tool IO graph

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tool IO graph

Matthias Bernt
Dear list,

I started a little toy project (.. aka procrastination) that I would
like to share here. It produces a graph connecting tool ids and
input/output formats. As input it takes an arbitrary number of tool xml
files

https://github.com/bernt-matthias/mb-galaxy-tools/tree/master/tool-io-graph

I could imagine some use cases:

- could be nice for auto-generation of the documentation of a single
tool (planemo?)
- for tool suites one could easily check if the all tools are connected
(I would expect this)
- one could explore how tools could be plugged together, find out which
tools generate a needed format

currently it outputs dot formatted graphs.

I can easily see some extensions

- filter for subsets of tools / formats
- get the surrounding of a tool (e.g. all nodes in distance 2, 4, ...)
- filter paths from an available input to a desired output format


Cheers,
Matthias

--

-------------------------------------------
Matthias Bernt
Bioinformatics Service
Molekulare Systembiologie (MOLSYB)
Helmholtz-Zentrum für Umweltforschung GmbH - UFZ/
Helmholtz Centre for Environmental Research GmbH - UFZ
Permoserstraße 15, 04318 Leipzig, Germany
Phone +49 341 235 482296,
[hidden email], www.ufz.de

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