39 result(s)
Page Size: 10, 20, 50
Export: bibtex, xml, json, csv
Order by:

CNR Author operator: and / or
more
Typology operator: and / or
Language operator: and / or
Date operator: and / or
more
Rights operator: and / or
2022 Journal article Open Access OPEN
Virtual research environments co-creation: the D4Science experience
Assante M., Candela L., Castelli D., Cirillo R., Coro G., Dell'Amico A., Frosini L., Lelii L., Lettere M., Mangiacrapa F., Pagano P., Panichi G., Piccioli T., Sinibaldi F.
Virtual research environments are systems called to serve the needs of their designated communities of practice. Every community of practice is a group of people dynamically aggregated by the willingness to collaborate to address a given research question. The virtual research environment provides its users with seamless access to the resources of interest (namely, data and services) no matter what and where they are. Developing a virtual research environment thus to guarantee its uptake from the community of practice is a challenging task. In this article, we advocate how the co-creation driven approach promoted by D4Science has proven to be effective. In particular, we present the co-creation options supported, discuss how diverse communities of practice have exploited these options, and give some usage indicators on the created VREs.Source: Concurrency and computation (Online) (2022). doi:10.1002/cpe.6925
DOI: 10.1002/cpe.6925
Project(s): AGINFRA PLUS via OpenAIRE, Blue Cloud via OpenAIRE, EOSC-Pillar via OpenAIRE, SoBigData-PlusPlus via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | onlinelibrary.wiley.com Restricted | CNR ExploRA Restricted


2022 Report Open Access OPEN
InfraScience research activity report 2021
Artini M., Assante M., Atzori C., Baglioni M., Bardi A., Bove P., Candela L., Casini G., Castelli D., Cirillo R., Coro G., De Bonis M., Debole F., Dell'Amico A., Frosini L., La Bruzzo S., Lazzeri E., Lelii L., Manghi P., Mangiacrapa F., Mangione D., Mannocci A., Ottonello E., Pagano P., Panichi G., Pavone G., Piccioli T., Sinibaldi F., Straccia U.
InfraScience is a research group of the National Research Council of Italy - Institute of Information Science and Technologies (CNR - ISTI) based in Pisa, Italy. This report documents the research activity performed by this group in 2021 to highlight the major results. In particular, the InfraScience group confronted with research challenges characterising Data Infrastructures, eScience, and Intelligent Systems. The group activity is pursued by closely connecting research and development and by promoting and supporting open science. In fact, the group is leading the development of two large scale infrastructures for Open Science, i.e. D4Science and OpenAIRE. During 2021 InfraScience members contributed to the publishing of 25 papers, to the research and development activities of 18 research projects (15 funded by EU), to the organization of conferences and training events, to several working groups and task forces.Source: ISTI Annual report, 2022
DOI: 10.32079/isti-ar-2022/001
Project(s): ARIADNEplus via OpenAIRE, Blue Cloud via OpenAIRE, PerformFISH via OpenAIRE, EOSC-Pillar via OpenAIRE, DESIRA via OpenAIRE, EOSC Future via OpenAIRE, EOSCsecretariat.eu via OpenAIRE, EcoScope via OpenAIRE, RISIS 2 via OpenAIRE, OpenAIRE-Advance via OpenAIRE, OpenAIRE Nexus via OpenAIRE, SoBigData-PlusPlus via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | CNR ExploRA Open Access


