Relevant bibliographies by topics / Common Workflow Language

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Academic literature on the topic 'Common Workflow Language'

Author: Grafiati
Published: 3 June 2025
Last updated: 31 July 2025

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Journal articles on the topic "Common Workflow Language"

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Suetake, Hirotaka, Tomoya Tanjo, Manabu Ishii, et al. "Sapporo: A workflow execution service that encourages the reuse of workflows in various languages in bioinformatics." F1000Research 11 (August 4, 2022): 889. http://dx.doi.org/10.12688/f1000research.122924.1.

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The increased demand for efficient computation in data analysis encourages researchers in biomedical science to use workflow systems. Workflow systems, or so-called workflow languages, are used for the description and execution of a set of data analysis steps. Workflow systems increase the productivity of researchers, specifically in fields that use high-throughput DNA sequencing applications, where scalable computation is required. As systems have improved the portability of data analysis workflows, research communities are able to share workflows to reduce the cost of building ordinary analy
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Clarke, Daniel J. B., John Erol Evangelista, Zhuorui Xie, et al. "Playbook workflow builder: Interactive construction of bioinformatics workflows." PLOS Computational Biology 21, no. 4 (2025): e1012901. https://doi.org/10.1371/journal.pcbi.1012901.

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The Playbook Workflow Builder (PWB) is a web-based platform to dynamically construct and execute bioinformatics workflows by utilizing a growing network of input datasets, semantically annotated API endpoints, and data visualization tools contributed by an ecosystem of collaborators. Via a user-friendly user interface, workflows can be constructed from contributed building-blocks without technical expertise. The output of each step of the workflow is added into reports containing textual descriptions, figures, tables, and references. To construct workflows, users can click on cards that repres
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Kale, Amruta, Ziheng Sun, Chao Fan, and Xiaogang Ma. "Geoweaver_cwl: Transforming geoweaver AI workflows to common workflow language to extend interoperability." Applied Computing and Geosciences 19 (September 2023): 100126. http://dx.doi.org/10.1016/j.acags.2023.100126.

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Zulfiqar, Mahnoor, Michael R. Crusoe, Birgitta König-Ries, Christoph Steinbeck, Kristian Peters, and Luiz Gadelha. "Implementation of FAIR Practices in Computational Metabolomics Workflows—A Case Study." Metabolites 14, no. 2 (2024): 118. http://dx.doi.org/10.3390/metabo14020118.

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Scientific workflows facilitate the automation of data analysis tasks by integrating various software and tools executed in a particular order. To enable transparency and reusability in workflows, it is essential to implement the FAIR principles. Here, we describe our experiences implementing the FAIR principles for metabolomics workflows using the Metabolome Annotation Workflow (MAW) as a case study. MAW is specified using the Common Workflow Language (CWL), allowing for the subsequent execution of the workflow on different workflow engines. MAW is registered using a CWL description on Workfl
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Iacopo, Colonnelli, Aldinucci Marco, Cantalupo Barbara, and al. et. "Distributed workflows with Jupyter." Future generation computer systems 128 (March 1, 2022): pp. 282–298. https://doi.org/10.1016/j.future.2021.10.007.

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The designers of a new coordination interface enacting complex workflows have to tackle a dichotomy: choosing a language-independent or language-dependent approach. Language-independent approaches decouple workflow models from the host code’s business logic and advocate portability. Language-dependent approaches foster flexibility and performance by adopting the same host language for business and coordination code. Jupyter Notebooks, with their capability to describe both imperative and declarative code in a unique format, allow taking the best of the two approaches, maintaining a clear
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Farah, Zaib Khan, Soiland-Reyes Stian, O. Sinnott Richard, Lonie Andrew, Goble Carole, and R. Crusoe Michael. "Sharing interoperable workflow provenance: A review of best practices and their practical application in CWLProv." GigaScience 8, no. 11 (2019): giz095. https://doi.org/10.5281/zenodo.3528059.

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<strong>Background</strong> The automation of data analysis in the form of <em>scientific workflows</em> has become a widely adopted practice in many fields of research. Computationally driven data-intensive experiments using workflows enable automation, scaling, adaptation, and provenance support. However, there are still several challenges associated with the effective sharing, publication, and reproducibility of such workflows due to the incomplete capture of provenance and lack of interoperability between different technical (software) platforms. <strong>Results</strong> Based on best-prac
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Jackson, Michael, Kostas Kavoussanakis, and Edward W. J. Wallace. "Using prototyping to choose a bioinformatics workflow management system." PLOS Computational Biology 17, no. 2 (2021): e1008622. http://dx.doi.org/10.1371/journal.pcbi.1008622.

