.). It also includes a client desktop application for (non-programmer) users to query data. In addition, JBioWH can be tailored for use in specific circumstances, including the handling of massive queries for high-throughput analyses or CPU intensive calculations. The framework is provided with complete documentation and application examples and it can be downloaded from the Project Web site at http://code.google.com/p/jbiowh. A MySQL server is available for demonstration purposes at hydrax.icgeb.trieste.it:3307. Database URL: http://code.google.com/p/jbiowh.

JBioWH: an open-source Java framework for bioinformatics data integration

Science.gov (United States)

Vera, Roberto; Perez-Riverol, Yasset; Perez, Sonia; Ligeti, Balázs; Kertész-Farkas, Attila; Pongor, Sándor

2013-01-01

The Java BioWareHouse (JBioWH) project is an open-source platform-independent programming framework that allows a user to build his/her own integrated database from the most popular data sources. JBioWH can be used for intensive querying of multiple data sources and the creation of streamlined task-specific data sets on local PCs. JBioWH is based on a MySQL relational database scheme and includes JAVA API parser functions for retrieving data from 20 public databases (e.g. NCBI, KEGG, etc.). It also includes a client desktop application for (non-programmer) users to query data. In addition, JBioWH can be tailored for use in specific circumstances, including the handling of massive queries for high-throughput analyses or CPU intensive calculations. The framework is provided with complete documentation and application examples and it can be downloaded from the Project Web site at http://code.google.com/p/jbiowh. A MySQL server is available for demonstration purposes at hydrax.icgeb.trieste.it:3307. Database URL: http://code.google.com/p/jbiowh PMID:23846595

Development of an exploration land robot using low-cost and Open Source platforms for educational purposes

Science.gov (United States)

Hernández, D.; Trejo, H.; Ordoñez, E.

2015-01-01

In this paper we present the didactic experience of building a low-cost robot composed of sensors, actuators, general electronics and already available frameworks. The control of the robot is through the usage of commercial Open Source platforms as Arduino; and the Raspberry Pi. The experience ranges from general conceptualization, mechanical, electric and electronic design, microcontroller programming and communications.

Development of an exploration land robot using low-cost and Open Source platforms for educational purposes

International Nuclear Information System (INIS)

Hernández, D; Trejo, H; Ordoñez, E

2015-01-01

In this paper we present the didactic experience of building a low-cost robot composed of sensors, actuators, general electronics and already available frameworks. The control of the robot is through the usage of commercial Open Source platforms as Arduino; and the Raspberry Pi. The experience ranges from general conceptualization, mechanical, electric and electronic design, microcontroller programming and communications

Integrated platform and API for electrophysiological data.

Science.gov (United States)

Sobolev, Andrey; Stoewer, Adrian; Leonhardt, Aljoscha; Rautenberg, Philipp L; Kellner, Christian J; Garbers, Christian; Wachtler, Thomas

2014-01-01

Recent advancements in technology and methodology have led to growing amounts of increasingly complex neuroscience data recorded from various species, modalities, and levels of study. The rapid data growth has made efficient data access and flexible, machine-readable data annotation a crucial requisite for neuroscientists. Clear and consistent annotation and organization of data is not only an important ingredient for reproducibility of results and re-use of data, but also essential for collaborative research and data sharing. In particular, efficient data management and interoperability requires a unified approach that integrates data and metadata and provides a common way of accessing this information. In this paper we describe GNData, a data management platform for neurophysiological data. GNData provides a storage system based on a data representation that is suitable to organize data and metadata from any electrophysiological experiment, with a functionality exposed via a common application programming interface (API). Data representation and API structure are compatible with existing approaches for data and metadata representation in neurophysiology. The API implementation is based on the Representational State Transfer (REST) pattern, which enables data access integration in software applications and facilitates the development of tools that communicate with the service. Client libraries that interact with the API provide direct data access from computing environments like Matlab or Python, enabling integration of data management into the scientist's experimental or analysis routines.

OpenAPS Data Commons on Open Humans

OpenAIRE

Lewis, Dana M.; Ball, Madeleine

2017-01-01

Poster describing OpenAPS, Open Humans, and joint work creating a data commons for OpenAPS data in the Open Humans platform. Presented at the 2017 Sage Assembly Bionetworks Assembly and recipient of a Young Innovator/Investigator award.

On integrable c < 1 open-closed string theory

International Nuclear Information System (INIS)

Johnson, C.V.

1994-01-01

The integrable structure of open-closed string theories in the (p, q) conformal minimal model backgrounds is presented. The relation between the τ-function of the closed string theory and that of the open-closed string theory is uncovered. The resulting description of the open-closed string theory is shown to fit very naturally into the framework of the sl(q, C) KdV hierarchies. In particular, the twisted bosons which underlie and organise the structure of the closed string theory play a similar role here and may be employed to derive loop equations and correlation function recursion relations for the open-closed strings in a simple way. (orig.)

Design of the Hospital Integrated Information Management System Based on Cloud Platform.

Science.gov (United States)

Aijing, L; Jin, Y

2015-12-01

At present, the outdated information management style cannot meet the needs of hospital management, and has become the bottleneck of hospital's management and development. In order to improve the integrated management of information, hospitals have increased their investment in integrated information management systems. On account of the lack of reasonable and scientific design, some hospital integrated information management systems have common problems, such as unfriendly interface, poor portability and maintainability, low security and efficiency, lack of interactivity and information sharing. To solve the problem, this paper carries out the research and design of a hospital information management system based on cloud platform, which can realize the optimized integration of hospital information resources and save money.

Coupling of the neutron-kinetic core model DYN3D with the thermal hydraulic code FLICA-4 within the NURESIM platform

International Nuclear Information System (INIS)

Gommlich, A.; Kliem, S.; Rohde, U.; Gomez, A.; Sanchez, V.

2010-01-01

Within the FP7 Collaborative Project NURISP (NUclear Reactor Integrated Simulation Project) new and significant steps will be done towards a European Reference Simulation Platform for applications relevant to present PWR and BWR and to future reactors. The first step towards this target has been made during the FP6 NURESIM Integrated Project, where the already common and well-proven NURESIM informatics platform has been developed. This platform is based on the open source software SALOME. The 3D neutron kinetic core model DYN3D developed at Forschungszentrum Dresden-Rossendorf is part of the NURESIM platform. Within the NURESIM project, a SALOME based pre-processor for creation of DYN3D input data sets via GUI has been developed. DYN3D has been implemented into SALOME as black box, which allowed an independent execution. A conversion of the DYN3D result file into SALOME format was developed which opened the possibility using SALOME tools to visualize DYN3D results. (orig.)

An Embedded Systems Course for Engineering Students Using Open-Source Platforms in Wireless Scenarios

Science.gov (United States)

Rodriguez-Sanchez, M. C.; Torrado-Carvajal, Angel; Vaquero, Joaquin; Borromeo, Susana; Hernandez-Tamames, Juan A.

2016-01-01

This paper presents a case study analyzing the advantages and disadvantages of using project-based learning (PBL) combined with collaborative learning (CL) and industry best practices, integrated with information communication technologies, open-source software, and open-source hardware tools, in a specialized microcontroller and embedded systems…

Open areas and open access

International Nuclear Information System (INIS)

Thorndike, A.M.

1978-01-01

One objective of the two open areas in the present ISABELLE design is to provide flexibility with respect to the size and shape of experimental equipment that would eventually be installed there. No permanent building would be installed initially. A second objective of the design of open areas is to keep initial costs as low as practicable. Another objective is open access. This note explores this idea and some design concepts based on it. It would permit inserting large pieces of experimental equipment quickly and removing them with equal ease and speed. Entire experiments would be moved in a single piece (or a few) by building them on movable platforms with capacities of up to about 1000 tons per platform. Most experiments could be built on a single platform or on a few. The shielding must also be moved. It must also be organized into a small number of large units. A scheme using large tanks filled with water is described. It is important to make the equipment on a given platform as complete and self-contained as possible, with a minimum of interconnections for power, coolant, controls, data transmission, etc. 5 figures

Integrated Microfluidic Lectin Barcode Platform for High-Performance Focused Glycomic Profiling

Science.gov (United States)

Shang, Yuqin; Zeng, Yun; Zeng, Yong

2016-02-01

Protein glycosylation is one of the key processes that play essential roles in biological functions and dysfunctions. However, progress in glycomics has considerably lagged behind genomics and proteomics, due in part to the enormous challenges in analysis of glycans. Here we present a new integrated and automated microfluidic lectin barcode platform to substantially improve the performance of lectin array for focused glycomic profiling. The chip design and flow control were optimized to promote the lectin-glycan binding kinetics and speed of lectin microarray. Moreover, we established an on-chip lectin assay which employs a very simple blocking method to effectively suppress the undesired background due to lectin binding of antibodies. Using this technology, we demonstrated focused differential profiling of tissue-specific glycosylation changes of a biomarker, CA125 protein purified from ovarian cancer cell line and different tissues from ovarian cancer patients in a fast, reproducible, and high-throughput fashion. Highly sensitive CA125 detection was also demonstrated with a detection limit much lower than the clinical cutoff value for cancer diagnosis. This microfluidic platform holds the potential to integrate with sample preparation functions to construct a fully integrated “sample-to-answer” microsystem for focused differential glycomic analysis. Thus, our technology should present a powerful tool in support of rapid advance in glycobiology and glyco-biomarker development.

Towards an Open Software Platform for Field Robots in Precision Agriculture

DEFF Research Database (Denmark)

Jensen, Kjeld; Larsen, Morten; Nielsen, Søren H

2014-01-01

Robotics in precision agriculture has the potential to improve competitiveness and increase sustainability compared to current crop production methods and has become an increasingly active area of research. Tractor guidance systems for supervised navigation and implement control have reached...... the market, and prototypes of field robots performing precision agriculture tasks without human intervention also exist. But research in advanced cognitive perception and behaviour that is required to enable a more efficient, reliable and safe autonomy becomes increasingly demanding due to the growing...... software complexity. A lack of collaboration between research groups contributes to the problem. Scientific publications describe methods and results from the work, but little field robot software is released and documented for others to use. We hypothesize that a common open software platform tailored...

CISO: charter of integration for simulator openness

International Nuclear Information System (INIS)

Ponthieu, L.; Caremoli, C.; Mare, R.; Pernet, J.F.; Riu, D.

1999-01-01

In order to improve NPP simulators components homogeneity and reuse among projects, EDF (Electricite de France) has defined a Charter Integration for Simulator Openness. CISO, which is a set of rules and guidelines for simulator interoperability and openness, defines a static data model which must be used for any reference to the simulated installation, exchange procedures for simulation modules in a parallel environment and a standard basis for compatible communications between the simulator subsystems, CISO concentrates in interfaces and leaves open the individual choices for implementation. The prototyping phase is now completed, CISO will be put into practice for the next generation of EDF full-scale simulators, the guidelines must now enrich from experience. (author)

Vertical integration of high-Q silicon nitride microresonators into silicon-on-insulator platform.

Science.gov (United States)

Li, Qing; Eftekhar, Ali A; Sodagar, Majid; Xia, Zhixuan; Atabaki, Amir H; Adibi, Ali

2013-07-29

We demonstrate a vertical integration of high-Q silicon nitride microresonators into the silicon-on-insulator platform for applications at the telecommunication wavelengths. Low-loss silicon nitride films with a thickness of 400 nm are successfully grown, enabling compact silicon nitride microresonators with ultra-high intrinsic Qs (~ 6 × 10(6) for 60 μm radius and ~ 2 × 10(7) for 240 μm radius). The coupling between the silicon nitride microresonator and the underneath silicon waveguide is based on evanescent coupling with silicon dioxide as buffer. Selective coupling to a desired radial mode of the silicon nitride microresonator is also achievable using a pulley coupling scheme. In this work, a 60-μm-radius silicon nitride microresonator has been successfully integrated into the silicon-on-insulator platform, showing a single-mode operation with an intrinsic Q of 2 × 10(6).

Integrating an Automatic Judge into an Open Source LMS

Science.gov (United States)

Georgouli, Katerina; Guerreiro, Pedro

2011-01-01

This paper presents the successful integration of the evaluation engine of Mooshak into the open source learning management system Claroline. Mooshak is an open source online automatic judge that has been used for international and national programming competitions. although it was originally designed for programming competitions, Mooshak has also…

Increasing Flight Software Reuse with OpenSatKit

Science.gov (United States)

McComas, David C.

2018-01-01

In January 2015 the NASA Goddard Space Flight Center (GSFC) released the Core Flight System (cFS) as open source under the NASA Open Source Agreement (NOSA) license. The cFS is based on flight software (FSW) developed for 12 spacecraft spanning nearly two decades of effort and it can provide about a third of the FSW functionality for a low-earth orbiting scientific spacecraft. The cFS is a FSW framework that is portable, configurable, and extendable using a product line deployment model. However, the components are maintained separately so the user must configure, integrate, and deploy them as a cohesive functional system. This can be very challenging especially for organizations such as universities building cubesats that have minimal experience developing FSW. Supporting universities was one of the primary motivators for releasing the cFS under NOSA. This paper describes the OpenSatKit that was developed to address the cFS deployment challenges and to serve as a cFS training platform for new users. It provides a fully functional out-of-the box software system that includes NASA's cFS, Ball Aerospace's command and control system COSMOS, and a NASA dynamic simulator called 42. The kit is freely available since all of the components have been released as open source. The kit runs on a Linux platform, includes 8 cFS applications, several kit-specific applications, and built in demos illustrating how to use key application features. It also includes the software necessary to port the cFS to a Raspberry Pi and instructions for configuring COSMOS to communicate with the target. All of the demos and test scripts can be rerun unchanged with the cFS running on the Raspberry Pi. The cFS uses a 3-tiered layered architecture including a platform abstraction layer, a Core Flight Executive (cFE) middle layer, and an application layer. Similar to smart phones, the cFS application layer is the key architectural feature for users to extend the FSW functionality to meet their

Open data for democracy : Developing a theoretical framework for open data use

NARCIS (Netherlands)

Ruijer, Erna|info:eu-repo/dai/nl/413320979; Grimmelikhuijsen, Stephan|info:eu-repo/dai/nl/313875405; Meijer, Albert|info:eu-repo/dai/nl/172436729

2017-01-01

Open data platforms are hoped to foster democratic processes, yet recent empirical research shows that so far they have failed to do so. We argue that current open data platforms do not take into account the complexity of democratic processes which results in overly simplistic approaches to open

Multi-fields' coordination information integrated platform for nuclear power plant operation preparation

International Nuclear Information System (INIS)

Yuan Chang; Li Yong; Ye Zhiqiang

2011-01-01

To realize the coordination in multi-fields' work and information sharing, by applying the method of Enterprise Architecture (EA), the business architecture, functional flow and application architecture of Nuclear Power Plant's operation preparation information integrated platform are designed, which can realize the information sharing and coordination of multi fields. (authors)

Mobile platform security

CERN Document Server

Asokan, N; Dmitrienko, Alexandra

2013-01-01

Recently, mobile security has garnered considerable interest in both the research community and industry due to the popularity of smartphones. The current smartphone platforms are open systems that allow application development, also for malicious parties. To protect the mobile device, its user, and other mobile ecosystem stakeholders such as network operators, application execution is controlled by a platform security architecture. This book explores how such mobile platform security architectures work. We present a generic model for mobile platform security architectures: the model illustrat

Implementing OpenShift

CERN Document Server

Miller, Adam

2013-01-01

A standard tutorial-based approach to using OpenShift and deploying custom or pre-built web applications to the OpenShift Online cloud.This book is for software developers and DevOps alike who are interested in learning how to use the OpenShift Platform-as-a-Service for developing and deploying applications, how the environment works on the back end, and how to deploy their very own open source Platform-as-a-Service based on the upstream OpenShift Origin project.

SIMOcean: Maritime Open Data and Services Platform for Portuguese Institutions

Science.gov (United States)

Almeida, Nuno; Grosso, Nuno; Catarino, Nuno; Gutierrez, Antonio; Lamas, Luísa; Alves, Margarida; Almeida, Sara; Deus, Ricardo; Oliveira, Paulo

2016-04-01

Portugal is the country with the largest EEZ in the EU and the 10th largest EEZ in the world, at 3,877,408 km2, rendering the existence of an integrated management of Portuguese marine system crucial to monitor a wide range of interdependent domains. A system like this assimilates data and information from different thematic areas, ranging from ocean and atmosphere state variables to higher level datasets describing human activities and related environmental, social and economic impacts. Currently, these datasets are collected by a wide number of public and private institutions with very diverse purposes (e.g., monitoring, research, recreation, vigilance) leading to dataset duplication, inexistence of common data and metadata standards across organizations, and the propagation of closed information systems with different implementation solutions. This lack of coordination and visibility hinders the marine management, monitoring and vigilance capabilities, not only by making it more difficult to access, or even be aware of, the existence of certain datasets, but also by minimizing the ability to create added value products or services through dataset integration from different sources. Adopting Open Data approach will bring significant benefits by reducing the cost of information exchange and data integration, promoting the extensive use of this data. SIMOcean (System for Integrated Monitoring of the Ocean), co-funded by the EEA Grants Programme, is integrated in the initiative of the Portuguese Government to develop a set of coordinated systems providing access to national marine data. These systems aim to improve the Portuguese marine management, monitoring and vigilance capabilities, aggregating different data, including specific human activities datasets (vessel traffic, fishing records, oil spills), and environment variables (waves, currents, wind). Those datasets, currently scattered among different departments of the Portuguese Meteorological (IPMA) and the

Nucleic Acid-based Detection of Bacterial Pathogens Using Integrated Microfluidic Platform Systems

Directory of Open Access Journals (Sweden)

Carl A. Batt

2009-05-01

Full Text Available The advent of nucleic acid-based pathogen detection methods offers increased sensitivity and specificity over traditional microbiological techniques, driving the development of portable, integrated biosensors. The miniaturization and automation of integrated detection systems presents a significant advantage for rapid, portable field-based testing. In this review, we highlight current developments and directions in nucleic acid-based micro total analysis systems for the detection of bacterial pathogens. Recent progress in the miniaturization of microfluidic processing steps for cell capture, DNA extraction and purification, polymerase chain reaction, and product detection are detailed. Discussions include strategies and challenges for implementation of an integrated portable platform.

Cloud Based Earth Observation Data Exploitation Platforms

Science.gov (United States)

Romeo, A.; Pinto, S.; Loekken, S.; Marin, A.

2017-12-01

In the last few years data produced daily by several private and public Earth Observation (EO) satellites reached the order of tens of Terabytes, representing for scientists and commercial application developers both a big opportunity for their exploitation and a challenge for their management. New IT technologies, such as Big Data and cloud computing, enable the creation of web-accessible data exploitation platforms, which offer to scientists and application developers the means to access and use EO data in a quick and cost effective way. RHEA Group is particularly active in this sector, supporting the European Space Agency (ESA) in the Exploitation Platforms (EP) initiative, developing technology to build multi cloud platforms for the processing and analysis of Earth Observation data, and collaborating with larger European initiatives such as the European Plate Observing System (EPOS) and the European Open Science Cloud (EOSC). An EP is a virtual workspace, providing a user community with access to (i) large volume of data, (ii) algorithm development and integration environment, (iii) processing software and services (e.g. toolboxes, visualization routines), (iv) computing resources, (v) collaboration tools (e.g. forums, wiki, etc.). When an EP is dedicated to a specific Theme, it becomes a Thematic Exploitation Platform (TEP). Currently, ESA has seven TEPs in a pre-operational phase dedicated to geo-hazards monitoring and prevention, costal zones, forestry areas, hydrology, polar regions, urban areas and food security. On the technology development side, solutions like the multi cloud EO data processing platform provides the technology to integrate ICT resources and EO data from different vendors in a single platform. In particular it offers (i) Multi-cloud data discovery, (ii) Multi-cloud data management and access and (iii) Multi-cloud application deployment. This platform has been demonstrated with the EGI Federated Cloud, Innovation Platform Testbed Poland

Integrated Tourism E-Commerce Platform for Scenery Administration Bureau, Travel Agency and Tourist

Science.gov (United States)

Liang, Zhixue; Wang, Shui

Collaboration among multiple travel agencies and with scenery administration bureaus is vital for small or medium sized travel companies to succeed in the fierce competition of the tourism industry; business processes such as regrouping individual travelers between different agencies prove to be difficult and unpleasant user experience; tourists want to be more informed and have more initiative. To address these issues, proposes an integrated tourism e-commerce platform for travel agencies and scenery administration bureaus as well as tourists to interact in a more smooth way; this platform is constructed upon J2EE framework, provides online collaboration & coordination for companies and information services (such as self-navigation using Google Map etc) for tourists. A running implementation of this platform has been put into real business for a small travel company.

Low-loss compact multilayer silicon nitride platform for 3D photonic integrated circuits.

Science.gov (United States)

Shang, Kuanping; Pathak, Shibnath; Guan, Binbin; Liu, Guangyao; Yoo, S J B

2015-08-10

We design, fabricate, and demonstrate a silicon nitride (Si(3)N(4)) multilayer platform optimized for low-loss and compact multilayer photonic integrated circuits. The designed platform, with 200 nm thick waveguide core and 700 nm interlayer gap, is compatible for active thermal tuning and applicable to realizing compact photonic devices such as arrayed waveguide gratings (AWGs). We achieve ultra-low loss vertical couplers with 0.01 dB coupling loss, multilayer crossing loss of 0.167 dB at 90° crossing angle, 50 μm bending radius, 100 × 2 μm(2) footprint, lateral misalignment tolerance up to 400 nm, and less than -52 dB interlayer crosstalk at 1550 nm wavelength. Based on the designed platform, we demonstrate a 27 × 32 × 2 multilayer star coupler.

SimVascular 2.0: an Integrated Open Source Pipeline for Image-Based Cardiovascular Modeling and Simulation

Science.gov (United States)

Lan, Hongzhi; Merkow, Jameson; Updegrove, Adam; Schiavazzi, Daniele; Wilson, Nathan; Shadden, Shawn; Marsden, Alison

2015-11-01

SimVascular (www.simvascular.org) is currently the only fully open source software package that provides a complete pipeline from medical image based modeling to patient specific blood flow simulation and analysis. It was initially released in 2007 and has contributed to numerous advances in fundamental hemodynamics research, surgical planning, and medical device design. However, early versions had several major barriers preventing wider adoption by new users, large-scale application in clinical and research studies, and educational access. In the past years, SimVascular 2.0 has made significant progress by integrating open source alternatives for the expensive commercial libraries previously required for anatomic modeling, mesh generation and the linear solver. In addition, it simplified the across-platform compilation process, improved the graphical user interface and launched a comprehensive documentation website. Many enhancements and new features have been incorporated for the whole pipeline, such as 3-D segmentation, Boolean operation for discrete triangulated surfaces, and multi-scale coupling for closed loop boundary conditions. In this presentation we will briefly overview the modeling/simulation pipeline and advances of the new SimVascular 2.0.

The business impact of an integrated continuous biomanufacturing platform for recombinant protein production.

Science.gov (United States)

Walther, Jason; Godawat, Rahul; Hwang, Chris; Abe, Yuki; Sinclair, Andrew; Konstantinov, Konstantin

2015-11-10

The biotechnology industry primarily uses batch technologies to manufacture recombinant proteins. The natural evolution of other industries has shown that transitioning from batch to continuous processing can yield significant benefits. A quantitative understanding of these benefits is critical to guide the implementation of continuous processing. In this manuscript, we use process economic modeling and Monte Carlo simulations to evaluate an integrated continuous biomanufacturing (ICB) platform and conduct risk-based valuation to generate a probabilistic range of net-present values (NPVs). For a specific ten-year product portfolio, the ICB platform reduces average cost by 55% compared to conventional batch processing, considering both capital and operating expenses. The model predicts that these savings can further increase by an additional 25% in situations with higher-than-expected product demand showing the upward potential of the ICB platform. The ICB platform achieves these savings and corresponding flexibility mainly due to process intensification in both upstream and downstream unit operations. This study demonstrates the promise of continuous bioprocessing while also establishing a novel framework to quantify financial benefits of other platform process technologies. Copyright © 2015 Elsevier B.V. All rights reserved.

Design Considerations for Integration of Terahertz Time-Domain Spectroscopy in Microfluidic Platforms

Directory of Open Access Journals (Sweden)

Rasha Al-Hujazy

2018-03-01

Full Text Available Microfluidic platforms have received much attention in recent years. In particular, there is interest in combining spectroscopy with microfluidic platforms. This work investigates the integration of microfluidic platforms and terahertz time-domain spectroscopy (THz-TDS systems. A semiclassical computational model is used to simulate the emission of THz radiation from a GaAs photoconductive THz emitter. This model incorporates white noise with increasing noise amplitude (corresponding to decreasing dynamic range values. White noise is selected over other noise due to its contributions in THz-TDS systems. The results from this semiclassical computational model, in combination with defined sample thicknesses, can provide the maximum measurable absorption coefficient for a microfluidic-based THz-TDS system. The maximum measurable frequencies for such systems can be extracted through the relationship between the maximum measurable absorption coefficient and the absorption coefficient for representative biofluids. The sample thickness of the microfluidic platform and the dynamic range of the THz-TDS system play a role in defining the maximum measurable frequency for microfluidic-based THz-TDS systems. The results of this work serve as a design tool for the development of such systems.