2022 Journal article Open Access OPEN
NAVIGATOR: an Italian regional imaging biobank to promote precision medicine for oncologic patients
Borgheresi R., Barucci A., Colantonio S., Aghakhanyan G., Assante M., Bertelli E., Carlini E., Carpi R., Caudai C., Cavallero D., Cioni D., Cirillo R., Colcelli V., Dell'Amico A., Di Gangi D., Erba P. A., Faggioni L., Falaschi Z., Gabelloni M., Gini R., Lelii L., Liò P., Lorito A., Lucarini S., Manghi P., Mangiacrapa F., Marzi C., Mazzei M. A., Mercatelli L., Mirabile A., Mungai F., Miele V., Olmastroni M., Pagano P., Paiar F., Panichi G., Pascali M. A., Pasquinelli F., Shortrede J. E., Tumminello L., Volterrani L., Neri E., On Behalf Of The Navigator Consortium Group
NAVIGATOR is an Italian regional project to boost precision medicine in oncology with the aim to make it more predictive, preventive, and personalised by advancing translational research based on quantitative imaging and integrative omics analyses. The project's goal is to develop an open imaging biobank for the collection and preservation of a large amount of standardised imaging multimodal datasets, including computed tomography, magnetic resonance imaging, and positron emission tomography data, together with the corresponding patient-related and omics-related relevant information extracted from regional healthcare services using an adapted privacy-preserving model. The project is based on an open-source imaging biobank and an open-science oriented virtual research environment (VRE). Available integrative omics and multi-imaging data of three use cases (prostate cancer, rectal cancer, and gastric cancer) will be collected. All data confined in NAVIGATOR (i.e. standard and novel imaging biomarkers, non-imaging data, health agency data) will be used to create a digital patient model, to support the reliable prediction of the disease phenotype and risk stratification. The VRE that relies on a well-established infrastructure, called D4Science.org, will further provide a multiset infrastructure for processing the integrative omics data, extracting specific radiomic signatures, and for identification and testing of novel imaging biomarkers through big data analytics and artificial intelligence.Source: European radiology experimental Online 6 (2022). doi:10.1186/s41747-022-00306-9
DOI: 10.1186/s41747-022-00306-9
Metrics:


See at: eurradiolexp.springeropen.com Open Access | ISTI Repository Open Access | CNR ExploRA Open Access


2021 Report Open Access OPEN
ARIADNEPlus - VREs operation mid-term activity report
Assante M., Cirillo R., Dell'Amico A., Pagano P., Candela L., Frosini L., Lelii L., Mangiacrapa F., Panichi G., Sinibaldi F.
This deliverable D13.2 - "VREs Operation Mid-term Activity Report" describes the activities carried out during the first 24 months of the ARIADNEplus project within Work Package 13. Specifically, in Task 13.1 Infrastructure Operation (JRA2.1) and Task 13.3 VREs Operation (JRA2.3). It reports the procedures governing the operation of the VREs as well as the status of the aggregated resources at mid-term in the ARIADNEplus infrastructure.Source: Project report, ARIADNEplus, D13.2, 2021
Project(s): ARIADNEplus via OpenAIRE

See at: ISTI Repository Open Access | CNR ExploRA Open Access


2021 Conference article Open Access OPEN
Realising a science gateway for the Agri-food: the AGINFRAplus experience
Assante M., Boizet A., Candela L., Castelli D., Cirillo R., Coro G., Fernandez E., Filter M., Frosini L., Kakaletris G., Katsivelis P., Knapen R., Lelii L., Lokers R., Mangiacrapa F., Pagano P., Panichi G., Penev L., Sinibaldi F., Zervas P.
The enhancements in IT solutions and the open science movement are injecting changes in the practices dealing with data collection, collation, processing and analytics, and publishing in all the domains, including agri-food. However, in implementing these changes one of the major issues faced by the agri-food researchers is the fragmentation of the "assets" to be exploited when performing research tasks, e.g. data of interest are heterogeneous and scattered across several repositories, the tools modellers rely on are diverse and often make use of limited computing capacity, the publishing practices are various and rarely aim at making available the "whole story" with datasets, processes, workflows. This paper presents the AGINFRA PLUS endeavour to overcome these limitations by providing researchers in three designated communities with Virtual Research Environments facilitating the use of the "assets" of interest and promote collaboration.Source: 11th International Workshop on Science Gateways, Ljubljana, Slovenia, 12-14/06/2019
Project(s): AGINFRA PLUS via OpenAIRE

See at: ceur-ws.org Open Access | ISTI Repository Open Access | CNR ExploRA Open Access


