scholarly journals Embedding Analytics within the Curation of Scientific Workflows

2020 ◽  
Vol 15 (1) ◽  
pp. 8
Author(s):  
Gerard Weatherby ◽  
Michael Robert Gryk
Keyword(s):  
Hybrid Approach ◽  
Workflow Management ◽  
Scientific Data ◽  
Data Reuse ◽  
Biomolecular Nmr ◽  
Domain Experts ◽  
Workflow Execution ◽  
Manual Intervention ◽  
Workflow System ◽  
Computational Workflow

This paper reports on the ongoing activities and curation practices of the National Center for Biomolecular NMR Data Processing and Analysis1. Over the past several years, the Center has been developing and extending computational workflow management software for use by a community of biomolecular NMR spectroscopists. Previous work had been to refactor the workflow system to utilize the PREMIS framework for reporting retrospective provenance as well as for sharing workflows between scientists and to support data reuse. In this paper, we report on our recent efforts to embed analytics within the workflow execution and within provenance tracking. Important metrics for each of the intermediate datasets are included within the corresponding PREMIS intellectual object, which allows for both inspection of the operation of individual actors as well as visualization of the changes throughout a full processing workflow. These metrics can be viewed within the workflow management system or through standalone metadata widgets. Our approach is to support a hybrid approach of both automated, workflow execution as well as manual intervention and metadata management. In this combination, the workflow system and metadata widgets encourage the domain experts to be avid curators of the data which they create, fostering both computational reproducibility and scientific data reuse.  

Using Time Reachability Tree Logic to Specifying and Verifying Temporal Behavior of Workflow-Net

2014 ◽  
Vol 571-572 ◽  
pp. 528-534
Author(s):  
Chyun Chyi Chen ◽  
Yueh Min Huang
Keyword(s):  
Petri Nets ◽  
Workflow Management ◽  
Schedulability Analysis ◽  
Temporal Behavior ◽  
Time Petri Nets ◽  
Reachability Graph ◽  
Workflow Execution ◽  
Workflow System ◽  
Timing Properties ◽  
Reachability Tree

Workflow management has been a hot issue in both academic and industrial research. Deadline assignment is of great significance in workflow management. In order to avoid deadline violation, this paper presents an approach to the schedulability analysis of workflow system modeled in p-time Petri nets by separating timing properties from other behavior properties. The analysis of behavioral properties is conducted based on the reachability graph of the underlying p-Time Petri net, whereas timing constraints are checked in term of absolute and relative firing domains. Our technique is based on a concept called clock-stamped state class (CS-class) and temporal logic. With the reachability graph generated based on CS-class, we can directly compute the end-to-end time delay in workflow execution. We have identified a class of well-structured p-time Petri nets such that their reachability can be easy analyzed and temporal behavior can be easy analyzed by time reachability tree logical.

scholarly journals AdaptFlow: Protocol-based Medical Treatment Using Adaptive Workflows

2005 ◽  
Vol 44 (01) ◽  
pp. 80-88 ◽  
Author(s):  
R. Mueller ◽  
E. Rahm ◽  
J. Ramsch ◽  
B. Heller ◽  
M. Loeffler ◽  
...  
Keyword(s):  
Evaluation Studies ◽  
Hybrid Approach ◽  
Workflow Management ◽  
Rule Base ◽  
Consultation System ◽  
Number Of Patients ◽  
Automatic Adaptation ◽  
The Status ◽  
Trial Protocols ◽  
Workflow Adaptation

