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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