2021 Report Open Access OPEN
InfraScience Research Activity Report 2020
Artini M., Assante M., Atzori C., Baglioni M., Bardi A., Candela L., Casini G., Castelli D., Cirillo R., Coro G., Debole F., Dell'Amico A., Frosini L., La Bruzzo S., Lazzeri E., Lelii L., Manghi P., Mangiacrapa F., Mannocci A., Pagano P., Panichi G., Piccioli T., Sinibaldi F., Straccia U.
InfraScience is a research group of the National Research Council of Italy - Institute of Information Science and Technologies (CNR - ISTI) based in Pisa, Italy. This report documents the research activity performed by this group in 2020 to highlight the major results. In particular, the InfraScience group confronted with research challenges characterising Data Infrastructures, e\-Sci\-ence, and Intelligent Systems. The group activity is pursued by closely connecting research and development and by promoting and supporting open science. In fact, the group is leading the development of two large scale infrastructures for Open Science, \ie D4Science and OpenAIRE. During 2020 InfraScience members contributed to the publishing of 30 papers, to the research and development activities of 12 research projects (11 funded by EU), to the organization of conferences and training events, to several working groups and task forces.Source: ISTI Annual Report, ISTI-2021-AR/002, pp.1–20, 2021
DOI: 10.32079/isti-ar-2021/002
Project(s): ARIADNEplus via OpenAIRE, Blue Cloud via OpenAIRE, PerformFISH via OpenAIRE, EOSC-Pillar via OpenAIRE, DESIRA via OpenAIRE, EOSCsecretariat.eu via OpenAIRE, RISIS 2 via OpenAIRE, TAILOR via OpenAIRE, I-GENE via OpenAIRE, MOVING via OpenAIRE, OpenAIRE-Advance via OpenAIRE, SoBigData-PlusPlus via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | CNR ExploRA Open Access


2021 Report Open Access OPEN
Blue Cloud - D4.4: Blue Cloud VRE Common Facilities (Release 2)
Assante M., Candela L., Pagano P., Cirillo R., Dell'Amico A., Frosini L., Lelii L., Lettere M., Mangiacrapa F., Panichi G., Sinibaldi F.
The Blue-Cloud project is piloting a cyber platform bringing together and providing access to multidisciplinary data from observations and models, analytical tools, and computing facilities essential to support research to understand better and manage the many aspects of ocean sustainability. This goal is realised by developing, deploying and operating the Blue-Cloud platform whose architecture consists of two major families of components: (a) the Blue Cloud Data Discovery and Access System to serve federated discovery and access to 'blue data' infrastructures; and (b) the Blue Cloud Virtual Research Environment (VRE) component to provide a Blue Cloud VRE as a federation of computing platforms and analytical services. This Deliverable D4.4 "Blue Cloud VRE Common Facilities (Release 2)" is the revised version of the D4.2 "Blue Cloud VRE Common Facilities (Release 1)". This revised version of the document covers the second period of the project, from M13 up to M27, including the up-to-date information of the services reported on D4.2 and the new services that have been developed and added to the VRE common facilities in the reporting period to serve the needs of the Blue Cloud community. The major changes and new services this deliverable introduces are: an Orchestrator (cf. Sec. 3.3), i.e. a software that allows for a declarative, technology agnostic definition of workflows to coordinate the execution of tasks across diverse services and systems; enhancements to the Workspace service to support tailored storage persistence and satisfy different application scenarios (cf. Sec. 4.1); enhancements in the Publishing Framework (cf. Sec. 6), namely the catalogue extension to deposit catalogue items to Zenodo and the facility to publish geospatial data from the workspace; the facility to interface with the Data Discovery & Access System (cf. Sec. 7.1) to transfer datasets of interest into the workspace for future uses; the notebook to facilitate the exploitation of the WEkEO Harmonised Data Access (HDA) API (cf. Sec. 7.2). This deliverable also updates the Identity and Access Management (cf. Sec. 3.1) and the Analytics Framework (cf. Sec. 5.1 and Sec 5.2) with minor changes reflecting the activities performed in the reporting period. A description of all the services previously documented in D4.2, not modified in the period, is preserved for this document to be self-contained and provide the reader with an overall description of the whole VRE Common Facilities offering. A total of 15 services and components are described in this deliverable by reporting their design principles, architecture and main features. These services and components contribute functionalities to the Blue Cloud VRE Enabling Framework (Identity and Access Management, VRE Management, Orchestrator), Collaborative framework (Workspace and Social Networking), Analytics Framework (Software and Algorithm Importer, Smart Executor), Publishing Framework (Catalogue Service) and improved support for RStudio, JupyterHub, ShinyProxy, and Docker Applications. Additionally, two new VRE services, aiming at bridging two VRE external systems such as the the WEkEO1 catalogue from Copernicus and the Data Discovery and Access from Blue-Cloud with the VRE tools are described. Services and components discussed in this deliverable have contributed to 14 gCube releases, from gCube 4.26 (November 2020) to gCube 5.6.0 (November 2021). They have been used to develop and operate the Virtual Laboratories of the Blue Cloud gateway https://blue-cloud.d4science.org and its underlying infrastructure. At the time of this deliverable the Blue-Cloud gateway and its services are serving more than 730 users with a total of 19000+ working sessions.Source: ISTI Project report, Blue Cloud, D4.4, 2021
Project(s): Blue Cloud via OpenAIRE