Summary Objectives: In many medical domains investigator-initiated clinical trials are used to introduce new treatments and hence act as implementations of guideline-based therapies. Trial protocols contain detailed instructions to conduct the therapy and additionally specify reactions to exceptional situations (for instance an infection or a toxicity). To increase quality in health care and raise the number of patients treated according to trial protocols, a consultation system is needed that supports the handling of the complex trial therapy processes efficiently. Our objective was to design and evaluate a consultation system that should 1) observe the status of the therapies currently being applied, 2) offer automatic recognition of exceptional situations and appropriate decision support and 3) provide an automatic adaptation of affected therapy processes to handle exceptional situations. Methods: We applied a hybrid approach that combines process support for the timely and efficient execution of the therapy processes as offered by workflow management systems with a knowledge and rule base and a mechanism for dynamic workflow adaptation to change running therapy processes if induced by changed patient condition. Results and Conclusions: This approach has been implemented in the AdaptFlow prototype. We performed several evaluation studies on the practicability of the approach and the usefulness of the system. These studies show that the AdaptFlow prototype offers adequate support for the execution of real-world investigator-initiated trial protocols and is able to handle a large number of exceptions.

An exploratory study of health scientists’ data reuse behaviors

2017 ◽  
Vol 69 (4) ◽  
pp. 389-407 ◽  
Author(s):  
Soohyung Joo ◽  
Sujin Kim ◽  
Youngseek Kim
Keyword(s):  
Organizational Support ◽  
Exploratory Study ◽  
Scientific Data ◽  
Perceived Usefulness ◽  
Data Reuse ◽  
Health Science ◽  
Equation Modeling ◽  
Survey Method ◽  
Research Model ◽  
Content Type

Purpose The purpose of this paper is to examine how health scientists’ attitudinal, social, and resource factors affect their data reuse behaviors. Design/methodology/approach A survey method was utilized to investigate to what extent attitudinal, social, and resource factors influence health scientists’ data reuse behaviors. The health scientists’ data reuse research model was validated by using partial least squares (PLS) based structural equation modeling technique with a total of 161 health scientists in the USA. Findings The analysis results showed that health scientists’ data reuse intentions are driven by attitude toward data reuse, community norm of data reuse, disciplinary research climate, and organizational support factors. This research also found that both perceived usefulness of data reuse and perceived concern involved in data reuse have significant influences on health scientists’ attitude toward data reuse. Research limitations/implications This research evaluated its newly proposed research model based on the theory of planned behavior using a sample from the community of scientists’ scholar database. This research showed an overall picture of how attitudinal, social, and resource factors influence health scientists’ data reuse behaviors. This research is limited due to its sample size and low response rate, so this study is considered as an exploratory study rather than a confirmatory study. Practical implications This research suggested for health science research communities, academic institutions, and libraries that diverse strategies need to be utilized to promote health scientists’ data reuse behaviors. Originality/value This research is one of initial studies in scientific data reuse which provided a holistic map about health scientists’ data sharing behaviors. The findings of this study provide the groundwork for strategies to facilitate data reuse practice in health science areas.

The Workflow Management System Basing on the Flexibility of Rule Engine

2013 ◽  
Vol 411-414 ◽  
pp. 2384-2386
Author(s):  
Xiao Xiong Zeng
Keyword(s):  
Management System ◽  
Workflow Management ◽  
Basic Function ◽  
Workflow Management System ◽  
Rule Engine ◽  
Business Logic ◽  
Business Rule ◽  
Workflow System ◽  
Catch Up

The flexibility is always a big trouble of workflow system. For nowadays, in order to catch up with the new management of company, the traditional workflow has to be upgraded too. Being used as a small control to assist the development of controlling the flow, the rule engine separates the business rule from business logic and manages them as a whole part in order to improve the flexibility and agility of traditional workflow while the basic function of workflow would be maintained, then to attain the decoupled nature and generality of the software.

Internet researchers’ data sharing behaviors

2018 ◽  
Vol 42 (1) ◽  
pp. 124-142 ◽  
Author(s):  
Youngseek Kim ◽  
Seungahn Nah
Keyword(s):  
Social Norms ◽  
Data Sharing ◽  
Positive Impact ◽  
Scientific Data ◽  
Data Reuse ◽  
Equation Modeling ◽  
Data Repository ◽  
Data Repositories ◽  
Content Type ◽  
And Behaviors

