The Collage Authoring Environment

Nowakowski, Piotr; Ciepiela, Eryk; Harężlak, Daniel; Kocot, Joanna; Kasztelnik, Marek; Bartyński, Tomasz; Meizner, Jan; Dyk, Grzegorz; Malawski, Maciej

doi:10.1016/j.procs.2011.04.064

Cited by 46 publications

(24 citation statements)

References 9 publications

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“…In the present study, the influence of operating conditions (especially anodizing potential) on the structural features of nanoporous alumina and degree of pore order has been investigated by using the new, dedicated computational experiment [40] powered by the GridSpace2 Webbased distributed computing platform [41], published as an executable publication [42] using Collage Authoring Environment [43]. The changes in pore diameter and interpore distance of AAOs with applied potential during anodization were investigated in detail.…”

Section: Introductionmentioning

confidence: 99%

Analysis of nanopore arrangement and structural features of anodic alumina layers formed by two-step anodizing in oxalic acid using the dedicated executable software

et al. 2013

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Anodic porous alumina layers were fabricated by a two-step self-organized anodization in 0.3 M oxalic acid under various anodizing potentials ranging from 30 to 60 V at two different temperatures (10 and 17 • C). The effect of anodizing conditions on structural features and pore arrangement of AAO was investigated in detail by using the dedicated executable publication combined with ImageJ software. With increasing anodizing potential, a linear increase of the average pore diameter, interpore distance, wall thickness and barrier layer thickness, as well as a decrease of the pore density, were observed. In addition, the higher pore diameter and porosity values were obtained for samples anodized at the elevated temperature, independently of the anodizing potential. A degree of pore order was investigated on the basis of Delaunay triangulations (defect maps) and calculation of pair distribution or angle distribution functions (PDF or ADF), respectively. All methods confirmed that in order to obtain nanoporous alumina with the best, hexagonal pore arrangement, the potential of 40 V should be applied during anodization. It was confirmed that the dedicated executable publication can be used to a fast and complex

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Section: Introductionmentioning

confidence: 99%

Analysis of nanopore arrangement and structural features of anodic alumina layers formed by two-step anodizing in oxalic acid using the dedicated executable software

et al. 2013

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“…Several other approaches were reported in association with the Elsevier Executable Paper Grand Challenge [Gavish and Donoho 2011;Nowakowskia et al 2011;van Gorp and Mazanek 2011]. van Gorp and Mazanek [2011] proposed a web-based portal for creating and sharing ERPs.…”

Section: Workflow Management and Executable Research Papersmentioning

confidence: 99%

Bridging the Chasm

Storer

2017

ACM Comput. Surv.

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The use of software is pervasive in all fields of science. Associated software development efforts may be very large, long lived, and complex, requiring the commitment of significant resources. However, several authors have argued that the “gap” or “chasm” between software engineering and scientific programming is a serious risk to the production of reliable scientific results, as demonstrated in a number of case studies. This article reviews the research that addresses the gap, exploring how both software engineering and research practice may need to evolve to accommodate the use of software in science.

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“…Execution of software and workflows takes place on cloud computing architectures. Elsevier Publishing are currently beta testing the Collage authoring environment (Collage authoring environment, 2013;Nowakowski, et al, 2011) which implements a cloud-based framework for executable papers. The papers must be written in a special mark-up language but authors can attach executable code and data to them.…”

Section: Background and Overviewmentioning

confidence: 99%

“…Nowakowski et al (2011) state a number of objectives for interactive publications. We use similar objectives and state how we meet those objectives in Table 1.…”

Section: Carmen Vl Publications Objectivesmentioning

confidence: 99%

A Digital Repository and Execution Platform for Interactive Scholarly Publications in Neuroscience

et al. 2015

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Abstract:The CARMEN Virtual Laboratory (VL) is a cloud-based platform which allows neuroscientists to store, share, develop, execute, reproduce and publicise their work. This paper describes new functionality in the CARMEN VL: an interactive publications repository. This new facility allows users to link data and software to publications. This enables other users to examine data and software associated with the publication and execute the associated software within the VL using the same data as the authors used in the publication. The cloud-based architecture and SaaS (Software as a Service) framework allows vast data sets to be uploaded and analysed using software services. Thus, this new interactive publications facility allows others to build on research results through reuse. This aligns with recent developments by funding agencies, institutions, and publishers with a move to open access research. Open access provides reproducibility and verification of research resources and results. Publications and their associated data and software will be assured of long-term preservation and curation in the repository. Further, analysing research data and the evaluations described in publications frequently requires a number of execution stages many of which are iterative. The VL provides a scientific workflow environment to combine software services into a processing tree. These workflows can also be associated with publications and executed by users. The VL also provides a secure environment where users can decide the access rights for each resource to ensure copyright and privacy restrictions are met.

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The Collage Authoring Environment

Cited by 46 publications

References 9 publications

Analysis of nanopore arrangement and structural features of anodic alumina layers formed by two-step anodizing in oxalic acid using the dedicated executable software

Analysis of nanopore arrangement and structural features of anodic alumina layers formed by two-step anodizing in oxalic acid using the dedicated executable software

Bridging the Chasm

A Digital Repository and Execution Platform for Interactive Scholarly Publications in Neuroscience

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