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Workflow management systems represent, manage, and execute multistep computational analyses and offer many benefits to bioinformaticians. They provide a common language for describing analysis workflows, contributing to reproducibility and to building libraries of reusable components. They can support both incremental build and re-entrancy—the ability to selectively re-execute parts of a workflow in the presence of additional inputs or changes in configuration and to resume execution from where a workflow previously stopped. Many workflow management systems enhance portability by supporting th
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Plesniewicz, Gerald, and Baurzhan Karabekov. "Specifying temporal knowledge for workflows ontologies." Open Computer Science 6, no. 1 (2016): 226–31. http://dx.doi.org/10.1515/comp-2016-0020.

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AbstractA workflow is an automation of a process, in which participants (people or programs) are involved in activities for solving a set of tasks according to certain rules and constraints in order to attain a common goal. The concept of workflow appeared in business informatics. Currently the workflow techniques are used in many other fields such as medical informatics, bioinformatics, automation of scientific research, computer-aided design and manufacturing, etc. An ontology is a formal description (in terms of concepts, entities, their properties and relationships) of knowledge for solvin
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FRANKAU, SIMON, DIOMIDIS SPINELLIS, NICK NASSUPHIS, and CHRISTOPH BURGARD. "Commercial uses: Going functional on exotic trades." Journal of Functional Programming 19, no. 1 (2009): 27–45. http://dx.doi.org/10.1017/s0956796808007016.

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AbstractThe Functional Payout Framework (fpf) is a Haskell application that uses an embedded domain-specific functional language to represent and process exotic financial derivatives. Whereas scripting languages for pricing exotic derivatives are common in banking, fpf uses multiple interpretations to not only price such trades, but also to analyse the scripts to provide lifecycle support and more. This paper discusses fpf in relation to the wider trading workflow and our experiences in using a functional language in such a system as both an implementation language and a domain-specific langua
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WYNN, M. T., W. M. P. VAN DER AALST, A. H. M. TER HOFSTEDE, and D. EDMOND. "SYNCHRONIZATION AND CANCELATION IN WORKFLOWS BASED ON RESET NETS." International Journal of Cooperative Information Systems 18, no. 01 (2009): 63–114. http://dx.doi.org/10.1142/s0218843009002002.

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Workflow languages offer constructs for coordinating tasks. Among these constructs are various types of splits and joins. One type of join, which shows up in various incarnations, is the OR-join. Different approaches assign a different (often only intuitive) semantics to this type of join, though they do share the common theme that branches that cannot complete will not be waited for. Many systems and languages struggle with the semantics and implementation of the OR-join because its non-local semantics require a synchronization depending on the analysis of future execution paths. The presence
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Books on the topic "Common Workflow Language"

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Cole, Timothy W., and Myung-Ja K. Han. XML for Catalogers and Metadata Librarians. ABC-CLIO, LLC, 2013. http://dx.doi.org/10.5040/9798216039815.

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This book provides a foundation of knowledge for catalogers, metadata librarians, and library school students on the Extensible Markup Language (XML)—one of the most commonly listed qualifications in today’s cataloger and metadata librarian job postings. How are today’s librarians to manage and describe the ever-expanding volumes of resources, in both digital and print formats? The use of XML in cataloging and metadata workflows can improve metadata quality, the consistency of cataloging workflows, and adherence to standards. This book is intended to enable current and future catalogers and me
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Book chapters on the topic "Common Workflow Language"

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Lharchi, Ayoub, Mette Ramsgaard Thomsen, and Martin Tamke. "Joint Descriptive Modeling (JDM) for Assembly-Aware Timber Structure Design." In Proceedings of the 2021 DigitalFUTURES. Springer Singapore, 2021. http://dx.doi.org/10.1007/978-981-16-5983-6_33.

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AbstractJoints design is an essential step in the process of designing timber structures. Complex architectural topologies require thorough planning and scheduling, as it is necessary to consider numerous factors such as structural stability, fabrication capabilities, and ease of assembly. This paper introduces a novel approach to timber joints design that embed both fabrication and assembly considerations within the same model to avoid mistakes that might cause delays and further expenses. We developed a workflow that allows us to identify the fundamental data to describe a given joint geomet
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Stipravietis Peteris and Ziema Maris. "The Design of Electronic Service Process Using YAWL and CPN Tools." In Frontiers in Artificial Intelligence and Applications. IOS Press, 2011. https://doi.org/10.3233/978-1-60750-688-1-183.