Purpose The purpose of this paper is to examine how data reuse experience, attitudinal beliefs, social norms, and resource factors influence internet researchers to share data with other researchers outside their teams. Design/methodology/approach An online survey was conducted to examine the extent to which data reuse experience, attitudinal beliefs, social norms, and resource factors predicted internet researchers’ data sharing intentions and behaviors. The theorized model was tested using a structural equation modeling technique to analyze a total of 201 survey responses from the Association of Internet Researchers mailing list. Findings Results show that data reuse experience significantly influenced participants’ perception of benefit from data sharing and participants’ norm of data sharing. Belief structures regarding data sharing, including perceived career benefit and risk, and perceived effort, had significant associations with attitude toward data sharing, leading internet researchers to have greater data sharing intentions and behavior. The results also reveal that researchers’ norms for data sharing had a direct effect on data sharing intention. Furthermore, the results indicate that, while the perceived availability of data repository did not yield a positive impact on data sharing intention, it has a significant, direct, positive impact on researchers’ data sharing behaviors. Research limitations/implications This study validated its novel theorized model based on the theory of planned behavior (TPB). The study showed a holistic picture of how different data sharing factors, including data reuse experience, attitudinal beliefs, social norms, and data repositories, influence internet researchers’ data sharing intentions and behaviors. Practical implications Data reuse experience, attitude toward and norm of data sharing, and the availability of data repository had either direct or indirect influence on internet researchers’ data sharing behaviors. Thus, professional associations, funding agencies, and academic institutions alike should promote academic cultures that value data sharing in order to create a virtuous cycle of reciprocity and encourage researchers to have positive attitudes toward/norms of data sharing; these cultures should be strengthened by the strong support of data repositories. Originality/value In line with prior scholarship concerning scientific data sharing, this study of internet researchers offers a map of scientific data sharing intentions and behaviors by examining the impacts of data reuse experience, attitudinal beliefs, social norms, and data repositories together.

scholarly journals An innovative workspace for the Cherenkov Telescope Array

2017 ◽  
Author(s):  
Alessandro Costa ◽  
Eva Sciacca ◽  
Fabio Vitello ◽  
Ugo Becciani ◽  
Pietro Massimino ◽  
...  
Keyword(s):  
User Interfaces ◽  
Gamma Ray ◽  
Workflow Management ◽  
User Interaction ◽  
Telescope Array ◽  
Cherenkov Telescope ◽  
Science Gateway ◽  
Workflow System ◽  
Virtual Desktop ◽  
Authentication And Authorization

The Cherenkov Telescope Array (CTA) is an initiative to build the next generation, ground-based gamma-ray observatories. We present a prototype workspace developed at INAF that aims at providing innovative solutions for the CTA community. The workspace leverages open source technologies providing web access to a set of tools widely used by the CTA community. Two different user interaction models, connected to an authentication and authorization infrastructure, have been implemented in this workspace. The first one is a workflow management system accessed via a science gateway (based on the Liferay platform) and the second one is an interactive virtual desktop environment. The integrated workflow system allows to run applications used in astronomy and physics researches into distributed computing infrastructures (ranging from clusters to grids and clouds). The interactive desktop environment allows to use many software packages without any installation on local desktops exploiting their native graphical user interfaces. The science gateway and the interactive desktop environment are connected to the authentication and authorization infrastructure composed by a Shibboleth identity provider and a Grouper authorization solution. The Grouper released attributes are consumed by the science gateway to authorize the access to specific web resources and the role management mechanism in Liferay provides the attribute-role mapping.

