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workflow

ESRI ArcGIS ModelBuilder

ESRI's ArcGIS Desktop software contains ModelBuilder, which is a work flow tool that enables the creation and execution of consistent, repeatable models that are comprised of one or more processing steps. ModelBuilder can be used to ensure the integrity of a particular model or set of analytical processes through modeling, storing, and publishing complex operations and workflows. ModelBuilder workflows can be created and executed on both the desktop and over the web. Within ModelBuilder, a model consists of processes and the connections between them.

Microsoft Visio

A diagramming program with support for a wide variety of modeling languages, such as Unified Modeling Language (UML), Deployment Diagrams, Network Diagrams and many others. It is also extensible to accommodate custom diagrams. Common uses might include Entity Relationship Diagrams for databases, Class Models for object oriented languages and the creation of workflows for documenting business processes.

OpenMI

OpenMI provides users with a standard interface that allows the construction of modeling workflows. OpenMI allows models to exchange data with each other and other modeling tools as they run, facilitating the modeling of process interactions. Models may come from many different sources, represent processes from different scientific domains, have different spatial and temporal resolutions, and have different spatial domains/representations. The OpenMI standard is defined by a set of software interfaces that a compliant model must implement.

Pegasus

Pegasus encompases a set of technologies that help workflow-based applications execute in a number of different environments including desktops, campus clusters, grids, and now clouds. Scientific workflows allow users to easily express multi-step computations, for example retrieve data from a database, reformat the data, and run an analysis. Once an application is formalized as a workflow the Pegasus Workflow Management Service can map it onto available compute resources and execute the steps in appropriate order.

Platform LSF

Platform LSF is a workload manager designed for use in large, high-performance computing environments. This commercial tool can be used to schedule complex scientific workflows and manage very large (up to petaFLOP scale) compute resources. It provides application support across distributed and heterogeneous platforms.

Science Pipes

Science Pipes is a free, online resource that enables people to access publicly available biodiversity data, build scientific workflows, and share the workflows and results with other Science Pipes users. Produced by the Cornell Lab of Ornithology, the service is based on Kepler (a professional, open-source software package for building scientific workflows for data analysis and modeling), but repurposed to allow intuitive visual programming, using drag and drop components. Workflows are openly available to Science Pipes users for viewing, modifying, and commenting.

The Predictive Ecosystem Analyzer (PEcAn)

The Predictive Ecosystem Analyzer (PEcAn) is an integrated ecological bioinformatics toolbox and data assimilation system that synthesizes information contained in ecological models, data, and expert knowledge. This is done using modern statistical methods and state-of-the art ecosystem models. PEcAn has a web interface that enables users to run ecosystem models, as well as a suite of R packages that can be used for model-data fusion and more sophisticated analysis.

Triana

Triana is an open source problem solving environment that combines an intuitive visual interface with powerful data analysis tools. It can be used for a range of tasks, such as signal, text and image processing, and Triana includes a large library of pre-written analysis tools and the ability for users to integrate their own tools. Recently a custom writer was attached to the Triana GUI allowing Triana to generate Pegasus/Condor input files for the GriPhyN project.

VisTrails

VisTrails is an open-source scientific workflow and provenance management system developed at the University of Utah that provides support for data exploration and visualization. Whereas workflows have been traditionally used to automate repetitive tasks, for applications that are exploratory in nature, such as simulations, data analysis and visualization, very little is repeated---change is the norm.

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