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The article discusses the solution of common business process design-time problems using YAWL. The approach proposed by the authors is based on the creation of business process in the YAWL environment in order to simulate the process model which could resolve some of the design-time problems as well as provide hints to correct initial process. Simulation is based on transformation to colored Petri net &amp;ndash; the net is then simulated to identify problems such as possible infinite loops, bottlenecks, process waits and others. The article also describes technique to acquire the primitive de
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J. Pyrcz, Michael. "GeostatsPy: Open-Source Geostatistics in Python." In Applied Spatiotemporal Data Analytics and Machine Learning [Working Title]. IntechOpen, 2024. http://dx.doi.org/10.5772/intechopen.114981.

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GSLIB: Geostatistical Library by Clayton V. Deutsch and Andre G. Journel is the original spatial data analytics, geostatistics, open-source library built in FORTRAN with a function-based implementation to maximize workflow construction ease and flexibility. From simple toy problems for education to complicated subsurface model workflows, GSLIB is up to the task. Yet, it is difficult to teach the next generation with FORTRAN executables and PostScript visualizations. While there are a variety of efforts to add geostatistical methods to Python, I failed to find a package to meet my pedagogical n
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Isenmann, Ralf. "Progression in Corporate Sustainability Reporting." In Corporate Environmental Management Information Systems. IGI Global, 2010. http://dx.doi.org/10.4018/978-1-61520-981-1.ch018.

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In corporate reporting, greater internet use, reports available on the world wide web (WWW) and movements towards a more balanced reporting approach have become the most noticeable trends since the inception of sustainability reporting in the late 1980’s and early 1990’s. While early sustainability reports merely have been available on print media, today most are accessible on the WWW as HTML (Hypertext Markup Language) files. Such a layout oriented data format, however, does not seem to be sufficient any longer, especially in terms of content-syndication, harmonization, efficiencies, future I
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Mao, Yaoli, Janet Rafner, Yi Wang, and Jacob Sherson. "A Hybrid Intelligence Approach to Training Generative Design Assistants: Partnership Between Human Experts and AI Enhanced Co-Creative Tools." In Frontiers in Artificial Intelligence and Applications. IOS Press, 2023. http://dx.doi.org/10.3233/faia230078.

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The emergence of generative design (GD) has introduced a new paradigm for co-creation between human experts and AI systems. Empirical findings have shown promising outcomes such as augmented human cognition and highly creative design products. Barriers still remain that prevent individuals from perceiving and adopting AI, entering into collaboration with AI and sustaining it over time. It is even more challenging for creative design industries to adopt and trust AI where these professionals value individual style and expression, and therefore require highly personalized and specialized AI assi
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Kühn, Harald, Marion Murzek, Gerhard Specht, and Srdjan Zivkovic. "Model-Driven Development of Interoperable, Inter-Organisational Business Processes." In Interoperability in Digital Public Services and Administration. IGI Global, 2011. http://dx.doi.org/10.4018/978-1-61520-887-6.ch007.

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Public and private organisations have a high rate of interaction, i.e. all their external business processes are de-facto inter-organisational. Besides traditional non-functional aspects, inter-organisational processes demand a high rate of interoperability. The authors present a model-driven development process explicitly considering interoperability levels as development process phases. Applying this development process has shown that it substantially raises the interoperability awareness for all associated actors. To further improve “common sense” between the involved actors, we use an inte
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Rittgen, Peter. "Modeling Business Actions." In Encyclopedia of Information Communication Technology. IGI Global, 2009. http://dx.doi.org/10.4018/978-1-59904-845-1.ch073.

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The effective use of information and communication technology, or ICT (Barua, Kriebel, &amp; Mukhopadhyay, 1995; Burn &amp; Szeto, 2000; Mahmood &amp; Mann, 2005; Mukhopadhyay, Kekre, &amp; Kalathur, 1995; Sircar, Turnbow, &amp; Bordoloi, 2000; Zammuto, 1982), requires a careful design of information systems and the business processes they support from a communicative perspective (language-action perspective). The literature on language action provides a broad spectrum of frameworks for modeling business processes, for example, business action theory (BAT; Goldkuhl, 1996, 1998; Goldkuhl &amp;
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Lidberg, Simon, Marcus Frantzén, Tehseen Aslam, and Amos H. C. Ng. "A Knowledge Extraction Platform for Reproducible Decision-Support from Multi-Objective Optimization Data." In Advances in Transdisciplinary Engineering. IOS Press, 2022. http://dx.doi.org/10.3233/atde220191.