A Social Environmental Sensor Network Integrated within a Web GIS Platform

Directory of Open Access Journals (Sweden)

Yorghos Voutos

2017-11-01

Full Text Available We live in an era where typical measures towards the mitigation of environmental degradation follow the identification and recording of natural parameters closely associated with it. In addition, current scientific knowledge on the one hand may be applied to minimize the environmental impact of anthropogenic activities, whereas informatics on the other, playing a key role in this ecosystem, do offer new ways of implementing complex scientific processes regarding the collection, aggregation and analysis of data concerning environmental parameters. Furthermore, another related aspect to consider is the fact that almost all relevant data recordings are influenced by their given spatial characteristics. Taking all aforementioned inputs into account, managing such a great amount of complex and remote data requires specific digital structures; these structures are typically deployed over the Web on an attempt to capitalize existing open software platforms and modern developments of hardware technology. In this paper we present an effort to provide a technical solution based on sensing devices that are based on the well-known Arduino platform and operate continuously for gathering and transmitting of environmental state information. Controls, user interface and extensions of the proposed project rely on the Android mobile device platform (both from the software and hardware side. Finally, a crucial novel aspect of our work is the fact that all herein gathered data carry spatial information, which is rather fundamental for the successful correlation between pollutants and their place of origin. The latter is implemented by an interactive Web GIS platform operating oversight in situ and on a timeline basis.

Open pre-schools at integrated health services - A program theory

Directory of Open Access Journals (Sweden)

Agneta Abrahamsson

2013-04-01

Full Text Available Introduction: Family centres in Sweden are integrated services that reach all prospective parents and parents with children up to their sixth year, because of the co-location of the health service with the social service and the open pre-school. The personnel on the multi-professional site work together to meet the needs of the target group. The article explores a program theory focused on the open pre-schools at family centres.Method: A multi-case design is used and the sample consists of open pre-schools at six family centres. The hypothesis is based on previous research and evaluation data. It guides the data collection which is collected and analysed stepwise. Both parents and personnel are interviewed individually and in groups at each centre.Findings: The hypothesis was expanded to a program theory. The compliance of the professionals was the most significant element that explained why the open access service facilitated positive parenting. The professionals act in a compliant manner to meet the needs of the children and parents as well as in creating good conditions for social networking and learning amongst the parents. Conclusion: The compliance of the professionals in this program theory of open pre-schools at family centres can be a standard in integrated and open access services, whereas the organisation form can vary. The best way of increasing the number of integrative services is to support and encourage professionals that prefer to work in a compliant manner.

Open pre-schools at integrated health services - A program theory

Directory of Open Access Journals (Sweden)

Agneta Abrahamsson

2013-04-01

Full Text Available Introduction: Family centres in Sweden are integrated services that reach all prospective parents and parents with children up to their sixth year, because of the co-location of the health service with the social service and the open pre-school. The personnel on the multi-professional site work together to meet the needs of the target group. The article explores a program theory focused on the open pre-schools at family centres. Method: A multi-case design is used and the sample consists of open pre-schools at six family centres. The hypothesis is based on previous research and evaluation data. It guides the data collection which is collected and analysed stepwise. Both parents and personnel are interviewed individually and in groups at each centre. Findings: The hypothesis was expanded to a program theory. The compliance of the professionals was the most significant element that explained why the open access service facilitated positive parenting. The professionals act in a compliant manner to meet the needs of the children and parents as well as in creating good conditions for social networking and learning amongst the parents. Conclusion: The compliance of the professionals in this program theory of open pre-schools at family centres can be a standard in integrated and open access services, whereas the organisation form can vary. The best way of increasing the number of integrative services is to support and encourage professionals that prefer to work in a compliant manner.

Approaches to Open Data for Science in Spain

Directory of Open Access Journals (Sweden)

E Wulff-Barreiro

2011-10-01

Full Text Available As observational data has attained new legal status, allowing their integration into open Internet systems, and experimental data continues to be assembled in common and free platforms, state of the art, easy to access data repositories have been designed in Spain. These repositories have removed many obstacles to re-utilization of GIS and other data. European legislation has also made advances in opening biodiversity data, including a European space in the Latin-American grid infrastructure. Open access biomedical repositories attract commercial attention while astronomical, meteorological, and oncological institutions promote data quality and access. This paper describes recent approaches to open access data for science in Spain.

Analysis and experiments of a novel and compact 3-DOF precision positioning platform

International Nuclear Information System (INIS)

Huang, Hu; Zhao, Hongwei; Fan, Zunqiang; Zhang, Hui; Ma, Zhichao; Yang, Zhaojun

2013-01-01

A novel 3-DOF precision positioning platform with dimensions of 48 mm X 50 mm X 35 mm was designed by integrating piezo actuators and flexure hinges. The platform has a compact structure but it can do high precision positioning in three axes. The dynamic model of the platform in a single direction was established. Stiffness of the flexure hinges and modal characteristics of the flexure hinge mechanism were analyzed by the finite element method. Output displacements of the platform along three axes were forecasted via stiffness analysis. Output performance of the platform in x and y axes with open-loop control as well as the z-axis with closed-loop control was tested and discussed. The preliminary application of the platform in the field of nanoindentation indicates that the designed platform works well during nanoindentation tests, and the closed-loop control ensures the linear displacement output. With suitable control, the platform has the potential to realize different positioning functions under various working conditions.

Next Generation Air Quality Platform: Openness and Interoperability for the Internet of Things

Directory of Open Access Journals (Sweden)

Alexander Kotsev

2016-03-01

Full Text Available The widespread diffusion of sensors, mobile devices, social media and open data are reconfiguring the way data underpinning policy and science are being produced and consumed. This in turn is creating both opportunities and challenges for policy-making and science. There can be major benefits from the deployment of the IoT in smart cities and environmental monitoring, but to realize such benefits, and reduce potential risks, there is an urgent need to address current limitations, including the interoperability of sensors, data quality, security of access and new methods for spatio-temporal analysis. Within this context, the manuscript provides an overview of the AirSensEUR project, which establishes an affordable open software/hardware multi-sensor platform, which is nonetheless able to monitor air pollution at low concentration levels. AirSensEUR is described from the perspective of interoperable data management with emphasis on possible use case scenarios, where reliable and timely air quality data would be essential.

Next Generation Air Quality Platform: Openness and Interoperability for the Internet of Things.

Science.gov (United States)

Kotsev, Alexander; Schade, Sven; Craglia, Massimo; Gerboles, Michel; Spinelle, Laurent; Signorini, Marco

2016-03-18

The widespread diffusion of sensors, mobile devices, social media and open data are reconfiguring the way data underpinning policy and science are being produced and consumed. This in turn is creating both opportunities and challenges for policy-making and science. There can be major benefits from the deployment of the IoT in smart cities and environmental monitoring, but to realize such benefits, and reduce potential risks, there is an urgent need to address current limitations, including the interoperability of sensors, data quality, security of access and new methods for spatio-temporal analysis. Within this context, the manuscript provides an overview of the AirSensEUR project, which establishes an affordable open software/hardware multi-sensor platform, which is nonetheless able to monitor air pollution at low concentration levels. AirSensEUR is described from the perspective of interoperable data management with emphasis on possible use case scenarios, where reliable and timely air quality data would be essential.

IAU astroEDU: an open-access platform for peer-reviewed astronomy education activities

Science.gov (United States)

Heenatigala, Thilina; Russo, Pedro; Strubbe, Linda; Gomez, Edward

2015-08-01

astroEDU is an open access platform for peer-reviewed astronomy education activities. It addresses key problems in educational repositories such as variability in quality, not maintained or updated regularly, limited content review, and more. This is achieved through a peer-review process similar to what scholarly articles are based on. Activities submitted are peer-reviewed by an educator and a professional astronomer which gives the credibility to the activities. astroEDU activities are open-access in order to make the activities accessible to educators around the world while letting them discover, review, distribute and remix the activities. The activity submission process allows authors to learn how to apply enquiry-based learning into the activity, identify the process skills required, how to develop core goals and objectives, and how to evaluate the activity to determine the outcome. astroEDU is endorsed by the International Astronomical Union meaning each activity is given an official stamp by the international organisation for professional astronomers.

The Dynamics of Digital Platform Innovation

DEFF Research Database (Denmark)

Eaton, Ben

2016-01-01

Curated platforms provide an architectural basis for third parties to develop platform complements and for platform owners to control their implementation as a form of open innovation. The refusal to implement complements as innovations can cause tension between platform owners and developers. Th...

A Digital Knowledge Preservation Platform for Environmental Sciences

Science.gov (United States)

Aguilar Gómez, Fernando; de Lucas, Jesús Marco; Pertinez, Esther; Palacio, Aida; Perez, David

2017-04-01

The Digital Knowledge Preservation Platform is the evolution of a pilot project for Open Data supporting the full research data life cycle. It is currently being evolved at IFCA (Instituto de Física de Cantabria) as a combination of different open tools that have been extended: DMPTool (https://dmptool.org/) with pilot semantics features (RDF export, parameters definition), INVENIO (http://invenio-software.org/ ) customized version to integrate the entire research data life cycle and Jupyter (http://jupyter.org/) as processing tool and reproducibility environment. This complete platform aims to provide an integrated environment for research data management following the FAIR+R principles: -Findable: The Web portal based on Invenio provides a search engine and all elements including metadata to make them easily findable. -Accessible: Both data and software are available online with internal PIDs and DOIs (provided by Datacite). -Interoperable: Datasets can be combined to perform new analysis. The OAI-PMH standard is also integrated. -Re-usable: different licenses types and embargo periods can be defined. -+Reproducible: directly integrated with cloud computing resources. The deployment of the entire system over a Cloud framework helps to build a dynamic and scalable solution, not only for managing open datasets but also as a useful tool for the final user, who is able to directly process and analyse the open data. In parallel, the direct use of semantics and metadata is being explored and integrated in the framework. Ontologies, being a knowledge representation, can contribute to define the elements and relationships of the research data life cycle, including DMP, datasets, software, etc. The first advantage of developing an ontology of a knowledge domain is that they provide a common vocabulary hierarchy (i.e. a conceptual schema) that can be used and standardized by all the agents interested in the domain (either humans or machines). This way of using ontologies

Snap: an integrated SNP annotation platform

DEFF Research Database (Denmark)

Li, Shengting; Ma, Lijia; Li, Heng

2007-01-01

Snap (Single Nucleotide Polymorphism Annotation Platform) is a server designed to comprehensively analyze single genes and relationships between genes basing on SNPs in the human genome. The aim of the platform is to facilitate the study of SNP finding and analysis within the framework of medical...

Achieving sustainable ground-water management by using GIS-integrated simulation tools: the EU H2020 FREEWAT platform

Science.gov (United States)

Rossetto, Rudy; De Filippis, Giovanna; Borsi, Iacopo; Foglia, Laura; Toegl, Anja; Cannata, Massimiliano; Neumann, Jakob; Vazquez-Sune, Enric; Criollo, Rotman

2017-04-01

In order to achieve sustainable and participated ground-water management, innovative software built on the integration of numerical models within GIS software is a perfect candidate to provide a full characterization of quantitative and qualitative aspects of ground- and surface-water resources maintaining the time and spatial dimension. The EU H2020 FREEWAT project (FREE and open source software tools for WATer resource management; Rossetto et al., 2015) aims at simplifying the application of EU water-related Directives through an open-source and public-domain, GIS-integrated simulation platform for planning and management of ground- and surface-water resources. The FREEWAT platform allows to simulate the whole hydrological cycle, coupling the power of GIS geo-processing and post-processing tools in spatial data analysis with that of process-based simulation models. This results in a modeling environment where large spatial datasets can be stored, managed and visualized and where several simulation codes (mainly belonging to the USGS MODFLOW family) are integrated to simulate multiple hydrological, hydrochemical or economic processes. So far, the FREEWAT platform is a large plugin for the QGIS GIS desktop software and it integrates the following capabilities: • the AkvaGIS module allows to produce plots and statistics for the analysis and interpretation of hydrochemical and hydrogeological data; • the Observation Analysis Tool, to facilitate the import, analysis and visualization of time-series data and the use of these data to support model construction and calibration; • groundwater flow simulation in the saturated and unsaturated zones may be simulated using MODFLOW-2005 (Harbaugh, 2005); • multi-species advective-dispersive transport in the saturated zone can be simulated using MT3DMS (Zheng & Wang, 1999); the possibility to simulate viscosity- and density-dependent flows is further accomplished through SEAWAT (Langevin et al., 2007); • sustainable

Open Access Integrated Therapeutic and Diagnostic Platforms for Personalized Cardiovascular Medicine

Directory of Open Access Journals (Sweden)

Todd T. Schlegel

2013-08-01

Full Text Available It is undeniable that the increasing costs in healthcare are a concern. Although technological advancements have been made in healthcare systems, the return on investment made by governments and payers has been poor. The current model of care is unsustainable and is due for an upgrade. In developed nations, a law of diminishing returns has been noted in population health standards, whilst in the developing world, westernized chronic illnesses, such as diabetes and cardiovascular disease have become emerging problems. The reasons for these trends are complex, multifactorial and not easily reversed. Personalized medicine has the potential to have a significant impact on these issues, but for it to be truly successful, interdisciplinary mass collaboration is required. We propose here a vision for open-access advanced analytics for personalized cardiac diagnostics using imaging, electrocardiography and genomics.

Integrative Data Analysis of Multi-Platform Cancer Data with a Multimodal Deep Learning Approach.

Science.gov (United States)

Liang, Muxuan; Li, Zhizhong; Chen, Ting; Zeng, Jianyang

2015-01-01

Identification of cancer subtypes plays an important role in revealing useful insights into disease pathogenesis and advancing personalized therapy. The recent development of high-throughput sequencing technologies has enabled the rapid collection of multi-platform genomic data (e.g., gene expression, miRNA expression, and DNA methylation) for the same set of tumor samples. Although numerous integrative clustering approaches have been developed to analyze cancer data, few of them are particularly designed to exploit both deep intrinsic statistical properties of each input modality and complex cross-modality correlations among multi-platform input data. In this paper, we propose a new machine learning model, called multimodal deep belief network (DBN), to cluster cancer patients from multi-platform observation data. In our integrative clustering framework, relationships among inherent features of each single modality are first encoded into multiple layers of hidden variables, and then a joint latent model is employed to fuse common features derived from multiple input modalities. A practical learning algorithm, called contrastive divergence (CD), is applied to infer the parameters of our multimodal DBN model in an unsupervised manner. Tests on two available cancer datasets show that our integrative data analysis approach can effectively extract a unified representation of latent features to capture both intra- and cross-modality correlations, and identify meaningful disease subtypes from multi-platform cancer data. In addition, our approach can identify key genes and miRNAs that may play distinct roles in the pathogenesis of different cancer subtypes. Among those key miRNAs, we found that the expression level of miR-29a is highly correlated with survival time in ovarian cancer patients. These results indicate that our multimodal DBN based data analysis approach may have practical applications in cancer pathogenesis studies and provide useful guidelines for

Prototype of a Web-based Participative Decision Support Platform in Natural Hazards and Risk Management

Directory of Open Access Journals (Sweden)

Zar Chi Aye

2015-07-01

Full Text Available This paper presents the current state and development of a prototype web-GIS (Geographic Information System decision support platform intended for application in natural hazards and risk management, mainly for floods and landslides. This web platform uses open-source geospatial software and technologies, particularly the Boundless (formerly OpenGeo framework and its client side software development kit (SDK. The main purpose of the platform is to assist the experts and stakeholders in the decision-making process for evaluation and selection of different risk management strategies through an interactive participation approach, integrating web-GIS interface with decision support tool based on a compromise programming approach. The access rights and functionality of the platform are varied depending on the roles and responsibilities of stakeholders in managing the risk. The application of the prototype platform is demonstrated based on an example case study site: Malborghetto Valbruna municipality of North-Eastern Italy where flash floods and landslides are frequent with major events having occurred in 2003. The preliminary feedback collected from the stakeholders in the region is discussed to understand the perspectives of stakeholders on the proposed prototype platform.

An integrated, open-source set of tools for urban vulnerability monitoring from Earth observation data

Science.gov (United States)

De Vecchi, Daniele; Harb, Mostapha; Dell'Acqua, Fabio; Aurelio Galeazzo, Daniel

2015-04-01

Aim: The paper introduces an integrated set of open-source tools designed to process medium and high-resolution imagery with the aim to extract vulnerability indicators [1]. Problem: In the context of risk monitoring [2], a series of vulnerability proxies can be defined, such as the extension of a built-up area or buildings regularity [3]. Different open-source C and Python libraries are already available for image processing and geospatial information (e.g. OrfeoToolbox, OpenCV and GDAL). They include basic processing tools but not vulnerability-oriented workflows. Therefore, it is of significant importance to provide end-users with a set of tools capable to return information at a higher level. Solution: The proposed set of python algorithms is a combination of low-level image processing and geospatial information handling tools along with high-level workflows. In particular, two main products are released under the GPL license: source code, developers-oriented, and a QGIS plugin. These tools were produced within the SENSUM project framework (ended December 2014) where the main focus was on earthquake and landslide risk. Further development and maintenance is guaranteed by the decision to include them in the platform designed within the FP 7 RASOR project . Conclusion: With the lack of a unified software suite for vulnerability indicators extraction, the proposed solution can provide inputs for already available models like the Global Earthquake Model. The inclusion of the proposed set of algorithms within the RASOR platforms can guarantee support and enlarge the community of end-users. Keywords: Vulnerability monitoring, remote sensing, optical imagery, open-source software tools References [1] M. Harb, D. De Vecchi, F. Dell'Acqua, "Remote sensing-based vulnerability proxies in the EU FP7 project SENSUM", Symposium on earthquake and landslide risk in Central Asia and Caucasus: exploiting remote sensing and geo-spatial information management, 29-30th January 2014

Voltage margin control for offshore multi-use platform integration

DEFF Research Database (Denmark)

Mier, V.; Casielles, P.G.; Koto, J.

This paper discusses a multiterminal direct current (MTDC) connection proposed for integration of offshore multi-use platforms into continental grids. Voltage source converters (VSC) were selected for their suitability for multiterminal dc systems and for their flexibility in control. A five...... terminal VSC-MTDC which includes offshore generation, storage, loads and ac connection, was modeled and simulated in DigSILENT Power Factory software. Voltage margin method has been used for reliable operation of the MTDC system without the need of fast communication. Simulation results show......, sell or store energy attending to the price in the electricity market....

Building a virtual simulation platform for quasistatic breast ultrasound elastography using open source software: A preliminary investigation.

Science.gov (United States)

Wang, Yu; Helminen, Emily; Jiang, Jingfeng

2015-09-01

Quasistatic ultrasound elastography (QUE) is being used to augment in vivo characterization of breast lesions. Results from early clinical trials indicated that there was a lack of confidence in image interpretation. Such confidence can only be gained through rigorous imaging tests using complex, heterogeneous but known media. The objective of this study is to build a virtual breast QUE simulation platform in the public domain that can be used not only for innovative QUE research but also for rigorous imaging tests. The main thrust of this work is to streamline biomedical ultrasound simulations by leveraging existing open source software packages including Field II (ultrasound simulator), VTK (geometrical visualization and processing), FEBio [finite element (FE) analysis], and Tetgen (mesh generator). However, integration of these open source packages is nontrivial and requires interdisciplinary knowledge. In the first step, a virtual breast model containing complex anatomical geometries was created through a novel combination of image-based landmark structures and randomly distributed (small) structures. Image-based landmark structures were based on data from the NIH Visible Human Project. Subsequently, an unstructured FE-mesh was created by Tetgen. In the second step, randomly positioned point scatterers were placed within the meshed breast model through an octree-based algorithm to make a virtual breast ultrasound phantom. In the third step, an ultrasound simulator (Field II) was used to interrogate the virtual breast phantom to obtain simulated ultrasound echo data. Of note, tissue deformation generated using a FE-simulator (FEBio) was the basis of deforming the original virtual breast phantom in order to obtain the postdeformation breast phantom for subsequent ultrasound simulations. Using the procedures described above, a full cycle of QUE simulations involving complex and highly heterogeneous virtual breast phantoms can be accomplished for the first time

The tsunami service bus, an integration platform for heterogeneous sensor systems

Science.gov (United States)

Haener, R.; Waechter, J.; Kriegel, U.; Fleischer, J.; Mueller, S.

2009-04-01

components remain unchanged, components can be maintained and evolved independently on each other and service functionality as a whole can be reused. In GITEWS the functional integration pattern was adopted by applying the principles of an Enterprise Service Bus (ESB) as a backbone. Four services provided by the so called Tsunami Service Bus (TSB) which are essential for early warning systems are realized compliant to services specified within the Sensor Web Enablement (SWE) initiative of the Open Geospatial Consortium (OGC). 3. ARCHITECTURE The integration platform was developed to access proprietary, heterogeneous sensor data and to provide them in a uniform manner for further use. Its core, the TSB provides both a messaging-backbone and -interfaces on the basis of a Java Messaging Service (JMS). The logical architecture of GITEWS consists of four independent layers: • A resource layer where physical or virtual sensors as well as data or model storages provide relevant measurement-, event- and analysis-data: Utilizable for the TSB are any kind of data. In addition to sensors databases, model data and processing applications are adopted. SWE specifies encoding both to access and to describe these data in a comprehensive way: 1. Sensor Model Language (SensorML): Standardized description of sensors and sensor data 2. Observations and Measurements (O&M): Model and encoding of sensor measurements • A service layer to collect and conduct data from heterogeneous and proprietary resources and provide them via standardized interfaces: The TSB enables interaction with sensors via the following services: 1. Sensor Observation Service (SOS): Standardized access to sensor data 2. Sensor Planning Service (SPS): Controlling of sensors and sensor networks 3. Sensor Alert Service (SAS): Active sending of data if defined events occur 4. Web Notification Service (WNS): Conduction of asynchronous dialogues between services • An orchestration layer where atomic services are composed and

COBALT: Development of a Platform to Flight Test Lander GN&C Technologies on Suborbital Rockets

Science.gov (United States)

Carson, John M., III; Seubert, Carl R.; Amzajerdian, Farzin; Bergh, Chuck; Kourchians, Ara; Restrepo, Carolina I.; Villapando, Carlos Y.; O'Neal, Travis V.; Robertson, Edward A.; Pierrottet, Diego;

A GPU OpenCL based cross-platform Monte Carlo dose calculation engine (goMC)

Science.gov (United States)

Tian, Zhen; Shi, Feng; Folkerts, Michael; Qin, Nan; Jiang, Steve B.; Jia, Xun

2015-09-01

Monte Carlo (MC) simulation has been recognized as the most accurate dose calculation method for radiotherapy. However, the extremely long computation time impedes its clinical application. Recently, a lot of effort has been made to realize fast MC dose calculation on graphic processing units (GPUs). However, most of the GPU-based MC dose engines have been developed under NVidia’s CUDA environment. This limits the code portability to other platforms, hindering the introduction of GPU-based MC simulations to clinical practice. The objective of this paper is to develop a GPU OpenCL based cross-platform MC dose engine named goMC with coupled photon-electron simulation for external photon and electron radiotherapy in the MeV energy range. Compared to our previously developed GPU-based MC code named gDPM (Jia et al 2012 Phys. Med. Biol. 57 7783-97), goMC has two major differences. First, it was developed under the OpenCL environment for high code portability and hence could be run not only on different GPU cards but also on CPU platforms. Second, we adopted the electron transport model used in EGSnrc MC package and PENELOPE’s random hinge method in our new dose engine, instead of the dose planning method employed in gDPM. Dose distributions were calculated for a 15 MeV electron beam and a 6 MV photon beam in a homogenous water phantom, a water-bone-lung-water slab phantom and a half-slab phantom. Satisfactory agreement between the two MC dose engines goMC and gDPM was observed in all cases. The average dose differences in the regions that received a dose higher than 10% of the maximum dose were 0.48-0.53% for the electron beam cases and 0.15-0.17% for the photon beam cases. In terms of efficiency, goMC was ~4-16% slower than gDPM when running on the same NVidia TITAN card for all the cases we tested, due to both the different electron transport models and the different development environments. The code portability of our new dose engine goMC was validated by

A GPU OpenCL based cross-platform Monte Carlo dose calculation engine (goMC).

