Personally I tend to work with $GALAXY/tool-data/*.loc (and ignore the tool shed installed copies in their cryptically named folders) but this reflects in part the fact that this used to be the only copy of the file, and that's just what I always did. If you use a data manager, I don't know which copy it updates - but the merging design is meant to hide these details I suppose. Peter On Mon, Oct 1, 2018 at 5:56 PM Matthias Bernt <m.bernt@ufz.de> wrote:
Dear list,
I still have problems to get my head around tool data. Lets consider diamond for example (lets ignore data managers for the moment). After installation it seems that there are two relevant xml files:
- `config/shed_tool_data_table_conf.xml` - `tool-data/toolshed.g2.bx.psu.edu/repos/bgruening/diamond/64be1ac21109/tool_data_table_conf.xml`
and two loc files:
- `tool-data/diamond_database.loc` - `tool-data/toolshed.g2.bx.psu.edu/repos/bgruening/diamond/64be1ac21109/diamond_database.loc`
In both xml files the latter loc file is referenced. And therefor the tool-data/diamond_database.loc file is seemingly ignored.
What is the rational to have a loc and xml file for each tool version? It seems that they are merged upon startup anyway.
What would be the best way to administrate a single tool loc file?
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, m.bernt@ufz.de, www.ufz.de
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