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Simulation and optimization enables companies to take decision based on data, and allows prescriptive analysis of current and future production scenarios, creating a competitive edge. However, it can be difficult to visualize and extract knowledge from the large amounts of data generated by a many-objective optimization genetic algorithm, especially with conflicting objectives. Existing tools offer capabilities for extracting knowledge in the form of clusters, rules, and connections. Although powerful, most existing software is proprietary and is therefore difficult to obtain, modify, and depl
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Dodda, Abhishek. "Understanding agentic artificial intelligence: Autonomous digital agents and their impact on workflows and decisions." In Artificial Intelligence and Financial Transformation: Unlocking the Power of Fintech, Predictive Analytics, and Public Governance in the Next Era of Economic Intelligence. Deep Science Publishing, 2025. https://doi.org/10.70593/978-81-988918-1-5_3.

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What if an AI chatbot could operate a task entirely on its own in software and/or hardware? What if, when you asked your favorite AI chatbot to schedule a meeting with someone, it created your calendar appointment, contacted the person, negotiated the time slot, and sent reminders, handling any situation that arose, entirely without your further input? These so-called "autonomous" or "agentic" AI models are rapidly emerging. In this chapter, we explain how autonomous AI systems already exist now and provide an overview of what they can do. We also discuss the implications this new AI paradigm
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Conference papers on the topic "Common Workflow Language"

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Nash, Rupert W., Michael R. Crusoe, Max Kontak, and Nick Brown. "Supercomputing with MPI meets the Common Workflow Language standards: an experience report." In 2020 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS). IEEE, 2020. http://dx.doi.org/10.1109/works51914.2020.00008.

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Bouskela, Daniel, Lena Buffoni, Audrey Jardin, Vince Molnair, Adrian Pop, and Armin Zavada. "The Common Requirement Modeling Language." In 15th International Modelica Conference 2023, Aachen, October 9-11. Linköping University Electronic Press, 2023. http://dx.doi.org/10.3384/ecp204497.

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CRML (the Common Requirement Modeling Language) is a new language for the formal expression of requirements. The ambition is to release the language as an open standard integrated into the open source modeling and simulation tool OpenModelica and interoperable with the open systems engineering standard SysMLv2. CRML allows to express requirements as multidisciplinary spatiotemporal constraints that can be verified against system design by co-simulating requirements models with behavioral models. Particular attention is paid to the following aspects. The requirements models must be easily legib
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Passos, Lígia Maria Soares, Tarcísio Abadio de Magalhães Júnior, Marcelo de Almeida Maia, and Stéphane Julia. "Verification of Workflow Specifications in UML Using Automated Transformations to WF-nets." In Simpósio Brasileiro de Sistemas de Informação. Sociedade Brasileira de Computação, 2013. http://dx.doi.org/10.5753/sbsi.2013.5731.

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This article proposes the transformation of UML Activity Diagrams that models workflow processes into WF-nets (WorkFlow nets). The transformation is automated using the ATL transformation language, well-known in the model-driven development context. This transformation enables the verification of the soundness property for workflows using linear logic proofs in WF-net specifications. The generated proof trees also help finding possible causes for unsound diagrams. An illustrative case study is presented to demonstrate the approach effectiveness. The results from this paper could motivate the t
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Nakibov, R. S., G. S. Fedoseev, V. M. Karteeva, et al. "Experimental data workflow optimisation in the UrFU Research Laboratory for Astrochemistry." In 51-st All-Russian with international participation student scientific conference "Physics of Space". Ural University Press, 2024. http://dx.doi.org/10.15826/b978-5-7996-3848-1.58.

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Day-to-day laboratory work, in particular, usage of the FT-IR spectrometer, generates vast amounts of raw experimental data. Processing and analysis of such data, its transformation into a format suited for interpretation and collective discussion is a tedious, multistage, yet necessary task. This report describes the work done to optimize and automate common data processing scenarios present in the work of Research Laboratory for Astrochemistry using the Python programming language. We provide a workflow chart for processing FT-IR spectrometer data and provide a list of developed apps. A set
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Lee, M. X., and Z. Wang. "Retrieving Operation Insights with GenAI LLM: Comparative Analysis and Workflow Enhancement." In ADIPEC. SPE, 2024. http://dx.doi.org/10.2118/222023-ms.

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Abstract Identifying drilling risks for upcoming wells demands insights from offset wells. While some risks may lead to non-productive time (NPT), others remain latent within daily drilling reports (DDRs), which is crucial for comprehensive analysis. Manual extraction from DDRs is often time-consuming. In this paper, we systematically explore the methods to leverage the Large Language Models (LLMs) with enhanced workflows to automate insights extraction and improve risk identification accuracy. We compared LLMs customization approaches and state-of-the-art NLP models to validate LLMs efficienc
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Liao, Leo, and Ang Li. "An Intelligent System to Automate the Inquery in Logistics Industry using AI and Machine Learning." In 8th International Conference on Natural Language Processing (NATP 2022). Academy and Industry Research Collaboration Center (AIRCC), 2022. http://dx.doi.org/10.5121/csit.2022.120109.