Science.gov (United States)

Tian, Zhen; Shi, Feng; Folkerts, Michael; Qin, Nan; Jiang, Steve B; Jia, Xun

2015-10-07

Monte Carlo (MC) simulation has been recognized as the most accurate dose calculation method for radiotherapy. However, the extremely long computation time impedes its clinical application. Recently, a lot of effort has been made to realize fast MC dose calculation on graphic processing units (GPUs). However, most of the GPU-based MC dose engines have been developed under NVidia's CUDA environment. This limits the code portability to other platforms, hindering the introduction of GPU-based MC simulations to clinical practice. The objective of this paper is to develop a GPU OpenCL based cross-platform MC dose engine named goMC with coupled photon-electron simulation for external photon and electron radiotherapy in the MeV energy range. Compared to our previously developed GPU-based MC code named gDPM (Jia et al 2012 Phys. Med. Biol. 57 7783-97), goMC has two major differences. First, it was developed under the OpenCL environment for high code portability and hence could be run not only on different GPU cards but also on CPU platforms. Second, we adopted the electron transport model used in EGSnrc MC package and PENELOPE's random hinge method in our new dose engine, instead of the dose planning method employed in gDPM. Dose distributions were calculated for a 15 MeV electron beam and a 6 MV photon beam in a homogenous water phantom, a water-bone-lung-water slab phantom and a half-slab phantom. Satisfactory agreement between the two MC dose engines goMC and gDPM was observed in all cases. The average dose differences in the regions that received a dose higher than 10% of the maximum dose were 0.48-0.53% for the electron beam cases and 0.15-0.17% for the photon beam cases. In terms of efficiency, goMC was ~4-16% slower than gDPM when running on the same NVidia TITAN card for all the cases we tested, due to both the different electron transport models and the different development environments. The code portability of our new dose engine goMC was validated by

A GPU OpenCL based cross-platform Monte Carlo dose calculation engine (goMC)

International Nuclear Information System (INIS)

Tian, Zhen; Shi, Feng; Folkerts, Michael; Qin, Nan; Jiang, Steve B; Jia, Xun

2015-01-01

Monte Carlo (MC) simulation has been recognized as the most accurate dose calculation method for radiotherapy. However, the extremely long computation time impedes its clinical application. Recently, a lot of effort has been made to realize fast MC dose calculation on graphic processing units (GPUs). However, most of the GPU-based MC dose engines have been developed under NVidia’s CUDA environment. This limits the code portability to other platforms, hindering the introduction of GPU-based MC simulations to clinical practice. The objective of this paper is to develop a GPU OpenCL based cross-platform MC dose engine named goMC with coupled photon–electron simulation for external photon and electron radiotherapy in the MeV energy range. Compared to our previously developed GPU-based MC code named gDPM (Jia et al 2012 Phys. Med. Biol. 57 7783–97), goMC has two major differences. First, it was developed under the OpenCL environment for high code portability and hence could be run not only on different GPU cards but also on CPU platforms. Second, we adopted the electron transport model used in EGSnrc MC package and PENELOPE’s random hinge method in our new dose engine, instead of the dose planning method employed in gDPM. Dose distributions were calculated for a 15 MeV electron beam and a 6 MV photon beam in a homogenous water phantom, a water-bone-lung-water slab phantom and a half-slab phantom. Satisfactory agreement between the two MC dose engines goMC and gDPM was observed in all cases. The average dose differences in the regions that received a dose higher than 10% of the maximum dose were 0.48–0.53% for the electron beam cases and 0.15–0.17% for the photon beam cases. In terms of efficiency, goMC was ∼4–16% slower than gDPM when running on the same NVidia TITAN card for all the cases we tested, due to both the different electron transport models and the different development environments. The code portability of our new dose engine goMC was

Use of a platform in an automated open-field to enhance assessment of anxiety-like behaviors in mice.

Science.gov (United States)

Pogorelov, Vladimir M; Lanthorn, Thomas H; Savelieva, Katerina V

2007-05-15

The present report describes a setup for simultaneously measuring anxiety-like behaviors and locomotor activity in mice. Animals are placed in a brightly lit, standard automated open-field (OF) in which a rectangular ceramic platform 8 cm high covers one quadrant of the floor. Mice preferred to stay under the platform, avoiding the area with bright illumination. Activities under and outside the platform were measured for 5 min. Chlordiazepoxide and buspirone dose-dependently increased time spent outside the platform (L-Time) and the light distance to total OF distance ratio (L:T-TD) in both genders without changing total OF distance. By contrast, amphetamine decreased L-Time and L:T-TD in males, thus displaying an anxiogenic effect. Imipramine was without selective effect on L-Time or L:T-TD, but decreased total OF distance at the highest dose indicative of a sedative effect. Drug effects were also evaluated in the OF without platform using conventional anxiety measures. Introduction of the platform into the OF apparatus strongly enhanced the sensitivity to anxiolytics. Comparison of strains differing in activity or anxiety levels showed that L-Time and L:T-TD can be used as measures of anxiety-like behavior independent of locomotor activity. Changes in motor activity are reflected in the total distance traveled under and outside the platform. Therefore, the platform test is fully automated, sensitive to both anxiolytic and anxiogenic effects of drugs and genetic phenotypes with little evidence of gender-specific responses, and can be easily utilized by most laboratories measuring behavior.

The SCEC Broadband Platform: Open-Source Software for Strong Ground Motion Simulation and Validation

Science.gov (United States)

Silva, F.; Goulet, C. A.; Maechling, P. J.; Callaghan, S.; Jordan, T. H.

2016-12-01

The Southern California Earthquake Center (SCEC) Broadband Platform (BBP) is a carefully integrated collection of open-source scientific software programs that can simulate broadband (0-100 Hz) ground motions for earthquakes at regional scales. The BBP can run earthquake rupture and wave propagation modeling software to simulate ground motions for well-observed historical earthquakes and to quantify how well the simulated broadband seismograms match the observed seismograms. The BBP can also run simulations for hypothetical earthquakes. In this case, users input an earthquake location and magnitude description, a list of station locations, and a 1D velocity model for the region of interest, and the BBP software then calculates ground motions for the specified stations. The BBP scientific software modules implement kinematic rupture generation, low- and high-frequency seismogram synthesis using wave propagation through 1D layered velocity structures, several ground motion intensity measure calculations, and various ground motion goodness-of-fit tools. These modules are integrated into a software system that provides user-defined, repeatable, calculation of ground-motion seismograms, using multiple alternative ground motion simulation methods, and software utilities to generate tables, plots, and maps. The BBP has been developed over the last five years in a collaborative project involving geoscientists, earthquake engineers, graduate students, and SCEC scientific software developers. The SCEC BBP software released in 2016 can be compiled and run on recent Linux and Mac OS X systems with GNU compilers. It includes five simulation methods, seven simulation regions covering California, Japan, and Eastern North America, and the ability to compare simulation results against empirical ground motion models (aka GMPEs). The latest version includes updated ground motion simulation methods, a suite of new validation metrics and a simplified command line user interface.

A high performance, low power computational platform for complex sensing operations in smart cities

KAUST Repository

Jiang, Jiming; Claudel, Christian

2017-01-01

This paper presents a new wireless platform designed for an integrated traffic/flash flood monitoring system. The sensor platform is built around a 32-bit ARM Cortex M4 microcontroller and a 2.4GHz 802.15.4802.15.4 ISM compliant radio module. It can be interfaced with fixed traffic sensors, or receive data from vehicle transponders. This platform is specifically designed for solar-powered, low bandwidth, high computational performance wireless sensor network applications. A self-recovering unit is designed to increase reliability and allow periodic hard resets, an essential requirement for sensor networks. A radio monitoring circuitry is proposed to monitor incoming and outgoing transmissions, simplifying software debugging. We illustrate the performance of this wireless sensor platform on complex problems arising in smart cities, such as traffic flow monitoring, machine-learning-based flash flood monitoring or Kalman-filter based vehicle trajectory estimation. All design files have been uploaded and shared in an open science framework, and can be accessed from [1]. The hardware design is under CERN Open Hardware License v1.2.

A high performance, low power computational platform for complex sensing operations in smart cities

KAUST Repository

Jiang, Jiming

2017-02-02

This paper presents a new wireless platform designed for an integrated traffic/flash flood monitoring system. The sensor platform is built around a 32-bit ARM Cortex M4 microcontroller and a 2.4GHz 802.15.4802.15.4 ISM compliant radio module. It can be interfaced with fixed traffic sensors, or receive data from vehicle transponders. This platform is specifically designed for solar-powered, low bandwidth, high computational performance wireless sensor network applications. A self-recovering unit is designed to increase reliability and allow periodic hard resets, an essential requirement for sensor networks. A radio monitoring circuitry is proposed to monitor incoming and outgoing transmissions, simplifying software debugging. We illustrate the performance of this wireless sensor platform on complex problems arising in smart cities, such as traffic flow monitoring, machine-learning-based flash flood monitoring or Kalman-filter based vehicle trajectory estimation. All design files have been uploaded and shared in an open science framework, and can be accessed from [1]. The hardware design is under CERN Open Hardware License v1.2.

OptFlux: an open-source software platform for in silico metabolic engineering.

Science.gov (United States)

Rocha, Isabel; Maia, Paulo; Evangelista, Pedro; Vilaça, Paulo; Soares, Simão; Pinto, José P; Nielsen, Jens; Patil, Kiran R; Ferreira, Eugénio C; Rocha, Miguel

2010-04-19

algorithms and the final users. It is a valuable platform for researchers in the field that have available a number of useful tools. Its open-source nature invites contributions by all those interested in making their methods available for the community. Given its plug-in based architecture it can be extended with new functionalities. Currently, several plug-ins are being developed, including network topology analysis tools and the integration with Boolean network based regulatory models.

Information Integration Platform for Patient-Centric Healthcare Services: Design, Prototype and Dependability Aspects

Directory of Open Access Journals (Sweden)

Yohanes Baptista Dafferianto Trinugroho

2014-03-01

Full Text Available Technology innovations have pushed today’s healthcare sector to an unprecedented new level. Various portable and wearable medical and fitness devices are being sold in the consumer market to provide the self-empowerment of a healthier lifestyle to society. Many vendors provide additional cloud-based services for devices they manufacture, enabling the users to visualize, store and share the gathered information through the Internet. However, most of these services are integrated with the devices in a closed “silo” manner, where the devices can only be used with the provided services. To tackle this issue, an information integration platform (IIP has been developed to support communications between devices and Internet-based services in an event-driven fashion by adopting service-oriented architecture (SOA principles and a publish/subscribe messaging pattern. It follows the “Internet of Things” (IoT idea of connecting everyday objects to various networks and to enable the dissemination of the gathered information to the global information space through the Internet. A patient-centric healthcare service environment is chosen as the target scenario for the deployment of the platform, as this is a domain where IoT can have a direct positive impact on quality of life enhancement. This paper describes the developed platform, with emphasis on dependability aspects, including availability, scalability and security.

Design and Optimization of OpenFOAM-based CFD Applications for Modern Hybrid and Heterogeneous HPC Platforms

KAUST Repository

AlOnazi, Amani A.

2014-02-01

The progress of high performance computing platforms is dramatic, and most of the simulations carried out on these platforms result in improvements on one level, yet expose shortcomings of current CFD packages. Therefore, hardware-aware design and optimizations are crucial towards exploiting modern computing resources. This thesis proposes optimizations aimed at accelerating numerical simulations, which are illus- trated in OpenFOAM solvers. A hybrid MPI and GPGPU parallel conjugate gradient linear solver has been designed and implemented to solve the sparse linear algebraic kernel that derives from two CFD solver: icoFoam, which is an incompressible flow solver, and laplacianFoam, which solves the Poisson equation, for e.g., thermal dif- fusion. A load-balancing step is applied using heterogeneous decomposition, which decomposes the computations taking into account the performance of each comput- ing device and seeking to minimize communication. In addition, we implemented the recently developed pipeline conjugate gradient as an algorithmic improvement, and parallelized it using MPI, GPGPU, and a hybrid technique. While many questions of ultimately attainable per node performance and multi-node scaling remain, the ex- perimental results show that the hybrid implementation of both solvers significantly outperforms state-of-the-art implementations of a widely used open source package.

Multilayered photonic integration on SOI platform using waveguide-based bridge structure

Science.gov (United States)

Majumder, Saikat; Chakraborty, Rajib

2018-06-01

A waveguide based structure on silicon on insulator platform is proposed for vertical integration in photonic integrated circuits. The structure consists of two multimode interference couplers connected by a single mode (SM) section which can act as a bridge over any other underlying device. Two more SM sections acts as input and output of the first and second multimode couplers respectively. Potential application of this structure is in multilayered photonic links. It is shown that the efficiency of the structure can be improved by making some design modifications. The entire simulation is done using effective-index based matrix method. The feature size chosen are comparable to waveguides fabricated previously so as to fabricate the proposed structure easily.

Robotics-assisted mass spectrometry assay platform enabled by open-source electronics.

Science.gov (United States)

Chiu, Shih-Hao; Urban, Pawel L

2015-02-15

Mass spectrometry (MS) is an important analytical technique with numerous applications in clinical analysis, biochemistry, environmental analysis, geology and physics. Its success builds on the ability of MS to determine molecular weights of analytes, and elucidate their structures. However, sample handling prior to MS requires a lot of attention and labor. In this work we were aiming to automate processing samples for MS so that analyses could be conducted without much supervision of experienced analysts. The goal of this study was to develop a robotics and information technology-oriented platform that could control the whole analysis process including sample delivery, reaction-based assay, data acquisition, and interaction with the analyst. The proposed platform incorporates a robotic arm for handling sample vials delivered to the laboratory, and several auxiliary devices which facilitate and secure the analysis process. They include: multi-relay board, infrared sensors, photo-interrupters, gyroscopes, force sensors, fingerprint scanner, barcode scanner, touch screen panel, and internet interface. The control of all the building blocks is achieved through implementation of open-source electronics (Arduino), and enabled by custom-written programs in C language. The advantages of the proposed system include: low cost, simplicity, small size, as well as facile automation of sample delivery and processing without the intervention of the analyst. It is envisaged that this simple robotic system may be the forerunner of automated laboratories dedicated to mass spectrometric analysis of biological samples. Copyright © 2014 Elsevier B.V. All rights reserved.

Oil and gas platforms with steam bottoming cycles: System integration and thermoenvironomic evaluation

DEFF Research Database (Denmark)

Nguyen, Tuong-Van; Tock, Laurence; Breuhaus, Peter

2014-01-01

The integration of steam bottoming cycles on oil and gas platforms is currently regarded as the most promising option for improving the performance of these energy-intensive systems. In this paper, a North Sea platform is taken as case study, and a systematic analysis of its energy requirements...... cooling utility, and (iv) the weight limitations on the platform are quantitatively assessed. The results illustrate the benefits of converting the gas turbine process into a combined cycle, since the fuel gas consumption and the total CO2-emissions can be reduced by more than 15 %. Using the cooling...... water from the processing plant reveals to be more profitable than using seawater, as the additional pumping power outweighs the benefit of using a cooling medium at a temperature of about 8 °C lower. This study highlights thereby the importance of analysing energy savings and recovery options...

Gene ARMADA: an integrated multi-analysis platform for microarray data implemented in MATLAB.

Science.gov (United States)

Chatziioannou, Aristotelis; Moulos, Panagiotis; Kolisis, Fragiskos N

2009-10-27

The microarray data analysis realm is ever growing through the development of various tools, open source and commercial. However there is absence of predefined rational algorithmic analysis workflows or batch standardized processing to incorporate all steps, from raw data import up to the derivation of significantly differentially expressed gene lists. This absence obfuscates the analytical procedure and obstructs the massive comparative processing of genomic microarray datasets. Moreover, the solutions provided, heavily depend on the programming skills of the user, whereas in the case of GUI embedded solutions, they do not provide direct support of various raw image analysis formats or a versatile and simultaneously flexible combination of signal processing methods. We describe here Gene ARMADA (Automated Robust MicroArray Data Analysis), a MATLAB implemented platform with a Graphical User Interface. This suite integrates all steps of microarray data analysis including automated data import, noise correction and filtering, normalization, statistical selection of differentially expressed genes, clustering, classification and annotation. In its current version, Gene ARMADA fully supports 2 coloured cDNA and Affymetrix oligonucleotide arrays, plus custom arrays for which experimental details are given in tabular form (Excel spreadsheet, comma separated values, tab-delimited text formats). It also supports the analysis of already processed results through its versatile import editor. Besides being fully automated, Gene ARMADA incorporates numerous functionalities of the Statistics and Bioinformatics Toolboxes of MATLAB. In addition, it provides numerous visualization and exploration tools plus customizable export data formats for seamless integration by other analysis tools or MATLAB, for further processing. Gene ARMADA requires MATLAB 7.4 (R2007a) or higher and is also distributed as a stand-alone application with MATLAB Component Runtime. Gene ARMADA provides a

A Lightweight Web of Things Open Platform to Facilitate Context Data Management and Personalized Healthcare Services Creation

Directory of Open Access Journals (Sweden)

Iván Corredor

2014-04-01

Full Text Available In the last few years, many health monitoring systems have been designed to fullfil the needs of a large range of scenarios. Although many of those systems provide good ad hoc solutions, most of them lack of mechanisms that allow them to be easily reused. This paper is focused on describing an open platform, the micro Web of Things Open Platform (µWoTOP, which has been conceived to improve the connectivity and reusability of context data to deliver different kinds of health, wellness and ambient home care services. µWoTOP is based on a resource-oriented architecture which may be embedded in mobile and resource constrained devices enabling access to biometric, ambient or activity sensors and actuator resources through uniform interfaces defined according to a RESTful fashion. Additionally, µWoTOP manages two communication modes which allow delivering user context information according to different methods, depending on the requirements of the consumer application. It also generates alert messages based on standards related to health care and risk management, such as the Common Alerting Protocol, in order to make its outputs compatible with existing systems.

THE TSUNAMI SERVICE BUS, AN INTEGRATION PLATFORM FOR HETEROGENEOUS SENSOR SYSTEMS

Science.gov (United States)

Fleischer, J.; Häner, R.; Herrnkind, S.; Kriegel, U.; Schwarting, H.; Wächter, J.

2009-12-01

The Tsunami Service Bus (TSB) is the sensor integration platform of the German Indonesian Tsunami Early Warning System (GITEWS) [1]. The primary goal of GITEWS is to deliver reliable tsunami warnings as fast as possible. This is achieved on basis of various sensor systems like seismometers, ocean instrumentation, and GPS stations, all providing fundamental data to support prediction of tsunami wave propagation by the GITEWS warning center. However, all these sensors come with their own proprietary data formats and specific behavior. Also new sensor types might be added, old sensors will be replaced. To keep GITEWS flexible the TSB was developed in order to access and control sensors in a uniform way. To meet these requirements the TSB follows the architectural blueprint of a Service Oriented Architecture (SOA). The integration platform implements dedicated services communicating via a service infrastructure. The functionality required for early warnings is provided by loosely coupled services replacing the "hard-wired" coupling at data level. Changes in the sensor specification are confined to the data level without affecting the warning center. Great emphasis was laid on following the Sensor Web Enablement (SWE) standard [2], specified by the Open Geospatial Consortium (OGC) [3]. As a result the full functionality needed in GITEWS could be achieved by implementing the four SWE services: The Sensor Observation Service for retrieving sensor measurements, the Sensor Alert Service in order to deliver sensor alerts, the Sensor Planning Service for tasking sensors, and the Web Notification Service for conduction messages to various media channels. Beyond these services the TSB also follows SWE Observation & Measurements specifications (O&M) for data encoding and Sensor Model Language (SensorML) for meta information. Moreover, accessing sensors via the TSB is not restricted to GITEWS. Multiple instances of the TSB can be composed to realize federate warning system

Integrated vehicle-based safety systems (IVBSS) : light vehicle platform field operational test data analysis plan.

Science.gov (United States)

2009-12-22

This document presents the University of Michigan Transportation Research Institutes plan to : perform analysis of data collected from the light vehicle platform field operational test of the : Integrated Vehicle-Based Safety Systems (IVBSS) progr...

Integrated vehicle-based safety systems (IVBSS) : heavy truck platform field operational test data analysis plan.

Science.gov (United States)

2009-11-23

This document presents the University of Michigan Transportation Research Institutes plan to perform : analysis of data collected from the heavy truck platform field operational test of the Integrated Vehicle- : Based Safety Systems (IVBSS) progra...

The ImageJ ecosystem: An open platform for biomedical image analysis.

Science.gov (United States)

Schindelin, Johannes; Rueden, Curtis T; Hiner, Mark C; Eliceiri, Kevin W

2015-01-01

Technology in microscopy advances rapidly, enabling increasingly affordable, faster, and more precise quantitative biomedical imaging, which necessitates correspondingly more-advanced image processing and analysis techniques. A wide range of software is available-from commercial to academic, special-purpose to Swiss army knife, small to large-but a key characteristic of software that is suitable for scientific inquiry is its accessibility. Open-source software is ideal for scientific endeavors because it can be freely inspected, modified, and redistributed; in particular, the open-software platform ImageJ has had a huge impact on the life sciences, and continues to do so. From its inception, ImageJ has grown significantly due largely to being freely available and its vibrant and helpful user community. Scientists as diverse as interested hobbyists, technical assistants, students, scientific staff, and advanced biology researchers use ImageJ on a daily basis, and exchange knowledge via its dedicated mailing list. Uses of ImageJ range from data visualization and teaching to advanced image processing and statistical analysis. The software's extensibility continues to attract biologists at all career stages as well as computer scientists who wish to effectively implement specific image-processing algorithms. In this review, we use the ImageJ project as a case study of how open-source software fosters its suites of software tools, making multitudes of image-analysis technology easily accessible to the scientific community. We specifically explore what makes ImageJ so popular, how it impacts the life sciences, how it inspires other projects, and how it is self-influenced by coevolving projects within the ImageJ ecosystem. © 2015 Wiley Periodicals, Inc.

VOLTTRON Lite: Integration Platform for the Transactional Network

Energy Technology Data Exchange (ETDEWEB)

Haack, Jereme N.; Katipamula, Srinivas; Akyol, Bora A.; Lutes, Robert G.

2013-10-31

In FY13, Pacific Northwest National Laboratory (PNNL) with funding from the Department of Energy’s (DOE’s) Building Technologies Office (BTO) designed, prototyped and tested a transactional network platform. The platform is intended to support energy, operational and financial transactions between any networked entities (equipment, organizations, buildings, grid, etc.). Initially, in FY13, the concept demonstrated transactions between packaged rooftop units (RTUs) and the electric grid using applications or “agents” that reside on the platform, on the equipment, on local building controller or in the Cloud. This document describes the core of the transactional network platform, the Volttron Lite™ software and associated services hosted on the platform. Future enhancements are also discussed. The appendix of the document provides examples of how to use the various services hosted on the platform.

Virtuelt skrivebord med open office

DEFF Research Database (Denmark)

Nielsen, Kurt Gammelgaard

2009-01-01

SDUs erfaringer med projektet Port 22: en virtuel platform med Open Office som kontorpakke til studerende.......SDUs erfaringer med projektet Port 22: en virtuel platform med Open Office som kontorpakke til studerende....

An Open Platform for Full Body Interactive Sonification Exergames

Directory of Open Access Journals (Sweden)

Simone Ghisio

2015-08-01

Full Text Available This paper addresses the use of a remote interactive platform to support home-based rehabilitation for children with motor and cognitive impairment. The interaction between user and platform is achieved on customizable full-body interactive serious games (exergames. These exergames perform real-time analysis of multimodal signals to quantify movement qualities and postural attitudes. Interactive sonification of movement is then applied for providing a real-time feedback based on “aesthetic resonance” and engagement of the children. The games also provide log file recordings therapists can use to assess the performance of the children and the effectiveness of the games. The platform allows the customization of the games to address the children’s needs. The platform is based on the EyesWeb XMI software, and the games are designed for home usage, based on Kinect for Xbox One and simple sensors including 3-axis accelerometers available in low-cost Android smartphones.