See at: ISTI Repository Open Access | CNR ExploRA Open Access


2021 Report Open Access OPEN
DESIRA - D5.2: Virtual Research Environment Operation Report years 1-2
Assante M., Candela L., Cirillo R., Dell'Amico A., Frosini L., Lelii L., Mangiacrapa F., Pagano P., Panichi G., Sinibaldi F.
This deliverable D5.2 "Virtual Research Environment Operation Report years 1-2" describes the activities carried out during the first 24 months of the DESIRA project within Work Package 5. Specifically in Task 5.1 "Knowledge Infrastructure: the DESIRA Virtual Research Environment" and Task 5.2 "Integration of Services and Tools, and Use Reporting". It reports the procedures governing the operation of the VREs as well as the status of the aggregated resources at mid-term in the DESIRA infrastructure. Virtual Research Environments (VREs) are "systems" specifically conceived to provide their users with a web-based set of facilities (including services, data and computational facilities) to accomplish a set of tasks by dynamically relying on the underlying infrastructure. VREs are among the key products to be developed and delivered by the DESIRA project to support Project coordination, Living Labs activities and Rural Digitization Forums activities. The development of VREs is based on three main activities: (i) the development of software artefacts that realise a set of functions (including those needed for accessing specific datasets), (ii) the deployment of these artefacts in an operational infrastructure following the release procedures and tools, and (iii) the final deployment and operation of well-defined Virtual Research Environments by exploiting the facilities offered by the underlying D4Science infrastructure and its services [1, 2]. This report documents the last of the above three activities - i.e. the exploitation of the services and technologies offered by the underlying infrastructure to serve the needs of defined scenarios - as implemented in the context of the DESIRA project from June 2019 to May 2021. The DESIRA Infrastructure Gateway actually offers end-user access to 14 VREs. As of June 2019, 1 VREs were created and operated. Specifically, the DESIRA Project VRE (cf. Sec 3.1.1) was created before the project kick-off. As of May 2021, these VREs have served the needs of more than 370 users and more than 7.000 user sessions. This required dealing with 177 tickets (103 related to the project management, 28 requests for support and enhancements, five requests for incidents and bugs, 14 requests for VRE creations).Source: ISTI Project report, DESIRA, D5.2, 2021
Project(s): DESIRA via OpenAIRE

See at: ISTI Repository Open Access | CNR ExploRA Open Access


2021 Report Open Access OPEN
SoBigData-PlusPlus - D9.1: SoBigData e-Infrastructure Operation Report 1
Assante M., Candela L., Cirilli R., Dell'Amico A., Frosini L., Lelii L., Mangiacrapa F., Pagano P., Panichi G., Sinibaldi F.
This deliverable describes the activities carried out during the first 18 months within Work Package 9 for the SoBigData e-Infrastructure operation activity since its deployment, including a detailed set of usage indicators (i.e. the number of users, accesses to resources, usage of resources from scientists, etc.). It also reports the deployment and procedures governing the operation of the Virtual Research Environments, the catalogue, and the ones for the services devoted to Data Analytics. A total of 15 Virtual Research Environments (VREs) have been created and are operational. In particular, the SoBigData gateway provide its users with: 6 Exploratories VREs paired with the use cases (Demography, Economy & Finance 2.0; Migration Studies; Societal Debates and Misinformation Analysis; Social Impacts of AI and Explainable Machine Learning; Sports Data Science; Sustainable Cities for Citizens); 2 Virtual Lab VREs - SoBigDataLab and OpenScienceGraphLab to exploit and experiment tools and solutions; 3 Applications VREs - TagME, SMAPH, M-Atlas; 2 Project Internal VREs - SoBigData.eu VRE for the communications and collaboration among project and initiative members and SBD-InfraCore VRE for supporting SoBigData-PlusPlus WP9; and 2 Literacy And Training VREs - the SoBigDataLiteracy, supporting Critical Data Literacy of task T.2.4, creating a curated collection of literature of interest for the SoBigData Community, and the e-Learning_Area VRE to host training materials developed within the SoBigData project. As of June '21, the 15 existing VREs served more than 8,000 users by a total of more than 30,000 working sessions, with an average of 1500 working sessions per month with increasing trend. This required to deal with approximately 40 issue tracker tickets (14 requests for support, 6 requests for incidents and bugs, 9 requests for new features, and 9 requests for Virtual Machine or Container creations).Source: ISTI Project report, SoBigData-PlusPlus, D9.1, 2021
Project(s): SoBigData-PlusPlus via OpenAIRE