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Operator and sales employees in the logistics industry often have to submit the same inquiry repetitively to different vendors and opt in for the quotation that will generate the greatest profit for the company [4]. This process can be very laborious and tedious. Meanwhile, for smaller companies that do not have a well-constructed database for quotation information, monitoring employee’s work is simply difficult to achieve [5]. To increase the efficiency of sales’ workflow in this particular industry, this application devises a platform that automates the inquiry process, analyzes quotations f
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Yunker, Austin, Rajkumar Kettimuthu, and Zachary Kral. "OC-DICAM: One Class Defect Identification in Composite Aerostructure Material." In ASME 2024 Aerospace Structures, Structural Dynamics, and Materials Conference. American Society of Mechanical Engineers, 2024. http://dx.doi.org/10.1115/ssdm2024-121466.

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Abstract One of the materials used in the design of aircraft structures is fiber-reinforced composites due to their good tensile strength and resistance to compression. During the manufacturing process, these structures are thoroughly inspected for flaws and defects to ensure structural integrity during commercial use. This non-destructive inspection (NDI) process can be done using ultrasonic testing (UT) due to its effectiveness at detecting flaws embedded within the material surface. Currently, the NDI process is done manually and can be a significant bottleneck in the manufacturing workflow
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Vimercati, Silvia, Emanuele Vignati, Pamela Mariotti, Sabatino Severino, Lorenzo Raimondi, and Christian Onzaca. "Application of Natural Language techniques in Reservoir Management Framework." In SPE Annual Technical Conference and Exhibition. SPE, 2022. http://dx.doi.org/10.2118/209961-ms.

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Abstract Reservoir Management requires the definition of a strategy that analyzes the risk assessment to identify surveillance activities and corrective measures. In Eni, a best practice has been established to regulate this strategy through the Reservoir Management Plan (RMP). This paper will present the application of Natural Language Processing (NLP) technologies to improve the definition of RMP. Results will be discussed, highlighting benefits and advantages in extracting cross-document information and running comparisons between different RMPs. Natural Language Processing refers to the br
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Farooq, Ahmed, Jari Kangas, and Roope Raisamo. "TAUCHI-GPT: Leveraging GPT-4 to create a Multimodal Open-Source Research AI tool." In AHFE 2023 Hawaii Edition. AHFE International, 2023. http://dx.doi.org/10.54941/ahfe1004176.

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In the last few year advances in deep learning and artificial intelligence have made it possible to generate high-quality text, audio, and visual content automatically for a wide range of application areas including research and education. However, designing and customizing an effective R&amp;D tool capable of providing necessary tool-specific output, and breaking down complex research tasks requires a great deal of expertise and effort, and is often a time-consuming and expensive process. Using existing Generative Pre-trained Transformers (GPT) and foundational models, it is now possible to l
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Davis, Eric, Sourya Dey, Adam Karvonen, et al. "Leveraging Manifold Learning and Relationship Equity Management for Symbiotic Explainable Artificial Intelligence." In 14th International Conference on Applied Human Factors and Ergonomics (AHFE 2023). AHFE International, 2023. http://dx.doi.org/10.54941/ahfe1003759.

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Improvements in neural methods have led to the unprecedented adoption of AI in domains previously limited to human experts. As these technologies mature, especially in the area of neuro-symbolic intelligence, interest has increased in artificial cognitive capabilities that would allow an AI system to function less like an application and more like an interdependent teammate. In addition to improving language capabilities, next-generation AI systems need to support symbiotic, human-centered processes, including objective alignment, trust calibration, common ground, and the ability to build comp
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Reports on the topic "Common Workflow Language"

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Leavy, Michelle B., Danielle Cooke, Sarah Hajjar, et al. Outcome Measure Harmonization and Data Infrastructure for Patient-Centered Outcomes Research in Depression: Report on Registry Configuration. Agency for Healthcare Research and Quality (AHRQ), 2020. http://dx.doi.org/10.23970/ahrqepcregistryoutcome.

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Background: Major depressive disorder is a common mental disorder. Many pressing questions regarding depression treatment and outcomes exist, and new, efficient research approaches are necessary to address them. The primary objective of this project is to demonstrate the feasibility and value of capturing the harmonized depression outcome measures in the clinical workflow and submitting these data to different registries. Secondary objectives include demonstrating the feasibility of using these data for patient-centered outcomes research and developing a toolkit to support registries intereste
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