Power System and Energy Storage Models for Laser Integration on Naval Platforms

Science.gov (United States)

2015-09-30

Power System and Energy Storage Models for Laser Integration on Naval Platforms A.L. Gattozzi, J.D. Herbst, R.E. Hebner Center for... Electromechanics , University of Texas Austin, Texas a.gattozzi@cem.utexas.edu J.A. Blau, K.R. Cohn, W.B. Colson, J.E. Sylvester, M.A. Woehrman Physics...emerging technologies present significant challenges to the electric power distribution and thermal management systems, particularly for

Integration of nanostructured materials with MEMS microhotplate platforms to enhance chemical sensor performance

International Nuclear Information System (INIS)

Benkstein, Kurt D.; Martinez, Carlos J.; Li, Guofeng; Meier, Douglas C.; Montgomery, Christopher B.; Semancik, Steve

2006-01-01

The development of miniaturized chemical sensors is an increasingly active area of research. Such devices, particularly when they feature low mass and low power budgets, can impact a broad range of applications including industrial process monitoring, building security and extraterrestrial exploration. Nanostructured materials, because of their high surface area, can provide critical enhancements in the performance of chemical microsensors. We have worked to integrate nanomaterial films with MEMS (microelectromechanical systems) microhotplate platforms developed at the National Institute of Standards and Technology in order to gain the benefits of both the materials and the platforms in high-performance chemical sensor arrays. Here, we describe our success in overcoming the challenges of integration and the benefits that we have achieved with regard to the critical sensor performance characteristics of sensor response, speed, stability and selectivity. Nanostructured metal oxide sensing films were locally deposited onto microhotplates via chemical vapor deposition and microcapillary pipetting, and conductive polymer nanoparticle films were deposited via electrophoretic patterning. All films were characterized by scanning electron microscopy and evaluated as conductometric gas sensors

Integrable open spin chain in Super Yang-Mills and the plane-wave/SYM duality

International Nuclear Information System (INIS)

Chen Bin; Wang Xiaojun; Wu Yongshi

2004-01-01

We investigate the integrable structures in an N = 2 superconfomal Sp(N) Yang-Mills theory with matter, which is dual to an open+closed string system. We restrict ourselves to the BMN operators that correspond to free string states. In the closed string sector, an integrable structure is inherited from its parent theory, N = 4 SYM. For the open string sector, the planar one-loop mixing matrix for gauge invariant holomorphic operators is identified with the Hamiltonian of an integrable SU(3) open spin chain. Using the K-matrix formalism we identify the integrable open-chain boundary conditions that correspond to string boundary conditions. The solutions to the algebraic Bethe ansatz equations (ABAE) with a few impurities are shown to recover the anomalous dimensions that exactly match the spectrum of free open string in the plane-wave background. We also discuss the properties of the solutions of ABAE beyond the BMN regime. (author)

The BWS Open Business Enterprise System Architecture

Directory of Open Access Journals (Sweden)

Cristian IONITA

2011-01-01

Full Text Available Business process management systems play a central role in supporting the business operations of medium and large organizations. This paper analyses the properties current business enterprise systems and proposes a new application type called Open Business Enterprise System. A new open system architecture called Business Workflow System is proposed. This architecture combines the instruments for flexible data management, business process management and integration into a flexible system able to manage modern business operations. The architecture was validated by implementing it into the DocuMentor platform used by major companies in Romania and US. These implementations offered the necessary data to create and refine an enterprise integration methodology called DMCPI. The final section of the paper presents the concepts, stages and techniques employed by the methodology.

Monolithic photonic integration technology platform and devices at wavelengths beyond 2 μm for gas spectroscopy applications

NARCIS (Netherlands)

Latkowski, S.; van Veldhoven, P.J.; Hänsel, A.; D'Agostino, D.; Rabbani-Haghighi, H.; Docter, B.; Bhattacharya, N.; Thijs, P.J.A.; Ambrosius, H.P.M.M.; Smit, M.K.; Williams, K.A.; Bente, E.A.J.M.

2017-01-01

In this paper a generic monolithic photonic integration technology platform and tunable laser devices for gas sensing applications at 2 μm will be presented. The basic set of long wavelength optical functions which is fundamental for a generic photonic integration approach is realized using planar,

Paper-based electrochemical sensing platform with integral battery and electrochromic read-out.

Science.gov (United States)

Liu, Hong; Crooks, Richard M

2012-03-06

We report a battery-powered, microelectrochemical sensing platform that reports its output using an electrochromic display. The platform is fabricated based on paper fluidics and uses a Prussian blue spot electrodeposited on an indium-doped tin oxide thin film as the electrochromic indicator. The integrated metal/air battery powers both the electrochemical sensor and the electrochromic read-out, which are in electrical contact via a paper reservoir. The sample activates the battery and the presence of analyte in the sample initiates the color change of the Prussian blue spot. The entire system is assembled on the lab bench, without the need for cleanroom facilities. The applicability of the device to point-of-care sensing is demonstrated by qualitative detection of 0.1 mM glucose and H(2)O(2) in artificial urine samples.

OpenMSI: A High-Performance Web-Based Platform for Mass Spectrometry Imaging

Energy Technology Data Exchange (ETDEWEB)

Rubel, Oliver; Greiner, Annette; Cholia, Shreyas; Louie, Katherine; Bethel, E. Wes; Northen, Trent R.; Bowen, Benjamin P.

2013-10-02

Mass spectrometry imaging (MSI) enables researchers to directly probe endogenous molecules directly within the architecture of the biological matrix. Unfortunately, efficient access, management, and analysis of the data generated by MSI approaches remain major challenges to this rapidly developing field. Despite the availability of numerous dedicated file formats and software packages, it is a widely held viewpoint that the biggest challenge is simply opening, sharing, and analyzing a file without loss of information. Here we present OpenMSI, a software framework and platform that addresses these challenges via an advanced, high-performance, extensible file format and Web API for remote data access (http://openmsi.nersc.gov). The OpenMSI file format supports storage of raw MSI data, metadata, and derived analyses in a single, self-describing format based on HDF5 and is supported by a large range of analysis software (e.g., Matlab and R) and programming languages (e.g., C++, Fortran, and Python). Careful optimization of the storage layout of MSI data sets using chunking, compression, and data replication accelerates common, selective data access operations while minimizing data storage requirements and are critical enablers of rapid data I/O. The OpenMSI file format has shown to provide >2000-fold improvement for image access operations, enabling spectrum and image retrieval in less than 0.3 s across the Internet even for 50 GB MSI data sets. To make remote high-performance compute resources accessible for analysis and to facilitate data sharing and collaboration, we describe an easy-to-use yet powerful Web API, enabling fast and convenient access to MSI data, metadata, and derived analysis results stored remotely to facilitate high-performance data analysis and enable implementation of Web based data sharing, visualization, and analysis.

EPOS Thematic Core Service ANTHROPOGENIC HAZARDS (TCS AH) - development of e-research platform

Science.gov (United States)

Orlecka-Sikora, Beata

2017-04-01

TCS AH is based on IS-EPOS Platform. The Platform facilitates research on anthropogenic hazards and is available online, free of charge https://tcs.ah-epos.eu/. The Platform is a final product of the IS-EPOS project, founded by the national programme - POIG - which was implemented in 2013-2015 (POIG.02.03.00-14-090/13-00). The platform is a result of a joint work of scientific community and industrial partners. Currently, the development of TCS AH is carried under EPOS IP project (H2020-INFRADEV-1-2015-1, INFRADEV-3-2015). Platform is an open virtual access point for researchers and Ph. D. students interested in anthropogenic seismicity and related hazards. This environment is designed to ensure a researcher the maximum possible liberty for experimentation by providing a virtual laboratory, in which the researcher can design own processing streams and process the data integrated on the platform. TCS AH integrates: data and specific high-level services. Data gathered in the so-called "episodes", comprehensively describing a geophysical process, induced or triggered by human technological activity, which, under certain circumstances can become hazardous for people, infrastructure and the environment. 7 sets of seismic, geological and technological data were made available on the Platform. The data come from Poland, Germany, UK and Vietnam, and refer to underground mining, reservoir impoundment, shale gas exploitation and geothermal energy production. The next at least 19 new episodes related to conventional hydrocarbon extraction, reservoir treatment, underground mining and geothermal energy production are being integrated within the framework of EPOS IP project. The heterogeneous multi-disciplinary data (seismic, displacement, geomechanical data, production data etc.) are transformed to unified structures to form integrated and validated datasets. To deal with this various data the problem-oriented services were designed and implemented. The particular attention

SERVIR-Africa: Developing an Integrated Platform for Floods Disaster Management in Africa

Science.gov (United States)

Macharia, Daniel; Korme, Tesfaye; Policelli, Fritz; Irwin, Dan; Adler, Bob; Hong, Yang

2010-01-01

SERVIR-Africa is an ambitious regional visualization and monitoring system that integrates remotely sensed data with predictive models and field-based data to monitor ecological processes and respond to natural disasters. It aims addressing societal benefits including floods and turning data into actionable information for decision-makers. Floods are exogenous disasters that affect many parts of Africa, probably second only to drought in terms of social-economic losses. This paper looks at SERVIR-Africa's approach to floods disaster management through establishment of an integrated platform, floods prediction models, post-event flood mapping and monitoring as well as flood maps dissemination in support of flood disaster management.

Using a blog as an integrated eLearning tool and platform.

Science.gov (United States)

Goh, Poh Sun

2016-06-01

Technology enhanced learning or eLearning allows educators to expand access to educational content, promotes engagement with students and makes it easier for students to access educational material at a time, place and pace which suits them. The challenge for educators beginning their eLearning journey is to decide where to start, which includes the choice of an eLearning tool and platform. This article will share one educator's decision making process, and experience using blogs as a flexible and versatile integrated eLearning tool and platform. Apart from being a cost effective/free tool and platform, blogs offer the possibility of creating a hyperlinked indexed content repository, for both created and curated educational material; as well as a distribution and engagement tool and platform. Incorporating pedagogically sound activities and educational practices into a blog promote a structured templated teaching process, which can be reproduced. Moving from undergraduate to postgraduate training, educational blogs supported by a comprehensive online case-based repository offer the possibility of training beyond competency towards proficiency and expert level performance through a process of deliberate practice. By documenting educational content and the student engagement and learning process, as well as feedback and personal reflection of educational sessions, blogs can also form the basis for a teaching portfolio, and provide evidence and data of scholarly teaching and educational scholarship. Looking into the future, having a collection of readily accessible indexed hyperlinked teaching material offers the potential to do on the spot teaching with illustrative material called up onto smart surfaces, and displayed on holographic interfaces.

A Ubiquitous Sensor Network Platform for Integrating Smart Devices into the Semantic Sensor Web

Science.gov (United States)

de Vera, David Díaz Pardo; Izquierdo, Álvaro Sigüenza; Vercher, Jesús Bernat; Gómez, Luis Alfonso Hernández

2014-01-01

Ongoing Sensor Web developments make a growing amount of heterogeneous sensor data available to smart devices. This is generating an increasing demand for homogeneous mechanisms to access, publish and share real-world information. This paper discusses, first, an architectural solution based on Next Generation Networks: a pilot Telco Ubiquitous Sensor Network (USN) Platform that embeds several OGC® Sensor Web services. This platform has already been deployed in large scale projects. Second, the USN-Platform is extended to explore a first approach to Semantic Sensor Web principles and technologies, so that smart devices can access Sensor Web data, allowing them also to share richer (semantically interpreted) information. An experimental scenario is presented: a smart car that consumes and produces real-world information which is integrated into the Semantic Sensor Web through a Telco USN-Platform. Performance tests revealed that observation publishing times with our experimental system were well within limits compatible with the adequate operation of smart safety assistance systems in vehicles. On the other hand, response times for complex queries on large repositories may be inappropriate for rapid reaction needs. PMID:24945678

Adaptation of a web-based, open source electronic medical record system platform to support a large study of tuberculosis epidemiology

Directory of Open Access Journals (Sweden)

Fraser Hamish SF

2012-11-01

Full Text Available Abstract Background In 2006, we were funded by the US National Institutes of Health to implement a study of tuberculosis epidemiology in Peru. The study required a secure information system to manage data from a target goal of 16,000 subjects who needed to be followed for at least one year. With previous experience in the development and deployment of web-based medical record systems for TB treatment in Peru, we chose to use the OpenMRS open source electronic medical record system platform to develop the study information system. Supported by a core technical and management team and a large and growing worldwide community, OpenMRS is now being used in more than 40 developing countries. We adapted the OpenMRS platform to better support foreign languages. We added a new module to support double data entry, linkage to an existing laboratory information system, automatic upload of GPS data from handheld devices, and better security and auditing of data changes. We added new reports for study managers, and developed data extraction tools for research staff and statisticians. Further adaptation to handle direct entry of laboratory data occurred after the study was launched. Results Data collection in the OpenMRS system began in September 2009. By August 2011 a total of 9,256 participants had been enrolled, 102,274 forms and 13,829 laboratory results had been entered, and there were 208 users. The system is now entirely supported by the Peruvian study staff and programmers. Conclusions The information system served the study objectives well despite requiring some significant adaptations mid-stream. OpenMRS has more tools and capabilities than it did in 2008, and requires less adaptations for future projects. OpenMRS can be an effective research data system in resource poor environments, especially for organizations using or considering it for clinical care as well as research.

Integration Platform As Central Service Of Data Replication In Distributed Medical System

Directory of Open Access Journals (Sweden)

Wiesław Wajs

2007-01-01

Full Text Available The paper presents the application of Java Integration Platform (JIP to data replicationin the distributed medical system. After an introductory part on the medical system’s architecture,the focus shifts to a comparison of different approaches that exist with regard totransferring data between the system’s components. A description is given of the historicaldata processing and of the whole area of the JIP application to the medical system.

Open Government Partnership as a Platform for Advancing Open Education Policy

Science.gov (United States)

Gondol, Jan; Allen, Nicole

2015-01-01

An exciting new avenue for establishing and expanding national commitments to open education has emerged through the Open Government Partnership (OGP), a multilateral initiative that aims to secure commitments from governments to make their governance more open, accountable and responsive to citizens. In the past, there has not been a strong link…

HARVESTING, INTEGRATING AND DISTRIBUTING LARGE OPEN GEOSPATIAL DATASETS USING FREE AND OPEN-SOURCE SOFTWARE

Directory of Open Access Journals (Sweden)

R. Oliveira

2016-06-01

Full Text Available Federal, State and Local government agencies in the USA are investing heavily on the dissemination of Open Data sets produced by each of them. The main driver behind this thrust is to increase agencies’ transparency and accountability, as well as to improve citizens’ awareness. However, not all Open Data sets are easy to access and integrate with other Open Data sets available even from the same agency. The City and County of Denver Open Data Portal distributes several types of geospatial datasets, one of them is the city parcels information containing 224,256 records. Although this data layer contains many pieces of information it is incomplete for some custom purposes. Open-Source Software were used to first collect data from diverse City of Denver Open Data sets, then upload them to a repository in the Cloud where they were processed using a PostgreSQL installation on the Cloud and Python scripts. Our method was able to extract non-spatial information from a ‘not-ready-to-download’ source that could then be combined with the initial data set to enhance its potential use.

Transient flow analysis of integrated valve opening process

Energy Technology Data Exchange (ETDEWEB)

Sun, Xinming; Qin, Benke; Bo, Hanliang, E-mail: bohl@tsinghua.edu.cn; Xu, Xingxing

2017-03-15

Highlights: • The control rod hydraulic driving system (CRHDS) is a new type of built-in control rod drive technology and the integrated valve (IV) is the key control component. • The transient flow experiment induced by IV is conducted and the test results are analyzed to get its working mechanism. • The theoretical model of IV opening process is established and applied to get the changing rule of the transient flow characteristic parameters. - Abstract: The control rod hydraulic driving system (CRHDS) is a new type of built-in control rod drive technology and the IV is the key control component. The working principle of integrated valve (IV) is analyzed and the IV hydraulic experiment is conducted. There is transient flow phenomenon in the valve opening process. The theoretical model of IV opening process is established by the loop system control equations and boundary conditions. The valve opening boundary condition equation is established based on the IV three dimensional flow field analysis results and the dynamic analysis of the valve core movement. The model calculation results are in good agreement with the experimental results. On this basis, the model is used to analyze the transient flow under high temperature condition. The peak pressure head is consistent with the one under room temperature and the pressure fluctuation period is longer than the one under room temperature. Furthermore, the changing rule of pressure transients with the fluid and loop structure parameters is analyzed. The peak pressure increases with the flow rate and the peak pressure decreases with the increase of the valve opening time. The pressure fluctuation period increases with the loop pipe length and the fluctuation amplitude remains largely unchanged under different equilibrium pressure conditions. The research results lay the base for the vibration reduction analysis of the CRHDS.

Integrated nanophotonic frequency shifter on the silicon-organic hybrid (SOH) platform for laser vibrometry

International Nuclear Information System (INIS)

Lauermann, M.; Weimann, C.; Palmer, R.; Schindler, P. C.; Koeber, S.; Freude, W.; Koos, C.; Rembe, C.

2014-01-01

We demonstrate a waveguide-based frequency shifter on the silicon photonic platform, enabling frequency shifts up to 10 GHz. The device is realized by silicon-organic hybrid (SOH) integration. Temporal shaping of the drive signal allows the suppression of spurious side-modes by more than 23 dB

Integrated nanophotonic frequency shifter on the silicon-organic hybrid (SOH) platform for laser vibrometry

Energy Technology Data Exchange (ETDEWEB)

Lauermann, M.; Weimann, C.; Palmer, R.; Schindler, P. C. [Institute of Photonics and Quantum Electronics, Karlsruhe Institute of Technology, 76131 Karlsruhe (Germany); Koeber, S.; Freude, W., E-mail: christian.koos@kit.edu; Koos, C., E-mail: christian.koos@kit.edu [Institute of Photonics and Quantum Electronics, Karlsruhe Institute of Technology, 76131 Karlsruhe, Germany and Institute of Microstructure Technology, Karlsruhe Institute of Technology, 76344 Eggenstein-Leopoldshafen (Germany); Rembe, C. [Polytec GmbH, 76337 Waldbronn (Germany)

2014-05-27

We demonstrate a waveguide-based frequency shifter on the silicon photonic platform, enabling frequency shifts up to 10 GHz. The device is realized by silicon-organic hybrid (SOH) integration. Temporal shaping of the drive signal allows the suppression of spurious side-modes by more than 23 dB.

InP-based photonic integrated circuit platform on SiC wafer.

Science.gov (United States)

Takenaka, Mitsuru; Takagi, Shinichi

2017-11-27

We have numerically investigated the properties of an InP-on-SiC wafer as a photonic integrated circuit (PIC) platform. By bonding a thin InP-based semiconductor on a SiC wafer, SiC can be used as waveguide cladding, a heat sink, and a support substrate simultaneously. Since the refractive index of SiC is sufficiently low, PICs can be fabricated using InP-based strip and rib waveguides with a minimum bend radius of approximately 7 μm. High-thermal-conductivity SiC underneath an InP-based waveguide core markedly improves heat dissipation, resulting in superior thermal properties of active devices such as laser diodes. The InP-on-SiC wafer has significantly smaller thermal stress than InP-on-SiO 2 /Si wafer, which prevents the thermal degradation of InP-based devices during high-temperature processes. Thus, InP on SiC provides an ideal platform for high-performance PICs.

Integrating open-source software applications to build molecular dynamics systems.

Science.gov (United States)

Allen, Bruce M; Predecki, Paul K; Kumosa, Maciej

2014-04-05

Three open-source applications, NanoEngineer-1, packmol, and mis2lmp are integrated using an open-source file format to quickly create molecular dynamics (MD) cells for simulation. The three software applications collectively make up the open-source software (OSS) suite known as MD Studio (MDS). The software is validated through software engineering practices and is verified through simulation of the diglycidyl ether of bisphenol-a and isophorone diamine (DGEBA/IPD) system. Multiple simulations are run using the MDS software to create MD cells, and the data generated are used to calculate density, bulk modulus, and glass transition temperature of the DGEBA/IPD system. Simulation results compare well with published experimental and numerical results. The MDS software prototype confirms that OSS applications can be analyzed against real-world research requirements and integrated to create a new capability. Copyright © 2014 Wiley Periodicals, Inc.

CAVAREV-an open platform for evaluating 3D and 4D cardiac vasculature reconstruction

International Nuclear Information System (INIS)

Rohkohl, Christopher; Hornegger, Joachim; Lauritsch, Guenter; Keil, Andreas

2010-01-01

The 3D reconstruction of cardiac vasculature, e.g. the coronary arteries, using C-arm CT (rotational angiography) is an active and challenging field of research. There are numerous publications on different reconstruction techniques. However, there is still a lack of comparability of achieved results for several reasons: foremost, datasets used in publications are not open to public and thus experiments are not reproducible by other researchers. Further, the results highly depend on the vasculature motion, i.e. cardiac and breathing motion patterns which are also not comparable across publications. We aim to close this gap by providing an open platform, called Cavarev (CArdiac VAsculature Reconstruction EValuation). It features two simulated dynamic projection datasets based on the 4D XCAT phantom with contrasted coronary arteries which was derived from patient data. In the first dataset, the vasculature undergoes a continuous periodic motion. The second dataset contains aperiodic heart motion by including additional breathing motion. The geometry calibration and acquisition protocol were obtained from a real-world C-arm system. For qualitative evaluation of the reconstruction results, the correlation of the morphology is used. Two segmentation-based quality measures are introduced which allow us to assess the 3D and 4D reconstruction quality. They are based on the spatial overlap of the vasculature reconstruction with the ground truth. The measures enable a comprehensive analysis and comparison of reconstruction results independent from the utilized reconstruction algorithm. An online platform (www.cavarev.com) is provided where the datasets can be downloaded, researchers can manage and publish algorithm results and download a reference C++ and Matlab implementation.

Forked and Integrated Variants In An Open-Source Firmware Project

DEFF Research Database (Denmark)

Stanciulescu, Stefan; Schulze, Sandro; Wasowski, Andrzej

2015-01-01

and interactive source management platforms such as Github. We study advantages and disadvantages of forking using the case of Marlin, an open source firmware for 3D printers. We find that many problems and advantages of cloning do translate to forking. Interestingly, the Marlin community uses both forking......Code cloning has been reported both on small (code fragments) and large (entire projects) scale. Cloning-in-the-large, or forking, is gaining ground as a reuse mechanism thanks to availability of better tools for maintaining forked project variants, hereunder distributed version control systems...

Research and Deployment a Hospital Open Software Platform for e-Health on the Grid System at VAST/IAMI

Science.gov (United States)

van Tuyet, Dao; Tuan, Ngo Anh; van Lang, Tran

Grid computing has been an increasing topic in recent years. It attracts the attention of many scientists from many fields. As a result, many Grid systems have been built for serving people's demands. At present, many tools for developing the Grid systems such as Globus, gLite, Unicore still developed incessantly. Especially, gLite - the Grid Middleware - was developed by the Europe Community scientific in recent years. Constant growth of Grid technology opened the way for new opportunities in term of information and data exchange in a secure and collaborative context. These new opportunities can be exploited to offer physicians new telemedicine services in order to improve their collaborative capacities. Our platform gives physicians an easy method to use telemedicine environment to manage and share patient's information (such as electronic medical record, images formatted DICOM) between remote locations. This paper presents the Grid Infrastructure based on gLite; some main components of gLite; the challenge scenario in which new applications can be developed to improve collaborative work between scientists; the process of deploying Hospital Open software Platform for E-health (HOPE) on the Grid.

Titanium dioxide nanowire sensor array integration on CMOS platform using deterministic assembly.

Science.gov (United States)

Gall, Oren Z; Zhong, Xiahua; Schulman, Daniel S; Kang, Myungkoo; Razavieh, Ali; Mayer, Theresa S

2017-06-30

Nanosensor arrays have recently received significant attention due to their utility in a wide range of applications, including gas sensing, fuel cells, internet of things, and portable health monitoring systems. Less attention has been given to the production of sensor platforms in the μW range for ultra-low power applications. Here, we discuss how to scale the nanosensor energy demand by developing a process for integration of nanowire sensing arrays on a monolithic CMOS chip. This work demonstrates an off-chip nanowire fabrication method; subsequently nanowires link to a fused SiO 2 substrate using electric-field assisted directed assembly. The nanowire resistances shown in this work have the highest resistance uniformity reported to date of 18%, which enables a practical roadmap towards the coupling of nanosensors to CMOS circuits and signal processing systems. The article also presents the utility of optimizing annealing conditions of the off-chip metal-oxides prior to CMOS integration to avoid limitations of thermal budget and process incompatibility. In the context of the platform demonstrated here, directed assembly is a powerful tool that can realize highly uniform, cross-reactive arrays of different types of metal-oxide nanosensors suited for gas discrimination and signal processing systems.

Proba-V Mission Exploitation Platform

Science.gov (United States)

Goor, Erwin; Dries, Jeroen

2017-04-01

be available as well soon. Users can make use of powerful Web based tools and can self-manage virtual machines to perform their work on the infrastructure at VITO with access to the complete data archive. To realise this, private cloud technology (openStack) is used and a distributed processing environment is built based on Hadoop. The Hadoop ecosystem offers a lot of technologies (Spark, Yarn, Accumulo, etc.) which we integrate with several open-source components (e.g. Geotrellis). The impact of this MEP on the user community will be high and will completely change the way of working with the data and hence open the large time series to a larger community of users. The presentation will address these benefits for the users and discuss on the technical challenges in implementing this MEP. Furthermore demonstrations will be done. Platform URL: https://proba-v-mep.esa.int/

Behavioral assessments of BTBR T+Itpr3tf/J mice by tests of object attention and elevated open platform: Implications for an animal model of psychiatric comorbidity in autism.