See at: CNR ExploRA Open Access


2020 Contribution to book Open Access OPEN
Data Processing and Analytics for Data-Centric Sciences
Candela L., Coro G., Lelii L., Panichi G., Pagano P.
The development of data processing and analytics tools is heavily driven by applications, which results in a great variety of software solutions, which often address specific needs. It is difficult to imagine a single solution that is universally suitable for all (or even most) application scenarios and contexts. This chapter describes the data analytics framework that has been designed and developed in the ENVRIplus project to be (a) suitable for serving the needs of researchers in several domains including environmental sciences, (b) open and extensible both with respect to the algorithms and methods it enables and the computing platforms it relies on to execute those algorithms and methods, and (c) open-science-friendly, i.e. it is capable of incorporating every algorithm and method integrated into the data processing framework as well as any computation resulting from the exploitation of integrated algorithms into a "research object" catering for citation, reproducibility, repeatability and provenance.Source: Towards Interoperable Research Infrastructures for Environmental and Earth Sciences. A Reference Model Guided Approach for Common Challenges., edited by Zhao Z.; Hellström M., pp. 176–191, 2020
DOI: 10.1007/978-3-030-52829-4_10
Project(s): ENVRI PLUS via OpenAIRE
Metrics:


See at: doi.org Open Access | link.springer.com Open Access | link.springer.com Open Access | ISTI Repository Open Access | CNR ExploRA Open Access


2020 Journal article Open Access OPEN
NLPHub: an e-Infrastructure-based text mining hub
Coro G., Panichi G., Pagano P., Perrone E.
Text mining involves a set of processes that analyze text to extract high-quality information. Among its large number of applications, there are experiments that tackle big data challenges using complex system architectures. However, text mining approaches are neither easy to discover and use nor easily combinable by end-users. Furthermore, they should be contextualized within new approaches to science (eg, Open Science) that ensure longevity and reuse of methods and results. This article presents NLPHub, a distributed system that orchestrates and combines several state-of-the-art text mining services that recognize spatiotemporal events, keywords, and a large set of named entities. NLPHub adopts an Open Science approach, which fosters the reproducibility, repeatability, and reusability of methods and results, by using an e-Infrastructure supporting data-intensive Science.NLPHubaddsOpenScience-compliance to the connected services through the use of representational standards for services and computations. It also manages heterogeneous service access policies and enables collaboration and sharing facilities. This article reports a performance assessment based on an annotated corpus of named entities, which demonstrates that NLPHub can improve the performance of the single-integrated processes by cleverly combining their output.Source: Concurrency and computation (Online) (2020): e5986. doi:10.1002/cpe.5986
DOI: 10.1002/cpe.5986
Project(s): PARTHENOS via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | Concurrency and Computation Practice and Experience Restricted | onlinelibrary.wiley.com Restricted | CNR ExploRA Restricted


2020 Journal article Open Access OPEN
Realizing virtual research environments for the agri-food community: the AGINFRA PLUS experience
Assante M., Boizet A., Candela L., Castelli D., Cirillo R., Coro G., Fernández E., Filter M., Frosini L., Georgiev T., Kakaletris G., Katsivelis P., Knapen R., Lelii L., Lokers R. M., Mangiacrapa F., Manouselis N., Pagano P., Panichi G., Penev L., Sinibaldi F.
The enhancements in IT solutions and the open science movement are injecting changes in the practices dealing with data collection, collation, processing, analytics, and publishing in all the domains, including agri-food. However, in implementing these changes one of the major issues faced by the agri-food researchers is the fragmentation of the "assets" to be exploited when performing research tasks, for example, data of interest are heterogeneous and scattered across several repositories, the tools modelers rely on are diverse and often make use of limited computing capacity, the publishing practices are various and rarely aim at making available the "whole story" including datasets, processes, and results. This paper presents the AGINFRA PLUS endeavor to overcome these limitations by providing researchers in three designated communities with Virtual Research Environments facilitating the use of the "assets" of interest and promote collaboration.Source: Concurrency and computation (Online) 33 (2020). doi:10.1002/cpe.6087
DOI: 10.1002/cpe.6087
Project(s): AGINFRA PLUS via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | Concurrency and Computation Practice and Experience Restricted | Hyper Article en Ligne Restricted | onlinelibrary.wiley.com Restricted | CNR ExploRA Restricted | NARCIS Restricted


