Hello,

You have probably seen the Tool Shed documentation, but if not, this is the hub:
https://wiki.galaxyproject.org/Tool%20Shed

These are the topics about configuration:
https://wiki.galaxyproject.org/Tool%20Shed#The_contents_of_your_tool_shed_repository

And this sub-section of the above covers how to define/configure dependencies so that they are part of the repository when others install it:
https://wiki.galaxyproject.org/DefiningRepositoryDependencies

This is a great addition, thanks for the contribution! If you run into any trouble, send the details of where you are having problems to the galaxy-...@bx.psu.edu mailing list, to better reach the development community for troubleshooting. You can also search prior dev Q/A here: http://galaxyproject.org/search/getgalaxy/

On 1/6/14 7:23 AM, Sébastien Vigneau wrote:
Hi,

I have written a simple xml wrapper to run the UCSC *bigWigToBedGraph* tool on a custom Galaxy install on Amazon cloud. The tool works as expected in this install. The xml file itself is in /mnt/galaxy/galaxy-app/tools/myTools, but I added the bigWigToBedGraph binary to the /mnt/galaxy/tools/bin/ directory, which is by default in the PATH. Alternatively, I guess I could have modified the PATH so that it includes the myTools directory.

Since I would like to contribute the tool (my contribution being the wrapper) to *Galaxy Tool Shed*, I am wondering*what is the best way to include it so that it is found in the PATH* whenever the tool is installed from the Tool Shed.

Thanks for your help!

Sébastien


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The Galaxy User list should be used for the discussion of
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