Science.gov (United States)

Chao, Owen Y; Yunger, Richelle; Yang, Yi-Mei

2018-07-16

Autism spectrum disorders (ASD) are diagnosed based on the behavioral criteria of impaired social interaction, defective communication and repetitive behaviors. Psychiatric comorbidities, such as anxiety and intellectual disability, are commonly present in ASD. The BTBR T+ Itpr3tf/J (BTBR) mice display a range of autistic phenotypes, yet whether this mouse model is appropriate to study psychiatric comorbidity in ASD remains unclear. We addressed this issue by subjecting the BTBR animals to three-chambered apparatus, open field, object attention test and elevated open platform. Compared to C57BL/6J control mice, the BTBR mice displayed hyperactivity in most of the tests. In the three-chamber assessment, they exhibited deficits in sociability. In the open field, more grooming and thigmotaxis and less rearing behaviors were observed. They also showed impaired object-based attention. On the elevated open platform, the BTBR animals stayed more to the edges than in the center of the platform. To further examine the properties of this test, naïve C57BL/6J mice were randomly administrated with saline or an anxiogenic substance, caffeine. The caffeine group demonstrated a similar behavioral pattern as the BTBR mice. When the saline group was re-exposed to the same platform, the time they stayed in the center substantially increased, likely due to reduced anxiety by habituation. These results indicate that the BTBR were more anxious than control mice on the open platform. Taken together, the BTBR strain exhibit emotional and cognitive impairments in addition to autistic behaviors, suggesting that they can be a valid model for ASD with psychiatric comorbidity. Copyright © 2018 Elsevier B.V. All rights reserved.

G-DOC Plus - an integrative bioinformatics platform for precision medicine.

Science.gov (United States)

Bhuvaneshwar, Krithika; Belouali, Anas; Singh, Varun; Johnson, Robert M; Song, Lei; Alaoui, Adil; Harris, Michael A; Clarke, Robert; Weiner, Louis M; Gusev, Yuriy; Madhavan, Subha

2016-04-30

G-DOC Plus is a data integration and bioinformatics platform that uses cloud computing and other advanced computational tools to handle a variety of biomedical BIG DATA including gene expression arrays, NGS and medical images so that they can be analyzed in the full context of other omics and clinical information. G-DOC Plus currently holds data from over 10,000 patients selected from private and public resources including Gene Expression Omnibus (GEO), The Cancer Genome Atlas (TCGA) and the recently added datasets from REpository for Molecular BRAin Neoplasia DaTa (REMBRANDT), caArray studies of lung and colon cancer, ImmPort and the 1000 genomes data sets. The system allows researchers to explore clinical-omic data one sample at a time, as a cohort of samples; or at the level of population, providing the user with a comprehensive view of the data. G-DOC Plus tools have been leveraged in cancer and non-cancer studies for hypothesis generation and validation; biomarker discovery and multi-omics analysis, to explore somatic mutations and cancer MRI images; as well as for training and graduate education in bioinformatics, data and computational sciences. Several of these use cases are described in this paper to demonstrate its multifaceted usability. G-DOC Plus can be used to support a variety of user groups in multiple domains to enable hypothesis generation for precision medicine research. The long-term vision of G-DOC Plus is to extend this translational bioinformatics platform to stay current with emerging omics technologies and analysis methods to continue supporting novel hypothesis generation, analysis and validation for integrative biomedical research. By integrating several aspects of the disease and exposing various data elements, such as outpatient lab workup, pathology, radiology, current treatments, molecular signatures and expected outcomes over a web interface, G-DOC Plus will continue to strengthen precision medicine research. G-DOC Plus is available

Open source integrated modeling environment Delta Shell

Science.gov (United States)

Donchyts, G.; Baart, F.; Jagers, B.; van Putten, H.

2012-04-01

In the last decade, integrated modelling has become a very popular topic in environmental modelling since it helps solving problems, which is difficult to model using a single model. However, managing complexity of integrated models and minimizing time required for their setup remains a challenging task. The integrated modelling environment Delta Shell simplifies this task. The software components of Delta Shell are easy to reuse separately from each other as well as a part of integrated environment that can run in a command-line or a graphical user interface mode. The most components of the Delta Shell are developed using C# programming language and include libraries used to define, save and visualize various scientific data structures as well as coupled model configurations. Here we present two examples showing how Delta Shell simplifies process of setting up integrated models from the end user and developer perspectives. The first example shows coupling of a rainfall-runoff, a river flow and a run-time control models. The second example shows how coastal morphological database integrates with the coastal morphological model (XBeach) and a custom nourishment designer. Delta Shell is also available as open-source software released under LGPL license and accessible via http://oss.deltares.nl.

Design and Analysis of a Compact Precision Positioning Platform Integrating Strain Gauges and the Piezoactuator

Directory of Open Access Journals (Sweden)

Shunguang Wan

2012-07-01

Full Text Available Miniaturization precision positioning platforms are needed for in situ nanomechanical test applications. This paper proposes a compact precision positioning platform integrating strain gauges and the piezoactuator. Effects of geometric parameters of two parallel plates on Von Mises stress distribution as well as static and dynamic characteristics of the platform were studied by the finite element method. Results of the calibration experiment indicate that the strain gauge sensor has good linearity and its sensitivity is about 0.0468 mV/μm. A closed-loop control system was established to solve the problem of nonlinearity of the platform. Experimental results demonstrate that for the displacement control process, both the displacement increasing portion and the decreasing portion have good linearity, verifying that the control system is available. The developed platform has a compact structure but can realize displacement measurement with the embedded strain gauges, which is useful for the closed-loop control and structure miniaturization of piezo devices. It has potential applications in nanoindentation and nanoscratch tests, especially in the field of in situ nanomechanical testing which requires compact structures.

Open chemistry: RESTful web APIs, JSON, NWChem and the modern web application.

Science.gov (United States)

Hanwell, Marcus D; de Jong, Wibe A; Harris, Christopher J

2017-10-30

An end-to-end platform for chemical science research has been developed that integrates data from computational and experimental approaches through a modern web-based interface. The platform offers an interactive visualization and analytics environment that functions well on mobile, laptop and desktop devices. It offers pragmatic solutions to ensure that large and complex data sets are more accessible. Existing desktop applications/frameworks were extended to integrate with high-performance computing resources, and offer command-line tools to automate interaction-connecting distributed teams to this software platform on their own terms. The platform was developed openly, and all source code hosted on the GitHub platform with automated deployment possible using Ansible coupled with standard Ubuntu-based machine images deployed to cloud machines. The platform is designed to enable teams to reap the benefits of the connected web-going beyond what conventional search and analytics platforms offer in this area. It also has the goal of offering federated instances, that can be customized to the sites/research performed. Data gets stored using JSON, extending upon previous approaches using XML, building structures that support computational chemistry calculations. These structures were developed to make it easy to process data across different languages, and send data to a JavaScript-based web client.

Integration of the TNXYZ computer program inside the platform Salome; Integracion del programa de computo TNXYZ dentro de la plataforma Salome

Energy Technology Data Exchange (ETDEWEB)

Chaparro V, F. J.

2014-07-01

The present work shows the procedure carried out to integrate the code TNXYZ as a calculation tool at the graphical simulation platform Salome. The TNXYZ code propose a numerical solution of the neutron transport equation, in several groups of energy, steady-state and three-dimensional geometry. In order to discretized the variables of the transport equation, the code uses the method of discrete ordinates for the angular variable, and a nodal method for the spatial dependence. The Salome platform is a graphical environment designed for building, editing and simulating mechanical models mainly focused on the industry and unlike other software, in order to form a complete scheme of pre and post processing of information, to integrate and control an external source code. Before the integration the in the Salome platform TNXYZ code was upgraded. TNXYZ was programmed in the 90s using Fortran 77 compiler; for this reason the code was adapted to the characteristics of the current Fortran compilers; in addition, with the intention of extracting partial results over the process sequence, the original structure of the program underwent a modularization process, i.e. the main program was divided into sections where the code performs major operations. This procedure is controlled by the information module (YACS) on Salome platform, and it could be useful for a subsequent coupling with thermal-hydraulics codes. Finally, with the help of the Monte Carlo code Serpent several study cases were defined in order to check the process of integration; the verification process consisted in performing a comparison of the results obtained with the code executed as stand-alone and after modernized, integrated and controlled by the Salome platform. (Author)

Open abdominal surgical training differences experienced by integrated vascular and general surgery residents.

Science.gov (United States)

Tanious, Adam; Wooster, Mathew; Jung, Andrew; Nelson, Peter R; Armstrong, Paul A; Shames, Murray L

2017-10-01

As the integrated vascular residency program reaches almost a decade of maturity, a common area of concern among trainees is the adequacy of open abdominal surgical training. It is our belief that although their overall exposure to open abdominal procedures has decreased, integrated vascular residents have an adequate and focused exposure to open aortic surgery during training. National operative case log data supplied by the Accreditation Council for Graduate Medical Education were compiled for both graduating integrated vascular surgery residents (IVSRs) and graduating categorical general surgery residents (GSRs) for the years 2012 to 2014. Mean total and open abdominal case numbers were compared between the IVSRs and GSRs, with more in-depth exploration into open abdominal procedures by organ system. Overall, the mean total 5-year case volume of IVSRs was 1168 compared with 980 for GSRs during the same time frame (P surgery, representing 57% of all open abdominal cases. GSRs completed an average of 116 open alimentary tract surgeries during their training. Open abdominal surgery represented an average of 7.1% of the total vascular case volume for the vascular residents, whereas open abdominal surgery represented 21% of a GSR's total surgical experience. IVSRs reported almost double the number of total cases during their training, with double chief-level cases. Sixty-five percent of open abdominal surgeries performed by IVSRs involved the aorta or its renovisceral branches. Whereas open abdominal surgery represented 7.1% of an IVSR's surgical training, GSRs had a far broader scope of open abdominal procedures, completing nearly double those of IVSRs. The differences in open abdominal procedures pertain to the differing diseases treated by GSRs and IVSRs. Copyright © 2017 Society for Vascular Surgery. Published by Elsevier Inc. All rights reserved.

INTEGRACIÓN DE TECNOLOGÍAS EN UNA PLATAFORMA J2EE DIRIGIDA POR MODELOS TECHNOLOGIES INTEGRATION IN A MODEL DRIVEN J2EE PLATFORM

Directory of Open Access Journals (Sweden)

David Colque C

2006-12-01

Full Text Available Este documento presenta una propuesta de cómo integrar adecuadamente diversas tecnologías de persistencia, de negocios y web en una plataforma J2EE. Esto involucra una arquitectura de múltiples capas, que considera para cada capa el uso de soluciones prácticas efectivas en el desarrollo de software, también se considera el uso del paradigma de desarrollo dirigido por modelos (MDA para facilitar su integración, implementado en el Framework Open Source AndroMDA, y el proceso de desarrollo propuesto por Larman. De este modo se pretende fortalecer el desarrollo orientado a objetos al incorporar una herramienta MDA que genera código a partir de los modelos de cada plataforma específica e incentivar el uso de modelos en el proceso de desarrollo del software, mejorando así la calidad del software, la portabilidad, la interoperabilidad y la reusabilidad, como también la independencia de las tecnologías usadas en cada capa.This work presents a proposal for integrating properly diverse technologies of persistence of business and Web in a J2EE platform. This involves an architecture of diverse layers, which considers the use of effective practical solutions for each layer in the development of the software. Also are considered the use of the Model Driven Architecture Paradigm, for facilitating integration performed in the Open Source AndroMDA Framework, and the development process proposed by Larman. This process is aimed at strengthening the development oriented to objects, when incorporating a MDA tool, which generates codes from the models of every specific platform; encouraging the use of models in the process of software development, improving the quality, the portability, the interoperability, as well as reusing the software, and also the self sufficiency of the technologies used in every layer.

Smart Cities Intelligence System (SMACiSYS) Integrating Sensor Web with Spatial Data Infrastructures (sensdi)

Science.gov (United States)

Bhattacharya, D.; Painho, M.

2017-09-01

The paper endeavours to enhance the Sensor Web with crucial geospatial analysis capabilities through integration with Spatial Data Infrastructure. The objective is development of automated smart cities intelligence system (SMACiSYS) with sensor-web access (SENSDI) utilizing geomatics for sustainable societies. There has been a need to develop automated integrated system to categorize events and issue information that reaches users directly. At present, no web-enabled information system exists which can disseminate messages after events evaluation in real time. Research work formalizes a notion of an integrated, independent, generalized, and automated geo-event analysing system making use of geo-spatial data under popular usage platform. Integrating Sensor Web With Spatial Data Infrastructures (SENSDI) aims to extend SDIs with sensor web enablement, converging geospatial and built infrastructure, and implement test cases with sensor data and SDI. The other benefit, conversely, is the expansion of spatial data infrastructure to utilize sensor web, dynamically and in real time for smart applications that smarter cities demand nowadays. Hence, SENSDI augments existing smart cities platforms utilizing sensor web and spatial information achieved by coupling pairs of otherwise disjoint interfaces and APIs formulated by Open Geospatial Consortium (OGC) keeping entire platform open access and open source. SENSDI is based on Geonode, QGIS and Java, that bind most of the functionalities of Internet, sensor web and nowadays Internet of Things superseding Internet of Sensors as well. In a nutshell, the project delivers a generalized real-time accessible and analysable platform for sensing the environment and mapping the captured information for optimal decision-making and societal benefit.

SMART CITIES INTELLIGENCE SYSTEM (SMACiSYS INTEGRATING SENSOR WEB WITH SPATIAL DATA INFRASTRUCTURES (SENSDI

Directory of Open Access Journals (Sweden)

D. Bhattacharya

2017-09-01

Full Text Available The paper endeavours to enhance the Sensor Web with crucial geospatial analysis capabilities through integration with Spatial Data Infrastructure. The objective is development of automated smart cities intelligence system (SMACiSYS with sensor-web access (SENSDI utilizing geomatics for sustainable societies. There has been a need to develop automated integrated system to categorize events and issue information that reaches users directly. At present, no web-enabled information system exists which can disseminate messages after events evaluation in real time. Research work formalizes a notion of an integrated, independent, generalized, and automated geo-event analysing system making use of geo-spatial data under popular usage platform. Integrating Sensor Web With Spatial Data Infrastructures (SENSDI aims to extend SDIs with sensor web enablement, converging geospatial and built infrastructure, and implement test cases with sensor data and SDI. The other benefit, conversely, is the expansion of spatial data infrastructure to utilize sensor web, dynamically and in real time for smart applications that smarter cities demand nowadays. Hence, SENSDI augments existing smart cities platforms utilizing sensor web and spatial information achieved by coupling pairs of otherwise disjoint interfaces and APIs formulated by Open Geospatial Consortium (OGC keeping entire platform open access and open source. SENSDI is based on Geonode, QGIS and Java, that bind most of the functionalities of Internet, sensor web and nowadays Internet of Things superseding Internet of Sensors as well. In a nutshell, the project delivers a generalized real-time accessible and analysable platform for sensing the environment and mapping the captured information for optimal decision-making and societal benefit.

Satisfaction, function and repair integrity after arthroscopic versus mini-open rotator cuff repair.

Science.gov (United States)

Barnes, L A Fink; Kim, H M; Caldwell, J-M; Buza, J; Ahmad, C S; Bigliani, L U; Levine, W N

2017-02-01

Advances in arthroscopic techniques for rotator cuff repair have made the mini-open approach less popular. However, the mini-open approach remains an important technique for repair for many surgeons. The aims of this study were to compare the integrity of the repair, the function of the shoulder and satisfaction post-operatively using these two techniques in patients aged > 50 years. We identified 22 patients treated with mini-open and 128 patients treated with arthroscopic rotator cuff repair of July 2007 and June 2011. The mean follow-up was two years (1 to 5). Outcome was assessed using the American Shoulder and Elbow Surgeons (ASES) and Simple Shoulder Test (SST) scores, and satisfaction. The integrity of the repair was assessed using ultrasonography. A power analysis ensured sufficient enrolment. There was no statistically significant difference between the age, function, satisfaction, or pain scores (p > 0.05) of the two groups. The integrity of the repair and the mean SST scores were significantly better in the mini-open group (91% of mini-open repairs were intact versus 60% of arthroscopic repairs, p = 0.023; mean SST score 10.9 (standard deviation (sd) 1.3) in the mini-open group; 8.9 (sd 3.5) in arthroscopic group; p = 0.003). The ASES scores were also higher in the mini-open group (mean ASES score 91.0 (sd 10.5) in mini-open group; mean 82.70 (sd 19.8) in the arthroscopic group; p = 0.048). The integrity of the repair and function of the shoulder were better after a mini-open repair than after arthroscopic repair of a rotator cuff tear in these patients. The functional difference did not translate into a difference in satisfaction. Mini-open rotator cuff repair remains a useful technique despite advances in arthroscopy. Cite this article: Bone Joint J 2017;99-B:245-9. ©2017 The British Editorial Society of Bone & Joint Surgery.

Platform Innovations and System Integration for Unmanned Air, Land and Sea Vehicles Symposium. Technical Evaluation Report

National Research Council Canada - National Science Library

Decuypere, Roland; Selegan, David

2007-01-01

...) of the Research and Technology Organization (RTO) of NATO organized a joint symposium on Platform Innovations and System Integration for Unmanned Air, Land and Sea Vehicles which met from 14-18 May 2007 in Florence Italy...

Cirip.Eu – An educational microblogging platform around objects 2.0

Directory of Open Access Journals (Sweden)

Carmen Holotescu

2013-03-01

Full Text Available In recent years, the most daring player in the social media arena proved to be the microblogging technology, the most energetic in this field being Twitter, raising the interest of the educational actors. A number of microblogging platforms dedicated to education were implemented, such as Edmodo, Plurk, Cirip.eu or Twiducate. In this context, the paper aims to provide an overall analysis of the microblogging platform Cirip.eu for educational directions such as: information and knowledge management, courses enhancement, delivering online courses, collaborative projects, communities of practice, hosting different workshops, conferences or scientific events, building e- portfolios, etc. Thus, the main aspects of the paper will regard the following: 1. The facilities offered by Cirip.eu recommend it as a modern and flexible mobile Social Learning Management System (mSLMS, integrating users' Personal Learning Environments; 2. How microblogging can be integrated with other Web2.0 technologies, and into the Open Educational Resources movement; 3. How the experience and the new pedagogical approach in using microblogging can be captured and formally represented as learning design objects; 4. How learning design objects can be shared, discussed, improved, reused on the microblogging platform.

SVIP-N 1.0: An integrated visualization platform for neutronics analysis

International Nuclear Information System (INIS)

Luo Yuetong; Long Pengcheng; Wu Guoyong; Zeng Qin; Hu Liqin; Zou Jun

2010-01-01

Post-processing is an important part of neutronics analysis, and SVIP-N 1.0 (scientific visualization integrated platform for neutronics analysis) is designed to ease post-processing of neutronics analysis through visualization technologies. Main capabilities of SVIP-N 1.0 include: (1) ability of manage neutronics analysis result; (2) ability to preprocess neutronics analysis result; (3) ability to visualization neutronics analysis result data in different way. The paper describes the system architecture and main features of SVIP-N, some advanced visualization used in SVIP-N 1.0 and some preliminary applications, such as ITER.

Open and reproducible global land use classification

Science.gov (United States)

Nüst, Daniel; Václavík, Tomáš; Pross, Benjamin

2015-04-01

Researchers led by the Helmholtz Centre for Environmental research (UFZ) developed a new world map of land use systems based on over 30 diverse indicators (http://geoportal.glues.geo.tu-dresden.de/stories/landsystemarchetypes.html) of land use intensity, climate and environmental and socioeconomic factors. They identified twelve land system archetypes (LSA) using a data-driven classification algorithm (self-organizing maps) to assess global impacts of land use on the environment, and found unexpected similarities across global regions. We present how the algorithm behind this analysis can be published as an executable web process using 52°North WPS4R (https://wiki.52north.org/bin/view/Geostatistics/WPS4R) within the GLUES project (http://modul-a.nachhaltiges-landmanagement.de/en/scientific-coordination-glues/). WPS4R is an open source collaboration platform for researchers, analysts and software developers to publish R scripts (http://www.r-project.org/) as a geo-enabled OGC Web Processing Service (WPS) process. The interoperable interface to call the geoprocess allows both reproducibility of the analysis and integration of user data without knowledge about web services or classification algorithms. The open platform allows everybody to replicate the analysis in their own environments. The LSA WPS process has several input parameters, which can be changed via a simple web interface. The input parameters are used to configure both the WPS environment and the LSA algorithm itself. The encapsulation as a web process allows integration of non-public datasets, while at the same time the publication requires a well-defined documentation of the analysis. We demonstrate this platform specifically to domain scientists and show how reproducibility and open source publication of analyses can be enhanced. We also discuss future extensions of the reproducible land use classification, such as the possibility for users to enter their own areas of interest to the system and

Minilaparoscopic hysterectomy made easy: first report on alternative instrumentation and new integrated energy platform.

Science.gov (United States)

Ng, Ying Woo; Lim, Li Min; Fong, Yoke Fai

2014-05-01

Minilaparoscopy is an attractive approach for hysterectomy due to advantages such as reduced morbidities and enhanced cosmesis. However, it has not been popularized due to the lack of suitable instruments and high technical demand. We aim to highlight the first case of minilaparoscopic hysterectomy reported in Asia and the use of a new integrated energy platform, Thunderbeat. We would like to propose an alternative method of instrumentation, so as to improve the feasibility and safety of minilaparoscopic hysterectomy. The first minilaparoscopic hysterectomy in Singapore was successfully completed using the alternative instrumentation and new energy platform. There was no conversion or complication during the surgery. The patient recovered uneventfully. To our knowledge, this is the first report on the use of such alternative instrumentation. This approach in instrumentation and the new energy platform will improve the feasibility and speed of the surgery and ensure safety in our patients. © 2014 The Authors. Journal of Obstetrics and Gynaecology Research © 2014 Japan Society of Obstetrics and Gynecology.

Instrumentino: An Open-Source Software for Scientific Instruments

OpenAIRE

Koenka, Israel Joel; Sáiz, Jorge; Hauser, Peter C.

2015-01-01

Scientists often need to build dedicated computer-controlled experimental systems. For this purpose, it is becoming common to employ open-source microcontroller platforms, such as the Arduino. These boards and associated integrated software development environments provide affordable yet powerful solutions for the implementation of hardware control of transducers and acquisition of signals from detectors and sensors. It is, however, a challenge to write programs that allow interactive use of ...

Open source posturography.

Science.gov (United States)

Rey-Martinez, Jorge; Pérez-Fernández, Nicolás

2016-12-01

The proposed validation goal of 0.9 in intra-class correlation coefficient was reached with the results of this study. With the obtained results we consider that the developed software (RombergLab) is a validated balance assessment software. The reliability of this software is dependent of the used force platform technical specifications. Develop and validate a posturography software and share its source code in open source terms. Prospective non-randomized validation study: 20 consecutive adults underwent two balance assessment tests, six condition posturography was performed using a clinical approved software and force platform and the same conditions were measured using the new developed open source software using a low cost force platform. Intra-class correlation index of the sway area obtained from the center of pressure variations in both devices for the six conditions was the main variable used for validation. Excellent concordance between RombergLab and clinical approved force platform was obtained (intra-class correlation coefficient =0.94). A Bland and Altman graphic concordance plot was also obtained. The source code used to develop RombergLab was published in open source terms.

A commercial real-time manufacturing integration platform for the new control system on FTU

International Nuclear Information System (INIS)

Panella, M.; Bertocchi, A.; Bozzolan, V.; Buceti, G.; Centioli, C.; Imparato, A.; Mazza, G.; Torelli, C.; Vitale, V.

1999-01-01

In 1994 a working group was set up in Frascati to investigate how to build up a new control system for FTU (Frascati tokamak upgrade) considering the evolution in the information technology. Strong emphasis was placed on the use of standard solutions (be they de-facto or de-jure) and commercial platforms where-ever possible. This paper describes our operational experience with the new control system based on the commercial DEC BASEstar family of products. BASEstar is based on client/server computing technologies, providing an environment to collect, process, manage, distribute and integrate real time manufacturing data. UNIX, VMS, PC Win, OS-9 are integrated to handle hosts, PC, VME CPUs. A 4 GL programming language, CIMfast, has been used to handle via automatic procedures the tokamak discharge. X11 standard based mimics are available to display the plants status. A real flexibility of the whole system has been experience and the further use of the this system has been planned for the ITER DTP (divertor test platform). (orig.)

All-optical SR flip-flop based on SOA-MZI switches monolithically integrated on a generic InP platform

Science.gov (United States)

Pitris, St.; Vagionas, Ch.; Kanellos, G. T.; Kisacik, R.; Tekin, T.; Broeke, R.; Pleros, N.