2020 Report Open Access OPEN
Blue Cloud - D4.2: Blue Cloud VRE Common Facilities (Release 1)
Assante M., Candela L., Pagano P., Dell'Amico A., Coro G., Cirillo R., Frosini L., Lelii L., Lettere M., Mangiacrapa F., Panichi G., Sinibaldi F.
The Blue-Cloud project plans to pilot a cyber platform bringing together and providing access to multidisciplinary data from observations and models, analytical tools, and computing facilities essential to support research to understand better and manage the many aspects of ocean sustainability. To achieve this goal, Blue-Cloud is developing, deploying, and operating the Blue-Cloud platform whose architecture consists of two families of components: (a) the Blue Cloud Data Discovery and Access service component to serve federated discovery and access to 'blue data' infrastructures; and (b) the Blue Cloud Virtual Research Environment (VRE) component to provide a Blue Cloud VRE as a federation of computing platforms and analytical services. This deliverable presents the Blue Cloud Virtual Research Environment constituents by focusing on both new services and revised existing services that have been developed in the reporting period to serve the needs of the Blue Cloud community. In particular, this deliverable describes a total of 11 services and components. These services and components contribute functionalities to the Blue Cloud VRE Enabling Framework (Identity and Access Management, VRE Management), Collaborative framework (Workspace and Social Networking), Analytics Framework (Software and Algorithm Importer, Smart Executor), Publishing Framework (Catalogue Service) and improved support for RStudio, JupyterHub, ShinyProxy, and Docker Applications. The services are described below by reporting their design principles, architectures, and main features. The deliverable also describes the procedures and approaches governing services and components released by highlighting how Gitea (as Git hosting service), Jenkins (as automation server), and Maven (as project management and comprehension tool) are used to guarantee continuous integration processes. Services and components discussed in this deliverable contribute to 11 gCube open-source software system releases (from gCube 4.16 up to gCube 4.25.1) and are in the pipeline for the next ones. They have been used to develop and operate the Virtual Laboratories of the Blue Cloud gateway https://blue-cloud.d4science.org and its underlying infrastructure. At the time of this deliverable (November 2020), the gateway hosts a total of 8 VREs and VLabs, including five specifically conceived to support the co-development of some of the Blue-Cloud demonstrators (namely, the Aquaculture Atlas Generation for Demonstrator #5, the Blue-Cloud Lab for several demonstrators, the GRSF pre for Demonstrator #4, the Marine Environmental Indicators for Demonstrator #3, the Zoo-Phytoplankton EOV for Demonstrator #1). This gateway and its tools serve more than 400 users that (since January 2020) performed a total of more than 5000 working sessions, more than 1700 accesses to the Workspace, and more than 750 analytics tasks. These exploitation and uptake indicators are likely to grow in the coming months thanks to data updates and continued use, further development of existing VLabs, and finally, the creation of new ones.Source: Project Report, Blue Cloud, D4.2, 2020
Project(s): Blue Cloud via OpenAIRE

See at: ISTI Repository Open Access | CNR ExploRA Open Access


2019 Journal article Open Access OPEN
Reconstructing 3D virtual environments within a collaborative e-infrastructure
Coro G., Palma M., Ellenbroek A., Panichi G., Nair T., Pagano P.
Sets of two dimensional images are insufficient to capture the development in time and space of three-dimensional structures. The 2D 'flattening' of photographs results in a significant loss of features especially if the photos were taken by one person. Automatically collecting and aligning photos in order to render 3D structures from 2D images without specialized equipment, is currently a complex process that requires specialist knowledge with often limited results. In this paper, an Open Science oriented workflow is proposed where an on-line file system is used to share photos of an object or an environment and to produce a virtual reality scene as a navigable 3D reconstruction that can be shared with other people. Our workflow is based on a distributed e-Infrastructure and overcomes common limitations of other approaches by having all the used technology integrated on the same platform and by not requiring specialist knowledge. A performance evaluation of the 3D reconstruction process embedded in the workflow is reported against a commercial software and an open-source software in terms of computational efficiency and reconstruction accuracy, and three marine science use cases are reported to show potential applications of the workflow.Source: Concurrency and Computation: Practice and Experience 31 (2019). doi:10.1002/cpe.5028
DOI: 10.1002/cpe.5028
Project(s): MERCES via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | Concurrency and Computation Practice and Experience Restricted | onlinelibrary.wiley.com Restricted | CNR ExploRA Restricted


