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BY-NC-ND 4.0 license Open Access Published by De Gruyter October 18, 2016

Managing and Documenting Legacy Scientific Workflows

Ruben Acuña , Jacques Chomilier and Zoé Lacroix EMAIL logo

Summary

Scientific legacy workflows are often developed over many years, poorly documented and implemented with scripting languages. In the context of our cross-disciplinary projects we face the problem of maintaining such scientific workflows. This paper presents the Workflow Instrumentation for Structure Extraction (WISE) method used to process several ad-hoc legacy workflows written in Python and automatically produce their workflow structural skeleton. Unlike many existing methods, WISE does not assume input workflows to be preprocessed in a known workflow formalism. It is also able to identify and analyze calls to external tools. We present the method and report its results on several scientific workflows.

Published Online: 2016-10-18
Published in Print: 2015-9-1

© 2015 The Author(s). Published by Journal of Integrative Bioinformatics.

This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.

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