2016-03-01

At the dawning of the exaflop era, High Performance Computers are foreseen to exploit integrated all-optical elements, to overcome the speed limitations imposed by electronic counterparts. Drawing from the well-known Memory Wall limitation, imposing a performance gap between processor and memory speeds, research has focused on developing ultra-fast latching devices and all-optical memory elements capable of delivering buffering and switching functionalities at unprecedented bit-rates. Following the master-slave configuration of electronic Flip-Flops, coupled SOA-MZI based switches have been theoretically investigated to exceed 40 Gb/s operation, provided a short coupling waveguide. However, this flip-flop architecture has been only hybridly integrated with silica-on-silicon integration technology exhibiting a total footprint of 45x12 mm2 and intra-Flip-Flop coupling waveguide of 2.5cm, limited at 5 Gb/s operation. Monolithic integration offers the possibility to fabricate multiple active and passive photonic components on a single chip at a close proximity towards, bearing promises for fast all-optical memories. Here, we present for the first time a monolithically integrated all-optical SR Flip-Flop with coupled master-slave SOA-MZI switches. The photonic chip is integrated on a 6x2 mm2 die as a part of a multi-project wafer run using library based components of a generic InP platform, fiber-pigtailed and fully packaged on a temperature controlled ceramic submount module with electrical contacts. The intra Flip-Flop coupling waveguide is 5 mm long, reducing the total footprint by two orders of magnitude. Successful flip flop functionality is evaluated at 10 Gb/s with clear open eye diagram, achieving error free operation with a power penalty of 4dB.

The Overture Initiative Integrating Tools for VDM

DEFF Research Database (Denmark)

Larsen, Peter Gorm; Battle, Nick; Ferreira, Miguel

2010-01-01

Overture is a community-based initiative that aims to develop a common open-source platform integrating a range of tools for constructing and analysing formal models of systems using VDM. The mission is to both provide an industrial-strength tool set for VDM and also to provide an environment...

Design, implementation and practice of JBEI-ICE: an open source biological part registry platform and tools.

Science.gov (United States)

Ham, Timothy S; Dmytriv, Zinovii; Plahar, Hector; Chen, Joanna; Hillson, Nathan J; Keasling, Jay D

2012-10-01

The Joint BioEnergy Institute Inventory of Composable Elements (JBEI-ICEs) is an open source registry platform for managing information about biological parts. It is capable of recording information about 'legacy' parts, such as plasmids, microbial host strains and Arabidopsis seeds, as well as DNA parts in various assembly standards. ICE is built on the idea of a web of registries and thus provides strong support for distributed interconnected use. The information deposited in an ICE installation instance is accessible both via a web browser and through the web application programming interfaces, which allows automated access to parts via third-party programs. JBEI-ICE includes several useful web browser-based graphical applications for sequence annotation, manipulation and analysis that are also open source. As with open source software, users are encouraged to install, use and customize JBEI-ICE and its components for their particular purposes. As a web application programming interface, ICE provides well-developed parts storage functionality for other synthetic biology software projects. A public instance is available at public-registry.jbei.org, where users can try out features, upload parts or simply use it for their projects. The ICE software suite is available via Google Code, a hosting site for community-driven open source projects.

Taking Open Innovation to the Molecular Level - Strengths and Limitations.

Science.gov (United States)

Zdrazil, Barbara; Blomberg, Niklas; Ecker, Gerhard F

2012-08-01

The ever-growing availability of large-scale open data and its maturation is having a significant impact on industrial drug-discovery, as well as on academic and non-profit research. As industry is changing to an 'open innovation' business concept, precompetitive initiatives and strong public-private partnerships including academic research cooperation partners are gaining more and more importance. Now, the bioinformatics and cheminformatics communities are seeking for web tools which allow the integration of this large volume of life science datasets available in the public domain. Such a data exploitation tool would ideally be able to answer complex biological questions by formulating only one search query. In this short review/perspective, we outline the use of semantic web approaches for data and knowledge integration. Further, we discuss strengths and current limitations of public available data retrieval tools and integrated platforms.

OpenShift Workshop

CERN Multimedia

CERN. Geneva; Rodriguez Peon, Alberto

2017-01-01

Workshop to introduce developers to the OpenShift platform available at CERN. Several use cases will be shown, including deploying an existing application into OpenShift. We expect attendees to realize about OpenShift features and general architecture of the service.

Open spin chains in super Yang-Mills at higher loops: some potential problems with integrability

International Nuclear Information System (INIS)

Agarwal, Abhishek

2006-01-01

The super Yang-Mills duals of open strings attached to maximal giant gravitons are studied in perturbation theory. It is shown that non-BPS baryonic excitations of the gauge theory can be studied within the paradigm of open quantum spin chains even beyond the leading order in perturbation theory. The open spin chain describing the two loop mixing of non-BPS giant gravitons charged under an su(2) of the so(6) R symmetry group is explicitly constructed. It is also shown that although the corresponding open spin chain is integrable at the one loop order, there is a potential breakdown of integrability at two and higher loops. The study of integrability is performed using coordinate Bethe ansatz techniques

Integration of soft tissue model and open haptic device for medical training simulator

Science.gov (United States)

Akasum, G. F.; Ramdhania, L. N.; Suprijanto; Widyotriatmo, A.

2016-03-01

Minimally Invasive Surgery (MIS) has been widely used to perform any surgical procedures nowadays. Currently, MIS has been applied in some cases in Indonesia. Needle insertion is one of simple MIS procedure that can be used for some purposes. Before the needle insertion technique used in the real situation, it essential to train this type of medical student skills. The research has developed an open platform of needle insertion simulator with haptic feedback that providing the medical student a realistic feel encountered during the actual procedures. There are three main steps in build the training simulator, which are configure hardware system, develop a program to create soft tissue model and the integration of hardware and software. For evaluating its performance, haptic simulator was tested by 24 volunteers on a scenario of soft tissue model. Each volunteer must insert the needle on simulator until rearch the target point with visual feedback that visualized on the monitor. From the result it can concluded that the soft tissue model can bring the sensation of touch through the perceived force feedback on haptic actuator by looking at the different force in accordance with different stiffness in each layer.

ROS-IGTL-Bridge: an open network interface for image-guided therapy using the ROS environment.

Science.gov (United States)

Frank, Tobias; Krieger, Axel; Leonard, Simon; Patel, Niravkumar A; Tokuda, Junichi

2017-08-01

With the growing interest in advanced image-guidance for surgical robot systems, rapid integration and testing of robotic devices and medical image computing software are becoming essential in the research and development. Maximizing the use of existing engineering resources built on widely accepted platforms in different fields, such as robot operating system (ROS) in robotics and 3D Slicer in medical image computing could simplify these tasks. We propose a new open network bridge interface integrated in ROS to ensure seamless cross-platform data sharing. A ROS node named ROS-IGTL-Bridge was implemented. It establishes a TCP/IP network connection between the ROS environment and external medical image computing software using the OpenIGTLink protocol. The node exports ROS messages to the external software over the network and vice versa simultaneously, allowing seamless and transparent data sharing between the ROS-based devices and the medical image computing platforms. Performance tests demonstrated that the bridge could stream transforms, strings, points, and images at 30 fps in both directions successfully. The data transfer latency was bridge could achieve 900 fps for transforms. Additionally, the bridge was demonstrated in two representative systems: a mock image-guided surgical robot setup consisting of 3D slicer, and Lego Mindstorms with ROS as a prototyping and educational platform for IGT research; and the smart tissue autonomous robot surgical setup with 3D Slicer. The study demonstrated that the bridge enabled cross-platform data sharing between ROS and medical image computing software. This will allow rapid and seamless integration of advanced image-based planning/navigation offered by the medical image computing software such as 3D Slicer into ROS-based surgical robot systems.

A novel compact mass detection platform for the open access (OA) environment in drug discovery and early development.

Science.gov (United States)

Gao, Junling; Ceglia, Scott S; Jones, Michael D; Simeone, Jennifer; Antwerp, John Van; Zhang, Li-Kang; Ross, Charles W; Helmy, Roy

2016-04-15

A new 'compact mass detector' co-developed with an instrument manufacturer (Waters Corporation) as an interface for liquid chromatography (LC), specifically Ultra-high performance LC(®) (UPLC(®) or UHPLC) analysis was evaluated as a potential new Open Access (OA) LC-MS platform in the Drug Discovery and Early Development space. This new compact mass detector based platform was envisioned to provide increased reliability and speed while exhibiting significant cost, noise, and footprint reductions. The new detector was evaluated in batch mode (typically 1-3 samples per run) to monitor reactions and check purity, as well as in High Throughput Screening (HTS) mode to run 24, 48, and 96 well plates. The latter workflows focused on screening catalysis conditions, process optimization, and library work. The objective of this investigation was to assess the performance, reliability, and flexibility of the compact mass detector in the OA setting for a variety of applications. The compact mass detector results were compared to those obtained by current OA LC-MS systems, and the capabilities and benefits of the compact mass detector in the open access setting for chemists in the drug discovery and development space are demonstrated. Copyright © 2016 Elsevier B.V. All rights reserved.

Integrated method to optimize well connection and platform placement on a multi-reservoir scenario

Energy Technology Data Exchange (ETDEWEB)

Sousa, Sergio Henrique Guerra de; Madeira, Marcelo Gomes; Franca, Martha Salles [Halliburton, Rio de Janeiro, RJ (Brazil); Mota, Rosane Oliveira; Silva, Edilon Ribeiro da; King, Vanessa Pereira Spear [Petroleo Brasileiro S.A. (PETROBRAS), Rio de Janeiro, RJ (Brazil)

2012-07-01

This paper describes a workflow created to optimize the platform placement and well-platform connections on a multi reservoir scenario using an integrated reservoir simulator paired with an optimization engine. The proposed methodology describes how a new platform, being incorporated into a pre-existing asset, can be better used to develop newly-discovered fields, while helping increase the production of existing fields by sharing their production load. The sharing of production facilities is highly important in Brazilian offshore assets because of their high price (a few billion dollars per facility) and the fact that total production is usually limited to the installed capacity of liquid processing, which is an important constraint on high water-cut well production rates typical to this region. The case study asset used to present the workflow consists of two deep water oil fields, each one developed by its own production platform, and a newly-discovered field with strong aquifer support that will be entirely developed with a new production platform. Because this new field should not include injector wells owing to the strong aquifer presence, the idea is to consider reconnecting existing wells from the two pre-existing fields to better use the production resources. In this scenario, the platform location is an important optimization issue, as a balance between supporting the production of the planned wells on the new field and the production of re-routed wells from the existing fields must be reached to achieve improved overall asset production. If the new platform is too far away from any interconnected production well, pressure-drop issues along the pipeline might actually decrease production from the existing fields rather than augment it. The main contribution of this work is giving the reader insights on how to model and optimize these complex decisions to generate high-quality scenarios. (author)

Integration of reconfigurable potentiometric electrochemical sensors into a digital microfluidic platform.

Science.gov (United States)

Farzbod, Ali; Moon, Hyejin

2018-05-30

This paper presents the demonstration of on-chip fabrication of a potassium-selective sensor array enabled by electrowetting on dielectric digital microfluidics for the first time. This demonstration proves the concept that electrochemical sensors can be seamlessly integrated with sample preparation units in a digital microfluidic platform. More significantly, the successful on-chip fabrication of a sensor array indicates that sensors become reconfigurable and have longer lifetime in a digital microfluidic platform. The on-chip fabrication of ion-selective electrodes includes electroplating Ag followed by forming AgCl layer by chemical oxidation and depositing a thin layer of desired polymer-based ion selective membrane on one of the sensor electrodes. In this study, potassium ionophores work as potassium ion channels and make the membrane selective to potassium ions. This selectiveness results in the voltage difference across the membrane layer, which is correlated with potassium ion concentration. The calibration curve of the fabricated potassium-selective electrode demonstrates the slope of 58 mV/dec for potassium concentration in KCl sample solutions and shows good agreement with the ideal Nernstian response. The proposed sensor platform is an outstanding candidate for a portable home-use for continuous monitoring of ions thanks to its advantages such as easy automation of sample preparation and detection processes, elongated sensor lifetime, minimal membrane and sample consumption, and user-definable/reconfigurable sensor array. Copyright © 2018 Elsevier B.V. All rights reserved.

Miniaturized Integrated Platform for Electrical and Optical Monitoring of Cell Cultures

Directory of Open Access Journals (Sweden)

Costin Brasoveanu

2012-08-01

Full Text Available The following paper describes the design and functions of a miniaturized integrated platform for optical and electrical monitoring of cell cultures and the necessary steps in the fabrication and testing of a silicon microchip Micro ElectroMechanical Systems (MEMS-based technology for cell data recording, monitoring and stimulation. The silicon microchip consists of a MEMS machined device containing a shank of 240 μm width, 3 mm long and 50 μm thick and an enlarged area of 5 mm × 5 mm hosting the pads for electrical connections. Ten platinum electrodes and five sensors are placed on the shank and are connected with the external electronics through the pads. The sensors aim to monitor the pH, the temperature and the impedance of the cell culture. The electrodes are bidirectional and can be used both for electrical potential recording and stimulation of cells. The fabrication steps are presented, along with the electrical and optical characterization of the system. The target of the research is to develop a new and reconfigurable platform according to the particular applications needs, as a tool for the biologist, chemists and medical doctors working is the field of cell culture monitoring in terms of growth, maintenance conditions, reaction to electrical or chemical stimulation (drugs, toxicants, etc.. HaCaT (Immortalised Human Keratinocyte cell culture has been used for demonstration purposes in order to provide information on the platform electrical and optical functions.

The vacuum platform

Science.gov (United States)

McNab, A.

2017-10-01

This paper describes GridPP’s Vacuum Platform for managing virtual machines (VMs), which has been used to run production workloads for WLCG and other HEP experiments. The platform provides a uniform interface between VMs and the sites they run at, whether the site is organised as an Infrastructure-as-a-Service cloud system such as OpenStack, or an Infrastructure-as-a-Client system such as Vac. The paper describes our experience in using this platform, in developing and operating VM lifecycle managers Vac and Vcycle, and in interacting with VMs provided by LHCb, ATLAS, ALICE, CMS, and the GridPP DIRAC service to run production workloads.

Launching platforms for user-generated content

OpenAIRE

Batista, Guilherme Luís Caroço

2015-01-01

Field lab: Entrepreneurial and innovative ventures This paper intends to discuss and absorb the Best Practices employed by successful User- Generated Content (UGC)1 platforms and constitute a guide on how to launch a platform without having a cyclical lack of content and users. Research shows that companies have resorted to integration with mature UGC platforms, and providing content by themselves, in an initial state. I conclude that integration possibilities should be explore...

MASHUP SCHEME DESIGN OF MAP TILES USING LIGHTWEIGHT OPEN SOURCE WEBGIS PLATFORM

Directory of Open Access Journals (Sweden)

T. Hu

2018-04-01

Full Text Available To address the difficulty involved when using existing commercial Geographic Information System platforms to integrate multi-source image data fusion, this research proposes the loading of multi-source local tile data based on CesiumJS and examines the tile data organization mechanisms and spatial reference differences of the CesiumJS platform, as well as various tile data sources, such as Google maps, Map World, and Bing maps. Two types of tile data loading schemes have been designed for the mashup of tiles, the single data source loading scheme and the multi-data source loading scheme. The multi-sources of digital map tiles used in this paper cover two different but mainstream spatial references, the WGS84 coordinate system and the Web Mercator coordinate system. According to the experimental results, the single data source loading scheme and the multi-data source loading scheme with the same spatial coordinate system showed favorable visualization effects; however, the multi-data source loading scheme was prone to lead to tile image deformation when loading multi-source tile data with different spatial references. The resulting method provides a low cost and highly flexible solution for small and medium-scale GIS programs and has a certain potential for practical application values. The problem of deformation during the transition of different spatial references is an important topic for further research.

A multi-landing pad DNA integration platform for mammalian cell engineering

Science.gov (United States)

Gaidukov, Leonid; Wroblewska, Liliana; Teague, Brian; Nelson, Tom; Zhang, Xin; Liu, Yan; Jagtap, Kalpana; Mamo, Selamawit; Tseng, Wen Allen; Lowe, Alexis; Das, Jishnu; Bandara, Kalpanie; Baijuraj, Swetha; Summers, Nevin M; Zhang, Lin; Weiss, Ron

2018-01-01

Abstract Engineering mammalian cell lines that stably express many transgenes requires the precise insertion of large amounts of heterologous DNA into well-characterized genomic loci, but current methods are limited. To facilitate reliable large-scale engineering of CHO cells, we identified 21 novel genomic sites that supported stable long-term expression of transgenes, and then constructed cell lines containing one, two or three ‘landing pad’ recombination sites at selected loci. By using a highly efficient BxB1 recombinase along with different selection markers at each site, we directed recombinase-mediated insertion of heterologous DNA to selected sites, including targeting all three with a single transfection. We used this method to controllably integrate up to nine copies of a monoclonal antibody, representing about 100 kb of heterologous DNA in 21 transcriptional units. Because the integration was targeted to pre-validated loci, recombinant protein expression remained stable for weeks and additional copies of the antibody cassette in the integrated payload resulted in a linear increase in antibody expression. Overall, this multi-copy site-specific integration platform allows for controllable and reproducible insertion of large amounts of DNA into stable genomic sites, which has broad applications for mammalian synthetic biology, recombinant protein production and biomanufacturing. PMID:29617873

High Level of Integration in Integrated Disease Management Leads to Higher Usage in the e-Vita Study: Self-Management of Chronic Obstructive Pulmonary Disease With Web-Based Platforms in a Parallel Cohort Design.

Science.gov (United States)

Talboom-Kamp, Esther Pwa; Verdijk, Noortje A; Kasteleyn, Marise J; Harmans, Lara M; Talboom, Irvin Jsh; Numans, Mattijs E; Chavannes, Niels H

2017-05-31

Worldwide, nearly 3 million people die of chronic obstructive pulmonary disease (COPD) every year. Integrated disease management (IDM) improves disease-specific quality of life and exercise capacity for people with COPD, but can also reduce hospital admissions and hospital days. Self-management of COPD through eHealth interventions has shown to be an effective method to improve the quality and efficiency of IDM in several settings, but it remains unknown which factors influence usage of eHealth and change in behavior of patients. Our study, e-Vita COPD, compares different levels of integration of Web-based self-management platforms in IDM in three primary care settings. The main aim of this study is to analyze the factors that successfully promote the use of a self-management platform for COPD patients. The e-Vita COPD study compares three different approaches to incorporating eHealth via Web-based self-management platforms into IDM of COPD using a parallel cohort design. Three groups integrated the platforms to different levels. In groups 1 (high integration) and 2 (medium integration), randomization was performed to two levels of personal assistance for patients (high and low assistance); in group 3 there was no integration into disease management (none integration). Every visit to the e-Vita and Zorgdraad COPD Web platforms was tracked objectively by collecting log data (sessions and services). At the first log-in, patients completed a baseline questionnaire. Baseline characteristics were automatically extracted from the log files including age, gender, education level, scores on the Clinical COPD Questionnaire (CCQ), dyspnea scale (MRC), and quality of life questionnaire (EQ5D). To predict the use of the platforms, multiple linear regression analyses for the different independent variables were performed: integration in IDM (high, medium, none), personal assistance for the participants (high vs low), educational level, and self-efficacy level (General Self

Bio-jETI: a service integration, design, and provisioning platform for orchestrated bioinformatics processes.

Science.gov (United States)

Margaria, Tiziana; Kubczak, Christian; Steffen, Bernhard

2008-04-25

With Bio-jETI, we introduce a service platform for interdisciplinary work on biological application domains and illustrate its use in a concrete application concerning statistical data processing in R and xcms for an LC/MS analysis of FAAH gene knockout. Bio-jETI uses the jABC environment for service-oriented modeling and design as a graphical process modeling tool and the jETI service integration technology for remote tool execution. As a service definition and provisioning platform, Bio-jETI has the potential to become a core technology in interdisciplinary service orchestration and technology transfer. Domain experts, like biologists not trained in computer science, directly define complex service orchestrations as process models and use efficient and complex bioinformatics tools in a simple and intuitive way.

Second report of the national platform electromobility; Zweiter Bericht der Nationalen Plattform Elektromobilitaet

Energy Technology Data Exchange (ETDEWEB)

NONE

2011-05-15

In the National Platform Electromobility, representatives from industry, science, politics, unions and societies in Germany agreed on a systematic, market-oriented and technology-open approach to become the main supplier and main market for electromobility up to the year 2020. A central component of the targeted German mean market for electromobility is an intelligent energy system: integration of electricity from renewable energy sources, demand-oriented development of a public charging infrastructure, development of an innovative charging structure. The common goal of the National Electromobility Platform is to build a self-supporting market for electric vehicles. The National Electromobility Platform will support the implementation of these intentions and measures. The underlying assumptions are reviewed annually. Derived recommendations are adapted, if necessary. Thus the National Electromobility Platform develops an annual progress report. With the end of the market scheduling phase by 2014, especially the market acceleration, demand for public infrastructure, costs and funding approaches for market acceleration as well as research and development will be re-evaluated.

Mission Exploitation Platform PROBA-V

Science.gov (United States)

Goor, Erwin

2016-04-01

VITO and partners developed an end-to-end solution to drastically improve the exploitation of the PROBA-V EO-data archive (http://proba-v.vgt.vito.be/), the past mission SPOT-VEGETATION and derived vegetation parameters by researchers, service providers and end-users. The analysis of time series of data (+1PB) is addressed, as well as the large scale on-demand processing of near real-time data. From November 2015 an operational Mission Exploitation Platform (MEP) PROBA-V, as an ESA pathfinder project, will be gradually deployed at the VITO data center with direct access to the complete data archive. Several applications will be released to the users, e.g. - A time series viewer, showing the evolution of PROBA-V bands and derived vegetation parameters for any area of interest. - Full-resolution viewing services for the complete data archive. - On-demand processing chains e.g. for the calculation of N-daily composites. - A Virtual Machine will be provided with access to the data archive and tools to work with this data, e.g. various toolboxes and support for R and Python. After an initial release in January 2016, a research platform will gradually be deployed allowing users to design, debug and test applications on the platform. From the MEP PROBA-V, access to Sentinel-2 and landsat data will be addressed as well, e.g. to support the Cal/Val activities of the users. Users can make use of powerful Web based tools and can self-manage virtual machines to perform their work on the infrastructure at VITO with access to the complete data archive. To realise this, private cloud technology (openStack) is used and a distributed processing environment is built based on Hadoop. The Hadoop ecosystem offers a lot of technologies (Spark, Yarn, Accumulo, etc.) which we integrate with several open-source components. The impact of this MEP on the user community will be high and will completely change the way of working with the data and hence open the large time series to a larger

Conversion of HSPF Legacy Model to a Platform-Independent, Open-Source Language

Science.gov (United States)

Heaphy, R. T.; Burke, M. P.; Love, J. T.