2019 Journal article Open Access OPEN
The gCube system: delivering virtual research environments as-a-service
Assante M., Candela L., Castelli D., Cirillo R., Coro G., Frosini L., Lelii L., Mangiacrapa F., Marioli V., Pagano P., Panichi G., Perciante C., Sinibaldi F.
Important changes have characterised research and knowledge production in recent decades. These changes are associated with developments in information technologies and infrastructures. The processes characterising research and knowledge production are changing through the digitalization of science, the virtualisation of research communities and networks, the offering of underlying systems and services by infrastructures. This paper gives an overview of gCube, a software system promoting elastic and seamless access to research assets (data, services, computing) across the boundaries of institutions, disciplines and providers to favour collaboration-oriented research tasks. gCube's technology is primarily conceived to enable Hybrid Data Infrastructures facilitating the dynamic definition and operation of Virtual Research Environments. To this end, it offers a comprehensive set of data management commodities on various types of data and a rich array of "mediators" to interface well-established Infrastructures and Information Systems from various domains. Its effectiveness has been proved by operating the D4Science.org infrastructure and serving concrete, multidisciplinary, challenging, and large scale scenarios.Source: Future generation computer systems 95 (2019): 445–453. doi:10.1016/j.future.2018.10.035
DOI: 10.1016/j.future.2018.10.035
DOI: 10.5281/zenodo.3080894
DOI: 10.5281/zenodo.3080895
Project(s): AGINFRA PLUS via OpenAIRE, BlueBRIDGE via OpenAIRE, ENVRI PLUS via OpenAIRE, EOSCpilot via OpenAIRE
Metrics:


See at: ZENODO Open Access | ZENODO Open Access | ISTI Repository Open Access | OpenAIRE Open Access | Future Generation Computer Systems Open Access | Future Generation Computer Systems Restricted | CNR ExploRA Restricted | www.sciencedirect.com Restricted


2019 Journal article Open Access OPEN
Enacting open science by D4Science
Assante M., Candela L., Castelli D., Cirillo R., Coro G., Frosini L., Lelii L., Mangiacrapa F., Pagano P., Panichi G., Sinibaldi F.
The open science movement is promising to revolutionise the way science is conducted with the goal to make it more fair, solid and democratic. This revolution is destined to remain just a wish if it is not supported by changes in culture and practices as well as in enabling technologies. This paper describes the D4Science offerings to enact open science-friendly Virtual Research Environments. In particular, the paper describes how complete solutions suitable for realising open science practices can be achieved by integrating a social networking collaborative environment with a shared workspace, an open data analytics platform, and a catalogue enabling to effectively find, access and reuse every research artefact.Source: Future generation computer systems (2019): 555–563. doi:10.1016/j.future.2019.05.063
DOI: 10.1016/j.future.2019.05.063
Project(s): AGINFRA PLUS via OpenAIRE, BlueBRIDGE via OpenAIRE, ENVRI PLUS via OpenAIRE, EOSCpilot via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | Future Generation Computer Systems Restricted | CNR ExploRA Restricted


2019 Conference article Open Access OPEN
An Open Science System for Text Mining
Coro G., Panichi G., Pagano P.
Text mining (TM) techniques can extract high-quality information from big data through complex system architectures. However, these techniques are usually difficult to discover, install, and combine. Further, modern approaches to Science (e.g. Open Science) introduce new requirements to guarantee reproducibility, repeatability, and re-usability of methods and results as well as their longevity and sustainability. In this paper, we present a distributed system (NLPHub) that publishes and combines several state-of-the art text mining services for named entities, events, and keywords recognition. NLPHub makes the integrated methods compliant with Open Science requirements and manages heterogeneous access policies to the methods. In the paper, we assess the benefits and the performance of NLPHub on the I-CAB corpus.Source: CLiC-it 2019 Italian Conference on Computational Linguistic, pp. 1–7, Bari, Italy, 13-15/11/2019
Project(s): PARTHENOS via OpenAIRE

