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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

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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