2015-12-01

Since its initial development over 30 years ago, the Hydrologic Simulation Program - FORTAN (HSPF) model has been used worldwide to support water quality planning and management. In the United States, HSPF receives widespread endorsement as a regulatory tool at all levels of government and is a core component of the EPA's Better Assessment Science Integrating Point and Nonpoint Sources (BASINS) system, which was developed to support nationwide Total Maximum Daily Load (TMDL) analysis. However, the model's legacy code and data management systems have limitations in their ability to integrate with modern software, hardware, and leverage parallel computing, which have left voids in optimization, pre-, and post-processing tools. Advances in technology and our scientific understanding of environmental processes that have occurred over the last 30 years mandate that upgrades be made to HSPF to allow it to evolve and continue to be a premiere tool for water resource planners. This work aims to mitigate the challenges currently facing HSPF through two primary tasks: (1) convert code to a modern widely accepted, open-source, high-performance computing (hpc) code; and (2) convert model input and output files to modern widely accepted, open-source, data model, library, and binary file format. Python was chosen as the new language for the code conversion. It is an interpreted, object-oriented, hpc code with dynamic semantics that has become one of the most popular open-source languages. While python code execution can be slow compared to compiled, statically typed programming languages, such as C and FORTRAN, the integration of Numba (a just-in-time specializing compiler) has allowed this challenge to be overcome. For the legacy model data management conversion, HDF5 was chosen to store the model input and output. The code conversion for HSPF's hydrologic and hydraulic modules has been completed. The converted code has been tested against HSPF's suite of "test" runs and shown

An integrated platform for gas-diffusion separation and electrochemical determination of ethanol on fermentation broths

Energy Technology Data Exchange (ETDEWEB)

Giordano, Gabriela Furlan [Microfabrication Laboratory, Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, SP 13083-970 (Brazil); Department of Analytical Chemistry, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil); National Institute of Science and Technology of Bioanalytics, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil); Vieira, Luis Carlos Silveira; Gobbi, Angelo Luiz [Microfabrication Laboratory, Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, SP 13083-970 (Brazil); Lima, Renato Sousa [Microfabrication Laboratory, Brazilian Nanotechnology National Laboratory (LNNano), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, SP 13083-970 (Brazil); Department of Analytical Chemistry, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil); National Institute of Science and Technology of Bioanalytics, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil); Kubota, Lauro Tatsuo, E-mail: kubota@iqm.unicamp.br [Department of Analytical Chemistry, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil); National Institute of Science and Technology of Bioanalytics, Institute of Chemistry – UNICAMP, Campinas, SP 13083-970 (Brazil)

2015-05-22

Highlights: • Integrated platform was developed to determine ethanol in fermentation broths. • The designed system integrates gas diffusion separation with voltammetric detection. • Detector relied on Ni(OH){sub 2}-modified electrode stabilized by Co{sup 2+} and Cd{sup 2+} insertion. • Separation was made by PTFE membrane separating sample from electrolyte (receptor). • Despite the sample complexity, accurate tests were achieved by direct interpolation. - Abstract: An integrated platform was developed for point-of-use determination of ethanol in sugar cane fermentation broths. Such analysis is important because ethanol reduces its fuel production efficiency by altering the alcoholic fermentation step when in excess. The custom-designed platform integrates gas diffusion separation with voltammetric detection in a single analysis module. The detector relied on a Ni(OH){sub 2}-modified electrode. It was stabilized by uniformly depositing cobalt and cadmium hydroxides as shown by XPS measurements. Such tests were in accordance with the hypothesis related to stabilization of the Ni(OH){sub 2} structure by insertion of Co{sup 2+} and Cd{sup 2+} ions in this structure. The separation step, in turn, was based on a hydrophobic PTFE membrane, which separates the sample from receptor solution (electrolyte) where the electrodes were placed. Parameters of limit of detection and analytical sensitivity were estimated to be 0.2% v/v and 2.90 μA % (v/v){sup −1}, respectively. Samples of fermentation broth were analyzed by both standard addition method and direct interpolation in saline medium based-analytical curve. In this case, the saline solution exhibited ionic strength similar to those of the samples intended to surpass the tonometry colligative effect of the samples over analyte concentration data by attributing the reduction in quantity of diffused ethanol vapor majorly to the electrolyte. The approach of analytical curve provided rapid, simple and accurate

An Integrated Open Approach to Capturing Systematic Knowledge for Manufacturing Process Innovation Based on Collective Intelligence

Directory of Open Access Journals (Sweden)

Gangfeng Wang

2018-02-01

Full Text Available Process innovation plays a vital role in the manufacture realization of increasingly complex new products, especially in the context of sustainable development and cleaner production. Knowledge-based innovation design can inspire designers’ creative thinking; however, the existing scattered knowledge has not yet been properly captured and organized according to Computer-Aided Process Innovation (CAPI. Therefore, this paper proposes an integrated approach to tackle this non-trivial issue. By analyzing the design process of CAPI and technical features of open innovation, a novel holistic paradigm of process innovation knowledge capture based on collective intelligence (PIKC-CI is constructed from the perspective of the knowledge life cycle. Then, a multi-source innovation knowledge fusion algorithm based on semantic elements reconfiguration is applied to form new public knowledge. To ensure the credibility and orderliness of innovation knowledge refinement, a collaborative editing strategy based on knowledge lock and knowledge–social trust degree is explored. Finally, a knowledge management system MPI-OKCS integrating the proposed techniques is implemented into the pre-built CAPI general platform, and a welding process innovation example is provided to illustrate the feasibility of the proposed approach. It is expected that our work would lay the foundation for the future knowledge-inspired CAPI and smart process planning.

Integrated liquid-core optical fibers for ultra-efficient nonlinear liquid photonics.

Science.gov (United States)

Kieu, K; Schneebeli, L; Norwood, R A; Peyghambarian, N

2012-03-26

We have developed a novel integrated platform for liquid photonics based on liquid core optical fiber (LCOF). The platform is created by fusion splicing liquid core optical fiber to standard single-mode optical fiber making it fully integrated and practical - a major challenge that has greatly hindered progress in liquid-photonic applications. As an example, we report here the realization of ultralow threshold Raman generation using an integrated CS₂ filled LCOF pumped with sub-nanosecond pulses at 532 nm and 1064 nm. The measured energy threshold for the Stokes generation is 1nJ, about three orders of magnitude lower than previously reported values in the literature for hydrogen gas, a popular Raman medium. The integrated LCOF platform opens up new possibilities for ultralow power nonlinear optics such as efficient white light generation for displays, mid-IR generation, slow light generation, parametric amplification, all-optical switching and wavelength conversion using liquids that have orders of magnitude larger optical nonlinearities compared with silica glass.

OPEN SOURCE APPROACH TO URBAN GROWTH SIMULATION

Directory of Open Access Journals (Sweden)

A. Petrasova

2016-06-01

Full Text Available Spatial patterns of land use change due to urbanization and its impact on the landscape are the subject of ongoing research. Urban growth scenario simulation is a powerful tool for exploring these impacts and empowering planners to make informed decisions. We present FUTURES (FUTure Urban – Regional Environment Simulation – a patch-based, stochastic, multi-level land change modeling framework as a case showing how what was once a closed and inaccessible model benefited from integration with open source GIS.We will describe our motivation for releasing this project as open source and the advantages of integrating it with GRASS GIS, a free, libre and open source GIS and research platform for the geospatial domain. GRASS GIS provides efficient libraries for FUTURES model development as well as standard GIS tools and graphical user interface for model users. Releasing FUTURES as a GRASS GIS add-on simplifies the distribution of FUTURES across all main operating systems and ensures the maintainability of our project in the future. We will describe FUTURES integration into GRASS GIS and demonstrate its usage on a case study in Asheville, North Carolina. The developed dataset and tutorial for this case study enable researchers to experiment with the model, explore its potential or even modify the model for their applications.

Integrating Free and Open Source Solutions into Geospatial Science Education

Directory of Open Access Journals (Sweden)

Vaclav Petras

2015-06-01

Full Text Available While free and open source software becomes increasingly important in geospatial research and industry, open science perspectives are generally less reflected in universities’ educational programs. We present an example of how free and open source software can be incorporated into geospatial education to promote open and reproducible science. Since 2008 graduate students at North Carolina State University have the opportunity to take a course on geospatial modeling and analysis that is taught with both proprietary and free and open source software. In this course, students perform geospatial tasks simultaneously in the proprietary package ArcGIS and the free and open source package GRASS GIS. By ensuring that students learn to distinguish between geospatial concepts and software specifics, students become more flexible and stronger spatial thinkers when choosing solutions for their independent work in the future. We also discuss ways to continually update and improve our publicly available teaching materials for reuse by teachers, self-learners and other members of the GIS community. Only when free and open source software is fully integrated into geospatial education, we will be able to encourage a culture of openness and, thus, enable greater reproducibility in research and development applications.

Massively Parallel, Molecular Analysis Platform Developed Using a CMOS Integrated Circuit With Biological Nanopores

Science.gov (United States)

Roever, Stefan

2012-01-01

A massively parallel, low cost molecular analysis platform will dramatically change the nature of protein, molecular and genomics research, DNA sequencing, and ultimately, molecular diagnostics. An integrated circuit (IC) with 264 sensors was fabricated using standard CMOS semiconductor processing technology. Each of these sensors is individually controlled with precision analog circuitry and is capable of single molecule measurements. Under electronic and software control, the IC was used to demonstrate the feasibility of creating and detecting lipid bilayers and biological nanopores using wild type α-hemolysin. The ability to dynamically create bilayers over each of the sensors will greatly accelerate pore development and pore mutation analysis. In addition, the noise performance of the IC was measured to be 30fA(rms). With this noise performance, single base detection of DNA was demonstrated using α-hemolysin. The data shows that a single molecule, electrical detection platform using biological nanopores can be operationalized and can ultimately scale to millions of sensors. Such a massively parallel platform will revolutionize molecular analysis and will completely change the field of molecular diagnostics in the future.

An Open Source Software and Web-GIS Based Platform for Airborne SAR Remote Sensing Data Management, Distribution and Sharing

Science.gov (United States)

Changyong, Dou; Huadong, Guo; Chunming, Han; Ming, Liu

2014-03-01

With more and more Earth observation data available to the community, how to manage and sharing these valuable remote sensing datasets is becoming an urgent issue to be solved. The web based Geographical Information Systems (GIS) technology provides a convenient way for the users in different locations to share and make use of the same dataset. In order to efficiently use the airborne Synthetic Aperture Radar (SAR) remote sensing data acquired in the Airborne Remote Sensing Center of the Institute of Remote Sensing and Digital Earth (RADI), Chinese Academy of Sciences (CAS), a Web-GIS based platform for airborne SAR data management, distribution and sharing was designed and developed. The major features of the system include map based navigation search interface, full resolution imagery shown overlaid the map, and all the software adopted in the platform are Open Source Software (OSS). The functions of the platform include browsing the imagery on the map navigation based interface, ordering and downloading data online, image dataset and user management, etc. At present, the system is under testing in RADI and will come to regular operation soon.

An integrated development framework for rapid development of platform-independent and reusable satellite on-board software

Science.gov (United States)

Ziemke, Claas; Kuwahara, Toshinori; Kossev, Ivan

2011-09-01

Even in the field of small satellites, the on-board data handling subsystem has become complex and powerful. With the introduction of powerful CPUs and the availability of considerable amounts of memory on-board a small satellite it has become possible to utilize the flexibility and power of contemporary platform-independent real-time operating systems. Especially the non-commercial sector such like university institutes and community projects such as AMSAT or SSETI are characterized by the inherent lack of financial as well as manpower resources. The opportunity to utilize such real-time operating systems will contribute significantly to achieve a successful mission. Nevertheless the on-board software of a satellite is much more than just an operating system. It has to fulfill a multitude of functional requirements such as: Telecommand interpretation and execution, execution of control loops, generation of telemetry data and frames, failure detection isolation and recovery, the communication with peripherals and so on. Most of the aforementioned tasks are of generic nature and have to be conducted on any satellite with only minor modifications. A general set of functional requirements as well as a protocol for communication is defined in the SA ECSS-E-70-41A standard "Telemetry and telecommand packet utilization". This standard not only defines the communication protocol of the satellite-ground link but also defines a set of so called services which have to be available on-board of every compliant satellite and which are of generic nature. In this paper, a platform-independent and reusable framework is described which is implementing not only the ECSS-E-70-41A standard but also functionalities for interprocess communication, scheduling and a multitude of tasks commonly performed on-board of a satellite. By making use of the capabilities of the high-level programming language C/C++, the powerful open source library BOOST, the real-time operating system RTEMS and

The OpenEarth Framework (OEF) for the 3D Visualization of Integrated Earth Science Data

Science.gov (United States)

Nadeau, David; Moreland, John; Baru, Chaitan; Crosby, Chris

2010-05-01

Data integration is increasingly important as we strive to combine data from disparate sources and assemble better models of the complex processes operating at the Earth's surface and within its interior. These data are often large, multi-dimensional, and subject to differing conventions for data structures, file formats, coordinate spaces, and units of measure. When visualized, these data require differing, and sometimes conflicting, conventions for visual representations, dimensionality, symbology, and interaction. All of this makes the visualization of integrated Earth science data particularly difficult. The OpenEarth Framework (OEF) is an open-source data integration and visualization suite of applications and libraries being developed by the GEON project at the University of California, San Diego, USA. Funded by the NSF, the project is leveraging virtual globe technology from NASA's WorldWind to create interactive 3D visualization tools that combine and layer data from a wide variety of sources to create a holistic view of features at, above, and beneath the Earth's surface. The OEF architecture is open, cross-platform, modular, and based upon Java. The OEF's modular approach to software architecture yields an array of mix-and-match software components for assembling custom applications. Available modules support file format handling, web service communications, data management, user interaction, and 3D visualization. File parsers handle a variety of formal and de facto standard file formats used in the field. Each one imports data into a general-purpose common data model supporting multidimensional regular and irregular grids, topography, feature geometry, and more. Data within these data models may be manipulated, combined, reprojected, and visualized. The OEF's visualization features support a variety of conventional and new visualization techniques for looking at topography, tomography, point clouds, imagery, maps, and feature geometry. 3D data such as

TravisTorrent : Synthesizing Travis CI and GitHub for Full-Stack Research on Continuous Integration

NARCIS (Netherlands)

Beller, M.M.; Gousios, Giorgos; Zaidman, A.E.

2017-01-01

Continuous Integration (CI) has become a best practice of modern software development. Thanks in part to its tight integration with GitHub, Travis CI has emerged as arguably the most widely used CI platform for Open-Source Software (OSS) development. However, despite its prominent role in Software

Some open problems in random matrix theory and the theory of integrable systems

OpenAIRE

Deift, Percy

2007-01-01

We describe a list of open problems in random matrix theory and integrable systems which was presented at the conference ``Integrable Systems, Random Matrices, and Applications'' at the Courant Institute in May 2006.

Seqcrawler: biological data indexing and browsing platform.

Science.gov (United States)

Sallou, Olivier; Bretaudeau, Anthony; Roult, Aurelien

2012-07-24

Seqcrawler takes its roots in software like SRS or Lucegene. It provides an indexing platform to ease the search of data and meta-data in biological banks and it can scale to face the current flow of data. While many biological bank search tools are available on the Internet, mainly provided by large organizations to search their data, there is a lack of free and open source solutions to browse one's own set of data with a flexible query system and able to scale from a single computer to a cloud system. A personal index platform will help labs and bioinformaticians to search their meta-data but also to build a larger information system with custom subsets of data. The software is scalable from a single computer to a cloud-based infrastructure. It has been successfully tested in a private cloud with 3 index shards (pieces of index) hosting ~400 millions of sequence information (whole GenBank, UniProt, PDB and others) for a total size of 600 GB in a fault tolerant architecture (high-availability). It has also been successfully integrated with software to add extra meta-data from blast results to enhance users' result analysis. Seqcrawler provides a complete open source search and store solution for labs or platforms needing to manage large amount of data/meta-data with a flexible and customizable web interface. All components (search engine, visualization and data storage), though independent, share a common and coherent data system that can be queried with a simple HTTP interface. The solution scales easily and can also provide a high availability infrastructure.

Seqcrawler: biological data indexing and browsing platform

Directory of Open Access Journals (Sweden)

Sallou Olivier

2012-07-01

Full Text Available Abstract Background Seqcrawler takes its roots in software like SRS or Lucegene. It provides an indexing platform to ease the search of data and meta-data in biological banks and it can scale to face the current flow of data. While many biological bank search tools are available on the Internet, mainly provided by large organizations to search their data, there is a lack of free and open source solutions to browse one’s own set of data with a flexible query system and able to scale from a single computer to a cloud system. A personal index platform will help labs and bioinformaticians to search their meta-data but also to build a larger information system with custom subsets of data. Results The software is scalable from a single computer to a cloud-based infrastructure. It has been successfully tested in a private cloud with 3 index shards (pieces of index hosting ~400 millions of sequence information (whole GenBank, UniProt, PDB and others for a total size of 600 GB in a fault tolerant architecture (high-availability. It has also been successfully integrated with software to add extra meta-data from blast results to enhance users’ result analysis. Conclusions Seqcrawler provides a complete open source search and store solution for labs or platforms needing to manage large amount of data/meta-data with a flexible and customizable web interface. All components (search engine, visualization and data storage, though independent, share a common and coherent data system that can be queried with a simple HTTP interface. The solution scales easily and can also provide a high availability infrastructure.

"Where On Mars?": An Open Planetary Mapping Platform for Researchers, Educators, and the General Public

Science.gov (United States)

Manaud, Nicolas; Carter, John; Boix, Oriol

2016-10-01

The "Where On Mars?" project is essentially the evolution of an existing outreach product developed in collaboration between ESA and CartoDB; an interactive map visualisation of the ESA's ExoMars Rover candidate landing sites (whereonmars.co). Planetary imagery data and maps are increasingly produced by the scientific community, and shared typically as images, in scientific publications, presentations or public outreach websites. However, this media lacks of interactivity and contextual information available for further exploration, making it difficult for any audience to relate one location-based information to another. We believe that interactive web maps are a powerful way of telling stories, engaging with and educating people who, over the last decade, have become familiar with tools such as Google Maps. A few planetary web maps exist but they are either too complex for non-experts, or are closed-systems that do not allows anyone to publish and share content. The long-term vision for the project is to provide researchers, communicators, educators and a worldwide public with an open planetary mapping and social platform enabling them to create, share, communicate and consume research-based content. We aim for this platform to become the reference website everyone will go to learn about Mars and other planets in our Solar System; just like people head to Google Maps to find their bearings or any location-based information. The driver is clearly to create for people an emotional connection with Mars. The short-term objectives for the project are (1) to produce and curate an open repository of basemaps, geospatial data sets, map visualisations, and story maps; (2) to develop a beautifully crafted and engaging interactive map of Mars. Based on user-generated content, the underlying framework should (3) make it easy to create and share additional interactive maps telling specific stories.

OpenSesame: An Open-source, Graphical Experiment Builder for the Social Sciences

NARCIS (Netherlands)

Mathot, S.; Schreij, D.B.B.; Theeuwes, J.

2012-01-01

In the present article, we introduce OpenSesame, a graphical experiment builder for the social sciences. OpenSesame is free, open-source, and cross-platform. It features a comprehensive and intuitive graphical user interface and supports Python scripting for complex tasks. Additional functionality,

Open Educational Resources and Informational Ecosystems: «Edutags» as a connector for open learning

Directory of Open Access Journals (Sweden)

Michael Kerres

2014-10-01

Full Text Available Teaching and learning in school essentially relies on analogous and digital media, artefacts and tools of all kinds. They are supported and provided by various players. The role of these players for providing learning infrastructures and the interaction between them are discussed in the following paper. Increasingly, Open Educational Resources (OER become available and the question arises how the interaction between these players is impacted. On the one hand, some players implement closed informational ecosystems that might provide a rich and coherent environment for learning, but also lock the users into a defined and often restricted environment. On the other hand, other players are interested in developing an infrastructure that supports open learning without the boundaries of closed informational ecosystems. Such open informational ecosystems must provide interconnections to numerous, in principal, unlimited number of platforms for learning contents. In the context of the project «Edutags» a reference platform is being implemented by way in which the contents of various providers are being connected and enriched through user-generated tags, commentaries and evaluations. The discussion points out that such an independent reference platform, operated separately from content platforms, must be considered as an important element in an open and truly distributed infrastructure for learning resources. Hence, we do not only need open educational resources to support open learning, we also need to establish an open informational ecosystem that supports such approaches.

Learner Behaviour in a MOOC Practice-Oriented Course: In Empirical Study Integrating TAM and TPB

Science.gov (United States)

Yang, Hsi-Hsun; Su, Chung-Ho

2017-01-01

Few practice-oriented courses are currently integrated into online learning platforms, such as OpenCourseWare, Khan Academy, and Massive Open Online Courses (MOOCs). It is worthwhile to explore how learners respond to information technology and new teaching methods when practice-oriented course are placed online. Therefore, this study probes…

A framework for integration of scientific applications into the OpenTopography workflow

Science.gov (United States)

Nandigam, V.; Crosby, C.; Baru, C.

2012-12-01

The NSF-funded OpenTopography facility provides online access to Earth science-oriented high-resolution LIDAR topography data, online processing tools, and derivative products. The underlying cyberinfrastructure employs a multi-tier service oriented architecture that is comprised of an infrastructure tier, a processing services tier, and an application tier. The infrastructure tier consists of storage, compute resources as well as supporting databases. The services tier consists of the set of processing routines each deployed as a Web service. The applications tier provides client interfaces to the system. (e.g. Portal). We propose a "pluggable" infrastructure design that will allow new scientific algorithms and processing routines developed and maintained by the community to be integrated into the OpenTopography system so that the wider earth science community can benefit from its availability. All core components in OpenTopography are available as Web services using a customized open-source Opal toolkit. The Opal toolkit provides mechanisms to manage and track job submissions, with the help of a back-end database. It allows monitoring of job and system status by providing charting tools. All core components in OpenTopography have been developed, maintained and wrapped as Web services using Opal by OpenTopography developers. However, as the scientific community develops new processing and analysis approaches this integration approach is not scalable efficiently. Most of the new scientific applications will have their own active development teams performing regular updates, maintenance and other improvements. It would be optimal to have the application co-located where its developers can continue to actively work on it while still making it accessible within the OpenTopography workflow for processing capabilities. We will utilize a software framework for remote integration of these scientific applications into the OpenTopography system. This will be accomplished by

Web accessibility and open source software.

Science.gov (United States)

Obrenović, Zeljko

2009-07-01

A Web browser provides a uniform user interface to different types of information. Making this interface universally accessible and more interactive is a long-term goal still far from being achieved. Universally accessible browsers require novel interaction modalities and additional functionalities, for which existing browsers tend to provide only partial solutions. Although functionality for Web accessibility can be found as open source and free software components, their reuse and integration is complex because they were developed in diverse implementation environments, following standards and conventions incompatible with the Web. To address these problems, we have started several activities that aim at exploiting the potential of open-source software for Web accessibility. The first of these activities is the development of Adaptable Multi-Interface COmmunicator (AMICO):WEB, an infrastructure that facilitates efficient reuse and integration of open source software components into the Web environment. The main contribution of AMICO:WEB is in enabling the syntactic and semantic interoperability between Web extension mechanisms and a variety of integration mechanisms used by open source and free software components. Its design is based on our experiences in solving practical problems where we have used open source components to improve accessibility of rich media Web applications. The second of our activities involves improving education, where we have used our platform to teach students how to build advanced accessibility solutions from diverse open-source software. We are also partially involved in the recently started Eclipse projects called Accessibility Tools Framework (ACTF), the aim of which is development of extensible infrastructure, upon which developers can build a variety of utilities that help to evaluate and enhance the accessibility of applications and content for people with disabilities. In this article we briefly report on these activities.

The Logic of Digital Platform Disruption

DEFF Research Database (Denmark)

Kazan, Erol; Tan, Chee-Wee; Lim, Eric T. K.

Digital platforms are disruptive IT artifacts, because they facilitate the quick release of innovative platform derivatives from third parties (e.g., apps). This study endeavours to unravel the disruptive potential, caused by distinct designs and configurations of digital platforms on market...... environments. We postulate that the disruptive potential of digital platforms is determined by the degree of alignment among the business, technology and platform profiles. Furthermore, we argue that the design and configuration of the aforementioned three elements dictates the extent to which open innovation...... is permitted. To shed light on the disruptive potential of digital platforms, we opted for payment platforms as our unit of analysis. Through interviews with experts and payment providers, we seek to gain an in-depth appreciation of how contemporary digital payment platforms are designed and configured...

The development of a computational platform to design and simulate on-board hydrogen storage systems

DEFF Research Database (Denmark)

Mazzucco, Andrea; Rokni, Masoud

2017-01-01

A computational platform is developed in the Modelica® language within the Dymola™ environment to provide a tool for the design and performance comparison of on-board hydrogen storage systems. The platform has been coupled with an open source library for hydrogen fueling stations to investigate...... the vehicular tank within the frame of a complete refueling system. The two technologies that are integrated in the platform are solid-state hydrogen storage in the form of metal hydrides and compressed gas systems. In this work the computational platform is used to compare the storage performance of two tank...... to a storage capacity four times larger than a tube-in-tube solution of the same size. The volumetric and gravimetric densities of the shell and tube are 2.46% and 1.25% respectively. The dehydriding ability of this solution is proven to withstand intense discharging conditions....

Rapid Development of Bespoke Unmanned Platforms for Atmospheric Science

Science.gov (United States)

Sobester, A.; Johnston, S. J.; Scanlan, J. P.; Hart, E. E.; O'Brien, N. S.