See at: disi.unitn.it Open Access | ISTI Repository Open Access | CNR ExploRA Open Access


2019 Report Restricted
PARTHENOS - Deliverable 6.6 - PARTHENOS Cloud Infrastructure
Pagano P., Assante M., Frosini L., Manghi P., Bardi A., Sinibaldi F., Cirillo R., Panichi G.
"D6.6 PARTHENOS cloud infrastructure" is the revised and final version of "D6.1 PARTHENOS cloud infrastructure". This deliverable reports the PARTHENOS e-infrastructure architecture: the hardware and the services. Hardware is organized as a dynamic cloud of virtual machines, supporting computation and storage, while the services are organized into e-infrastructure middleware, storage, and end user services.Source: Project report, PARTHENOS, Deliverable D6.6, pp.1–63, 2019
Project(s): PARTHENOS via OpenAIRE

See at: data.d4science.net Restricted | CNR ExploRA Restricted


2018 Report Open Access OPEN
ENVRIplus - Interoperable data processing services for environmental RI projects: prototype
Candela L., Cirillo R., Coro G., Pagano P., Panichi G.
This deliverable documents the implementation of the data processing solution defined in D7.1 "Interoperable data processing for environmental RIs projects: system design". The actual deliverable consists of the software realising the envisaged solution and the instances of it made available to the ENVRI community in the large. The distinguishing features of the proposed solution are (a) to be suitable for serving the needs of scientists involved in ENVRI RIs, (b) to be open and extensible both with respect to the algorithms and methods it enables and the computing platforms it relies on to execute those algorithms and methods, (c) to be open-science-friendly, i.e. it is capable of incorporating every algorithm and method integrated into the data processing framework as well as any computation resulting from the exploitation of integrated algorithms into a "research object" catering for citation, reproducibility, repeatability and provenance. The proposed solution is part of a larger software system named gCube and has been provisioned to ENVRI RIs via several Virtual Research Environments operated by D4Science.Source: Project report, ENVRIplus, Deliverable D7.2, 2018
Project(s): ENVRI PLUS via OpenAIRE

See at: ISTI Repository Open Access | CNR ExploRA Open Access


2017 Journal article Open Access OPEN
Cloud computing in a distributed e-infrastructure using the Web processing service standard
Coro G., Panichi G., Scarponi P., Pagano P.
New Science paradigms have recently evolved to promote open publication of scientific findings as well as multi-disciplinary collaborative approaches to scientific experimentation. These approaches can face modern scientific challenges but must deal with large quantities of data produced by industrial and scientific experiments. These data, so-called "Big Data", require to introduce new Computer Science systems to help scientists cooperate, extract information, and possibly produce new knowledge out of the data. E-Infrastructures are distributed computer systems that foster collaboration between users and can embed distributed and parallel processing systems to manage Big Data. However, in order to meet modern Science requirements, e-Infrastructures impose several requirements to computational systems in turn, e.g. being economically sustainable, managing community-provided processes, using standard representations for processes and data, managing Big Data size and heterogeneous representations, supporting reproducible Science, collaborative experimentation, and cooperative online environments, managing security and privacy for data and services. In this paper, we present a Cloud computing system (gCube DataMiner) that meets these requirements and operates in an e-Infrastructure, while sharing characteristics with state-of-the-art Cloud computing systems. To this aim, DataMiner uses the Web Processing Service standard of the Open Geospatial Consortium and introduces features like collaborative experimental spaces, automatic installation of processes and services on top of a flexible and sustainable Cloud computing architecture. We compare DataMiner with another mature Cloud computing system and highlight the benefits our system brings, the new paradigms requirements it satisfies, and the applications that can be developed based on this system.Source: Concurrency and computation (Online) 29 (2017). doi:10.1002/cpe.4219
DOI: 10.1002/cpe.4219
Project(s): BlueBRIDGE via OpenAIRE
Metrics:


See at: ISTI Repository Open Access | Concurrency and Computation Practice and Experience Restricted | onlinelibrary.wiley.com Restricted | CNR ExploRA Restricted