The Flowbster Cloud-Oriented Workflow System to Process Large Scientific Data Sets

2018 ◽  
Vol 16 (1) ◽  
pp. 55-83 ◽  
Author(s):  
Peter Kacsuk ◽  
József Kovács ◽  
Zoltán Farkas
Keyword(s):  
Scientific Data ◽  
Data Sets ◽  
Workflow System

scholarly journals Abordagens de reúso e a questão da reusabilidade dos dados científicos | Approaches for data reuse and the issue of scientific data reusability

2019 ◽  
Vol 15 (2) ◽  
Author(s):  
Renata Curty
Keyword(s):  
Data Sharing ◽  
Data Science ◽  
Meta Analysis ◽  
Science Research ◽  
Open Science ◽  
Scientific Data ◽  
Data Reuse ◽  
Data Repositories ◽  
Documentation Quality ◽  
Data Documentation

RESUMO As diretivas governamentais e institucionais em torno do compartilhamento de dados de pesquisas financiadas com dinheiro público têm impulsionado a rápida expansão de repositórios digitais de dados afim de disponibilizar esses ativos científicos para reutilização, com propósitos nem sempre antecipados, pelos pesquisadores que os produziram/coletaram. De modo contraditório, embora o argumento em torno do compartilhamento de dados seja fortemente sustentado no potencial de reúso e em suas consequentes contribuições para o avanço científico, esse tema permanece acessório às discussões em torno da ciência de dados e da ciência aberta. O presente artigo de revisão narrativa tem por objetivo lançar um olhar mais atento ao reúso de dados e explorar mais diretamente esse conceito, ao passo que propõe uma classificação inicial de cinco abordagens distintas para o reúso de dados de pesquisa (reaproveitamento, agregação, integração, metanálise e reanálise), com base em situações hipotéticas acompanhadas de casos de reúso de dados publicados na literatura científica. Também explora questões determinantes para a condição de reúso, relacionando a reusabilidade à qualidade da documentação que acompanha os dados. Oferece discussão sobre os desafios da documentação de dados, bem como algumas iniciativas e recomendações para que essas dificuldades sejam contornadas. Espera-se que os argumentos apresentados contribuam não somente para o avanço conceitual em torno do reúso e da reusabilidade de dados, mas também reverberem em ações relacionadas à documentação dos dados de modo a incrementar o potencial de reúso desses ativos científicos.Palavras-chave: Reúso de Dados; Reprodutibilidade Científica; Reusabilidade; Ciência Aberta; Dados de Pesquisa. ABSTRACT The availability of scientific assets through data repositories has been greatly increased as a result of government and institutional data sharing policies and mandates for publicly funded research, allowing data to be reused for purposes not always anticipated by primary researchers. Despite the fact that the argument favoring data sharing is strongly grounded in the possibilities of data reuse and its contributions to scientific advancement, this subject remains unobserved in discussions about data science and open science. This paper follows a narrative review method to take a closer look at data reuse in order to better conceptualize this term, while proposing an early classification of five distinct data reuse approaches (repurposing, aggregation, integration, meta-analysis and reanalysis) based on hypothetical cases and literature examples. It also explores the determinants of what constitutes reusable data, and the relationship between data reusability and documentation quality. It presents some challenges associated with data documentation and points out some initiatives and recommendations to overcome such problems. It expects to contribute not only for the conceptual advancement around the reusability and effective reuse of the data, but also to result in initiatives related to data documentation in order to increase the reuse potential of these scientific assets.Keywords:Data Reuse; Scientific Reproducibility; Reusability; Open Science; Research Data.  

Achieving Agile Enterprise Through Integrated Process Management

2008 ◽  
pp. 208-221
Author(s):  
Ali Bahrami
Keyword(s):  
Project Management ◽  
Process Management ◽  
Workflow Management ◽  
Integrated Process ◽  
Process Definition ◽  
Work Processes ◽  
Management Tools ◽  
Workflow Execution ◽  
Resource Leveling ◽  
Scheduling Tool

Project management tools are used to manage projects from time as well as from resource leveling perspectives. Workflow management systems guide users through processes by driving the processes based on formal process definitions also called workflow types. This paper describes integrated process management system that will integrate project management, business process modeling, simulation and workflow technologies in order to support scheduled workflow execution. The target will be achieved by utilizing a tool for modeling work processes which can semi automatically generate workflow processes based on scheduling tool and then exported it to workflow engine via web services using XML process definition language (XPDL). Addition of simulation capability allows testing workflows before deployment.

Sign in / Sign up

Export Citation Format

Share Document