2012-04-01

The effective deployment of airborne atmospheric science instruments often hinges on the development cycle time of a suitable platform, one that is capable of delivering them to the desired altitude range for a specified amount of time, along a pre-determined trajectory. This could be driven by the need to respond rapidly to sudden, unexpected events (e.g., volcano eruptions, nuclear fallout, etc.) or simply to accommodate the iterative design and flight test cycle of the instrument developer. A shorter development cycle time would also afford us the ability to quickly adapt the hardware and control logic in response to unexpected results during an experimental campaign. We report on recent developments aimed at meeting this demand. As part of the Atmospheric Science Through Robotic Aircraft (ASTRA) initiative we have investigated the use of rapid prototyping technologies to this end, both on the 'airframe' of the platform itself and on the on-board systems. We show how fast multi-disciplinary design optimization techniques, coupled with computer-controlled additive manufacturing (3D printing) and laser cutting methods and electronic prototyping (using standard, modular, programmable building blocks) can lead to the delivery of a fully customized platform integrating a given instrument in a timescale of the order of ten days. Specific examples include the design and testing of a balloon-launched glider sensorcraft and a stratospheric balloon system. The 'vehicle' for the latter was built on a 3D printer using a copolymer thermoplastic material and fitted with a sacrificial protective 'cage' laser-cut from an open-cell foam. The data logging, tracking, sensor integration and communications services of the platform were constructed using the .net Gadgeteer open source hardware kit. The flight planning and eventual post-flight recovery of the system is enabled by a generic, stochastic trajectory simulation tool, also developed as part of the ASTRA initiative. This

OTEC platform configuration and integration study. Volume I. Systems engineering and integration. Final report

Energy Technology Data Exchange (ETDEWEB)

None

1978-04-01

The economic success of an Ocean Thermal Energy Conversion (OTEC) system is highly dependent on a platform which provides adequate support for the power system, accommodates reliably the cold water pipe, and is most cost effective. The results of a study conducted for the Department of Energy to assess six generic types of platforms to determine the most satisfactory platform for severl potential sites are presented. The six platform configurations are ship, circular barge, semi-submersible, Tuned Sphere, submersible, and spar. These represent directional and symmetric types of platforms which operate on the surface, at the interface, and submerged. The five sites for this study were primarily New Orleans, Keahole Point (Hawaii), Brazil, and secondarily Key West and Puerto Rico. Electrical transmission of energy by submarine cable is the planned form of energy transmission for all sites except Brazil, where chemical conversion is to be the method of transmission. This study is devoted to the platform (or ocean systems) of the OTEC plant which is chiefly comprised of the hull and structure, the seawater system, the position control system, and miscellaneous support/assembly systems. The principal elements in the work breakdown structure for the commercial plants are presented. The assessment of the six platform configurations was conducted utilizing a baseline plan (100-MW(e) (Net)) and site (New Orleans) with variations from the baseline to cover the range of interested platforms and sites.

University technology platform of anticipatory learning

Directory of Open Access Journals (Sweden)

Leonid Davidovich Gitelman

2016-03-01

Full Text Available The innovative development sets large-scale and challenging tasks, which need to be addressed in the lack-of-knowledge conditions and require the coordination and integration of numerous expert structures, which are scattered around the world and have different status and competencies. One of the mechanisms of integrating the partners’ intellectual and financial resources is provided by the technology platforms. The article discusses the nature and functions of technology platforms and analyzes the experience of their application in different countries with a special emphasis on universities. The article gives an overview of the various interpretations of technology platform concepts. It also describes the development and implementation of the technological platform at the Ural Federal University (research and education centre ‘ENGEC’, which was targeted at organizing anticipatory learning in the sphere of energy engineering and high-tech industries; its mechanism and role in improving different university activities and processes are shown. This platform is based on the original methodology ‘Integrated System of Consulting, Training, and Transformation’ (ISCT, which includes authentic methods and technologies, which are used in the educational process. A significant advantage of this methodology is that it can be applied in university education as well as in corporate training integrated with innovative activities.

Grid Integration of Electric Vehicles in Open Electricity Markets

DEFF Research Database (Denmark)

congestion management scenario within electric distribution networks •optimal EV charging management with the fleet operator concept and smart charging management •EV battery technology, modelling and tests •the use of EVs for balancing power fluctuations from renewable energy sources, looking at power......Presenting the policy drivers, benefits and challenges for grid integration of electric vehicles (EVs) in the open electricity market environment, this book provides a comprehensive overview of existing electricity markets and demonstrates how EVs are integrated into these different markets...... of the technologies for EV integration, this volume is informative for research professors and graduate students in power systems; it will also appeal to EV manufacturers, regulators, EV market professionals, energy providers and traders, mobility providers, EV charging station companies, and policy makers....

The Systems Biology Research Tool: evolvable open-source software

OpenAIRE

Wright, J; Wagner, A

2008-01-01

Abstract Background Research in the field of systems biology requires software for a variety of purposes. Software must be used to store, retrieve, analyze, and sometimes even to collect the data obtained from system-level (often high-throughput) experiments. Software must also be used to implement mathematical models and algorithms required for simulation and theoretical predictions on the system-level. Results We introduce a free, easy-to-use, open-source, integrated software platform calle...

Quality control of next-generation sequencing library through an integrative digital microfluidic platform.

Science.gov (United States)

Thaitrong, Numrin; Kim, Hanyoup; Renzi, Ronald F; Bartsch, Michael S; Meagher, Robert J; Patel, Kamlesh D

2012-12-01

We have developed an automated quality control (QC) platform for next-generation sequencing (NGS) library characterization by integrating a droplet-based digital microfluidic (DMF) system with a capillary-based reagent delivery unit and a quantitative CE module. Using an in-plane capillary-DMF interface, a prepared sample droplet was actuated into position between the ground electrode and the inlet of the separation capillary to complete the circuit for an electrokinetic injection. Using a DNA ladder as an internal standard, the CE module with a compact LIF detector was capable of detecting dsDNA in the range of 5-100 pg/μL, suitable for the amount of DNA required by the Illumina Genome Analyzer sequencing platform. This DMF-CE platform consumes tenfold less sample volume than the current Agilent BioAnalyzer QC technique, preserving precious sample while providing necessary sensitivity and accuracy for optimal sequencing performance. The ability of this microfluidic system to validate NGS library preparation was demonstrated by examining the effects of limited-cycle PCR amplification on the size distribution and the yield of Illumina-compatible libraries, demonstrating that as few as ten cycles of PCR bias the size distribution of the library toward undesirable larger fragments. © 2012 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Close connections between open science and open-source software

Directory of Open Access Journals (Sweden)

YouHua Chen

2014-09-01

Full Text Available Open science is increasingly gaining attention in recent years. In this mini-review, we briefly discuss and summarize the reasons of introducing open science into academic publications for scientists. We argue that open-source software (like R and Python software can be the universal and important platforms for doing open science because of their appealing features: open source, easy-reading document, commonly used in various scientific disciplines like statistics, chemistry and biology. At last, the challenges and future perspectives of performing open science are discussed.

Development of an IHE MRRT-compliant open-source web-based reporting platform.

Science.gov (United States)

Pinto Dos Santos, Daniel; Klos, G; Kloeckner, R; Oberle, R; Dueber, C; Mildenberger, P

2017-01-01

To develop a platform that uses structured reporting templates according to the IHE Management of Radiology Report Templates (MRRT) profile, and to implement this platform into clinical routine. The reporting platform uses standard web technologies (HTML / JavaScript and PHP / MySQL) only. Several freely available external libraries were used to simplify the programming. The platform runs on a standard web server, connects with the radiology information system (RIS) and PACS, and is easily accessible via a standard web browser. A prototype platform that allows structured reporting to be easily incorporated into the clinical routine was developed and successfully tested. To date, 797 reports were generated using IHE MRRT-compliant templates (many of them downloaded from the RSNA's radreport.org website). Reports are stored in a MySQL database and are easily accessible for further analyses. Development of an IHE MRRT-compliant platform for structured reporting is feasible using only standard web technologies. All source code will be made available upon request under a free license, and the participation of other institutions in further development is welcome. • A platform for structured reporting using IHE MRRT-compliant templates is presented. • Incorporating structured reporting into clinical routine is feasible. • Full source code will be provided upon request under a free license.

Integration Between SCORM Learning Objects and the CIEMAT Virtual Elearning Platform; Integracion de Objetos de Aprendizaje SCORM con la Plataforma de Ensenanza Virtual del CIEMAT

Energy Technology Data Exchange (ETDEWEB)

Bailador Ferreras, M A; Troiani, S; Gonzalez Giralda, C; Llorente Herranz, C; Marco Arboli, M L

2010-08-06

New information and communications technologies have made a major contribution in the way of understanding the training needs, which have been involved in the change from the traditional teaching to the use of virtual learning platforms. Thus, Ciemat, has installed a virtual platform for education, in particular MOODLE in which have been installed some virtual contents developed with Flash. The next necessary step has been how to integrate the contents with the MOODLE virtual platform, following the aim to know the assessment for learning tracking of the learners. This document provides the technological facts for the integration of the flash virtual contents and the virtual platform in order to achieve the training process is efficiently evaluated. (Author) 5 refs.

Development of an IHE MRRT-compliant open-source web-based reporting platform

Energy Technology Data Exchange (ETDEWEB)

Pinto dos Santos, Daniel; Klos, G.; Kloeckner, R.; Oberle, R.; Dueber, C.; Mildenberger, P. [University Medical Center of the Johannes Gutenberg-University Mainz, Department of Diagnostic and Interventional Radiology, Mainz (Germany)

2017-01-15

To develop a platform that uses structured reporting templates according to the IHE Management of Radiology Report Templates (MRRT) profile, and to implement this platform into clinical routine. The reporting platform uses standard web technologies (HTML / JavaScript and PHP / MySQL) only. Several freely available external libraries were used to simplify the programming. The platform runs on a standard web server, connects with the radiology information system (RIS) and PACS, and is easily accessible via a standard web browser. A prototype platform that allows structured reporting to be easily incorporated into the clinical routine was developed and successfully tested. To date, 797 reports were generated using IHE MRRT-compliant templates (many of them downloaded from the RSNA's radreport.org website). Reports are stored in a MySQL database and are easily accessible for further analyses. Development of an IHE MRRT-compliant platform for structured reporting is feasible using only standard web technologies. All source code will be made available upon request under a free license, and the participation of other institutions in further development is welcome. (orig.)

Development of an IHE MRRT-compliant open-source web-based reporting platform

International Nuclear Information System (INIS)

Pinto dos Santos, Daniel; Klos, G.; Kloeckner, R.; Oberle, R.; Dueber, C.; Mildenberger, P.

2017-01-01

To develop a platform that uses structured reporting templates according to the IHE Management of Radiology Report Templates (MRRT) profile, and to implement this platform into clinical routine. The reporting platform uses standard web technologies (HTML / JavaScript and PHP / MySQL) only. Several freely available external libraries were used to simplify the programming. The platform runs on a standard web server, connects with the radiology information system (RIS) and PACS, and is easily accessible via a standard web browser. A prototype platform that allows structured reporting to be easily incorporated into the clinical routine was developed and successfully tested. To date, 797 reports were generated using IHE MRRT-compliant templates (many of them downloaded from the RSNA's radreport.org website). Reports are stored in a MySQL database and are easily accessible for further analyses. Development of an IHE MRRT-compliant platform for structured reporting is feasible using only standard web technologies. All source code will be made available upon request under a free license, and the participation of other institutions in further development is welcome. (orig.)

Integration of the virtual model of a Stewart platform with the avatar of a vehicle in a virtual reality

Science.gov (United States)

Herbuś, K.; Ociepka, P.

2016-08-01

The development of methods of computer aided design and engineering allows conducting virtual tests, among others concerning motion simulation of technical means. The paper presents a method of integrating an object in the form of a virtual model of a Stewart platform with an avatar of a vehicle moving in a virtual environment. The area of the problem includes issues related to the problem of fidelity of mapping the work of the analyzed technical mean. The main object of investigations is a 3D model of a Stewart platform, which is a subsystem of the simulator designated for driving learning for disabled persons. The analyzed model of the platform, prepared for motion simulation, was created in the “Motion Simulation” module of a CAD/CAE class system Siemens PLM NX. Whereas the virtual environment, in which the moves the avatar of the passenger car, was elaborated in a VR class system EON Studio. The element integrating both of the mentioned software environments is a developed application that reads information from the virtual reality (VR) concerning the current position of the car avatar. Then, basing on the accepted algorithm, it sends control signals to respective joints of the model of the Stewart platform (CAD).

Integrated nanotechnology platform for tumor-targeted multimodal imaging and therapeutic cargo release.

Science.gov (United States)

Hosoya, Hitomi; Dobroff, Andrey S; Driessen, Wouter H P; Cristini, Vittorio; Brinker, Lina M; Staquicini, Fernanda I; Cardó-Vila, Marina; D'Angelo, Sara; Ferrara, Fortunato; Proneth, Bettina; Lin, Yu-Shen; Dunphy, Darren R; Dogra, Prashant; Melancon, Marites P; Stafford, R Jason; Miyazono, Kohei; Gelovani, Juri G; Kataoka, Kazunori; Brinker, C Jeffrey; Sidman, Richard L; Arap, Wadih; Pasqualini, Renata

2016-02-16

A major challenge of targeted molecular imaging and drug delivery in cancer is establishing a functional combination of ligand-directed cargo with a triggered release system. Here we develop a hydrogel-based nanotechnology platform that integrates tumor targeting, photon-to-heat conversion, and triggered drug delivery within a single nanostructure to enable multimodal imaging and controlled release of therapeutic cargo. In proof-of-concept experiments, we show a broad range of ligand peptide-based applications with phage particles, heat-sensitive liposomes, or mesoporous silica nanoparticles that self-assemble into a hydrogel for tumor-targeted drug delivery. Because nanoparticles pack densely within the nanocarrier, their surface plasmon resonance shifts to near-infrared, thereby enabling a laser-mediated photothermal mechanism of cargo release. We demonstrate both noninvasive imaging and targeted drug delivery in preclinical mouse models of breast and prostate cancer. Finally, we applied mathematical modeling to predict and confirm tumor targeting and drug delivery. These results are meaningful steps toward the design and initial translation of an enabling nanotechnology platform with potential for broad clinical applications.

Satellite Cloud and Radiative Property Processing and Distribution System on the NASA Langley ASDC OpenStack and OpenShift Cloud Platform

Science.gov (United States)

Nguyen, L.; Chee, T.; Palikonda, R.; Smith, W. L., Jr.; Bedka, K. M.; Spangenberg, D.; Vakhnin, A.; Lutz, N. E.; Walter, J.; Kusterer, J.

2017-12-01

Cloud Computing offers new opportunities for large-scale scientific data producers to utilize Infrastructure-as-a-Service (IaaS) and Platform-as-a-Service (PaaS) IT resources to process and deliver data products in an operational environment where timely delivery, reliability, and availability are critical. The NASA Langley Research Center Atmospheric Science Data Center (ASDC) is building and testing a private and public facing cloud for users in the Science Directorate to utilize as an everyday production environment. The NASA SatCORPS (Satellite ClOud and Radiation Property Retrieval System) team processes and derives near real-time (NRT) global cloud products from operational geostationary (GEO) satellite imager datasets. To deliver these products, we will utilize the public facing cloud and OpenShift to deploy a load-balanced webserver for data storage, access, and dissemination. The OpenStack private cloud will host data ingest and computational capabilities for SatCORPS processing. This paper will discuss the SatCORPS migration towards, and usage of, the ASDC Cloud Services in an operational environment. Detailed lessons learned from use of prior cloud providers, specifically the Amazon Web Services (AWS) GovCloud and the Government Cloud administered by the Langley Managed Cloud Environment (LMCE) will also be discussed.

Platform for Quantitative Evaluation of Spatial Intratumoral Heterogeneity in Multiplexed Fluorescence Images.

Science.gov (United States)

Spagnolo, Daniel M; Al-Kofahi, Yousef; Zhu, Peihong; Lezon, Timothy R; Gough, Albert; Stern, Andrew M; Lee, Adrian V; Ginty, Fiona; Sarachan, Brion; Taylor, D Lansing; Chennubhotla, S Chakra

2017-11-01

We introduce THRIVE (Tumor Heterogeneity Research Interactive Visualization Environment), an open-source tool developed to assist cancer researchers in interactive hypothesis testing. The focus of this tool is to quantify spatial intratumoral heterogeneity (ITH), and the interactions between different cell phenotypes and noncellular constituents. Specifically, we foresee applications in phenotyping cells within tumor microenvironments, recognizing tumor boundaries, identifying degrees of immune infiltration and epithelial/stromal separation, and identification of heterotypic signaling networks underlying microdomains. The THRIVE platform provides an integrated workflow for analyzing whole-slide immunofluorescence images and tissue microarrays, including algorithms for segmentation, quantification, and heterogeneity analysis. THRIVE promotes flexible deployment, a maintainable code base using open-source libraries, and an extensible framework for customizing algorithms with ease. THRIVE was designed with highly multiplexed immunofluorescence images in mind, and, by providing a platform to efficiently analyze high-dimensional immunofluorescence signals, we hope to advance these data toward mainstream adoption in cancer research. Cancer Res; 77(21); e71-74. ©2017 AACR . ©2017 American Association for Cancer Research.

Internationalisation of information services for publishers' open access policies: the DINI multilingual integration layer

Science.gov (United States)

Scholze, Frank

2008-01-01

It is essential for the strategy of open access self-archiving that scientific authors are given comprehensive information on publisher copyright policies. DINI, the German Initiative for Networked Information, has developed a German (and potentially multilingual) interface to the English SHERPA/RoMEO service to provide additional information on German publishers' open access policies. As a next step, this interface was enhanced to an integration layer combining different sources on publisher copyright policies. This integration layer can be used in many different contexts. Together with the SHERPA/RoMEO team, DINI aims to build an international support structure for open access information. PMID:18662383

Testing RISKGIS Platform with Students to Improve Learning and Teaching Skills

Science.gov (United States)

Olyazadeh, R.; Aye, Z. C.; Jaboyedoff, M.; Derron, M. H.

2016-12-01

Nowadays, open-source developments in the field of natural hazards and risk management increase rapidly. The governments, NGOs and other research institutes are producing data for risk and disaster analysis, but a few platforms are available to bring a real-life experience to the students. This work focuses on the preliminary results of testing a WebGIS platform called RISKGIS with the bachelor students at the University of Lausanne. The platform is designed based on a geospatial open-source technology called OpenGeo (Boundless). This platform can calculate the potential risk of the buildings and assist the students to understand the situations for risk reduction mitigation and decision-making. The center of Jomsom in Nepal was selected for the first exercise that may be affected by amplifications of earthquake. The shaking intensity map was designed by an expert based on the geological characteristics and DEM (Digital Elevation Model) of the area. All buildings data were extracted from OpenStreetMap using QGIS and adapted to the platform. The video tutorial was prepared to guide the students through the platform, and 80 students have tested the application online successfully and 40 of them participated in Moodle (a free Open Source software package for educators) for online feedback and quiz. Among those, 30 of them have completely answered to both. We had interesting results for effectiveness, efficiency and satisfaction based on System Usability Scale (SUS). The SUS score for this platform was 68.6 out of 100. The average result of the quiz was 9.39 out of 10 with a duration of 8 to 33 minutes to answer the quiz. There were several outliers for this duration with 2 minutes (two students) and 9 to 18 hours (three students). Further exercises will be carried out with students by adding more advanced functions to the platform and improving the willingness of participation in this online learning platform. This project is funded by Fonds d'innovation p

A big data geospatial analytics platform - Physical Analytics Integrated Repository and Services (PAIRS)

Science.gov (United States)

Hamann, H.; Jimenez Marianno, F.; Klein, L.; Albrecht, C.; Freitag, M.; Hinds, N.; Lu, S.

2015-12-01

A big data geospatial analytics platform:Physical Analytics Information Repository and Services (PAIRS)Fernando Marianno, Levente Klein, Siyuan Lu, Conrad Albrecht, Marcus Freitag, Nigel Hinds, Hendrik HamannIBM TJ Watson Research Center, Yorktown Heights, NY 10598A major challenge in leveraging big geospatial data sets is the ability to quickly integrate multiple data sources into physical and statistical models and be run these models in real time. A geospatial data platform called Physical Analytics Information and Services (PAIRS) is developed on top of open source hardware and software stack to manage Terabyte of data. A new data interpolation and re gridding is implemented where any geospatial data layers can be associated with a set of global grid where the grid resolutions is doubling for consecutive layers. Each pixel on the PAIRS grid have an index that is a combination of locations and time stamp. The indexing allow quick access to data sets that are part of a global data layers and allowing to retrieve only the data of interest. PAIRS takes advantages of parallel processing framework (Hadoop) in a cloud environment to digest, curate, and analyze the data sets while being very robust and stable. The data is stored on a distributed no-SQL database (Hbase) across multiple server, data upload and retrieval is parallelized where the original analytics task is broken up is smaller areas/volume, analyzed independently, and then reassembled for the original geographical area. The differentiating aspect of PAIRS is the ability to accelerate model development across large geographical regions and spatial resolution ranging from 0.1 m up to hundreds of kilometer. System performance is benchmarked on real time automated data ingestion and retrieval of Modis and Landsat data layers. The data layers are curated for sensor error, verified for correctness, and analyzed statistically to detect local anomalies. Multi-layer query enable PAIRS to filter different data

Monolithic integration of a silica AWG and Ge photodiodes on Si photonic platform for one-chip WDM receiver.

Science.gov (United States)

Nishi, Hidetaka; Tsuchizawa, Tai; Kou, Rai; Shinojima, Hiroyuki; Yamada, Takashi; Kimura, Hideaki; Ishikawa, Yasuhiko; Wada, Kazumi; Yamada, Koji

2012-04-09

On the silicon (Si) photonic platform, we monolithically integrated a silica-based arrayed-waveguide grating (AWG) and germanium (Ge) photodiodes (PDs) using low-temperature fabrication technology. We confirmed demultiplexing by the AWG, optical-electrical signal conversion by Ge PDs, and high-speed signal detection at all channels. In addition, we mounted a multichannel transimpedance amplifier/limiting amplifier (TIA/LA) circuit on the fabricated AWG-PD device using flip-chip bonding technology. The results show the promising potential of our Si photonic platform as a photonics-electronics convergence.

Towards a Framework of Digital Platform Disruption

DEFF Research Database (Denmark)

Kazan, Erol; Tan, Chee-Wee; Lim, Eric T. K.

2014-01-01

Digital platforms are disruptive information technology (IT) artifacts that erode conventional business logic associated with traditional market structures. This paper presents a framework for examining the disruptive potential of digital platforms whereby we postulate that the strategic interplay...... digital platforms purposely decouple platform layers, to foster open innovation and accelerate market disruption. This paper therefore represents a first concrete step aimed at unravelling the disruptive potential of digital platforms....... of governance regimes and platform layers is deterministic of whether disruptive derivatives are permitted to flourish. This framework has been employed in a comparative case study between centralized (i.e., PayPal) and decentralized (i.e., Coinkite) digital payment platforms to illustrate its applicability...

tranSMART: An Open Source and Community-Driven Informatics and Data Sharing Platform for Clinical and Translational Research.

Science.gov (United States)

Athey, Brian D; Braxenthaler, Michael; Haas, Magali; Guo, Yike

2013-01-01

tranSMART is an emerging global open source public private partnership community developing a comprehensive informatics-based analysis and data-sharing cloud platform for clinical and translational research. The tranSMART consortium includes pharmaceutical and other companies, not-for-profits, academic entities, patient advocacy groups, and government stakeholders. The tranSMART value proposition relies on the concept that the global community of users, developers, and stakeholders are the best source of innovation for applications and for useful data. Continued development and use of the tranSMART platform will create a means to enable "pre-competitive" data sharing broadly, saving money and, potentially accelerating research translation to cures. Significant transformative effects of tranSMART includes 1) allowing for all its user community to benefit from experts globally, 2) capturing the best of innovation in analytic tools, 3) a growing 'big data' resource, 4) convergent standards, and 5) new informatics-enabled translational science in the pharma, academic, and not-for-profit sectors.

MetaABC--an integrated metagenomics platform for data adjustment, binning and clustering.

Science.gov (United States)

Su, Chien-Hao; Hsu, Ming-Tsung; Wang, Tse-Yi; Chiang, Sufeng; Cheng, Jen-Hao; Weng, Francis C; Kao, Cheng-Yan; Wang, Daryi; Tsai, Huai-Kuang

2011-08-15

MetaABC is a metagenomic platform that integrates several binning tools coupled with methods for removing artifacts, analyzing unassigned reads and controlling sampling biases. It allows users to arrive at a better interpretation via series of distinct combinations of analysis tools. After execution, MetaABC provides outputs in various visual formats such as tables, pie and bar charts as well as clustering result diagrams. MetaABC source code and documentation are available at http://bits2.iis.sinica.edu.tw/MetaABC/ CONTACT: dywang@gate.sinica.edu.tw; hktsai@iis.sinica.edu.tw Supplementary data are available at Bioinformatics online.

eWALL: An Open-Source Cloud-Based eHealth Platform for Creating Home Caring Environments for Older Adults Living with Chronic Diseases or Frailty

DEFF Research Database (Denmark)

Kyriazakos, Sofoklis; Mihovska, Albena; Prasad, Ramjee

2017-01-01

present eWALL, an innovative open-source eHealth platform that aims to address these challenges by means of an advanced cloud-based infrastructure. eWALL is designed in an innovative manner and achieved technical breakthroughs in eHealth platforms, while prioritizing user and market needs that are often...... abandoned and are the major reason for technically sound solutions that fail. We consider this as an opportunity and we aim to change the eHealth systems’ experience for older adults and break the barriers for the penetration of ICT solutions....

An integrated sample pretreatment platform for quantitative N-glycoproteome analysis with combination of on-line glycopeptide enrichment, deglycosylation and dimethyl labeling