Hi Rui, you can install the following suite which includes about a dozen of wrapped samtools. https://toolshed.g2.bx.psu.edu/view/devteam/suite_samtools_1_2/5b673ccc8747 Martin On Mon, Sep 26, 2016 at 11:05 AM Beginner TI <ruiwang.sz@gmail.com> wrote:

I did see that if I click each individual tool, and then in the options, I could find the tool xml file, but this would require manually clicking each of it. Is there any way we could get these in batch? I shouldn't be the first or last person that want to make an identical clone of main galaxy instance, so I assume that there are some good/easy ways I'm missing?

thanks, Rui

On Sun, Sep 25, 2016 at 1:05 AM, Beginner TI <ruiwang.sz@gmail.com> wrote:

...

Hi All,

I compiled samtools from source, and just realized that I don't have those tool xml files. Tried to google but failed to find any samtools wrapper. This is quite surprising since the main instance has it. Does anyone happen to know where we could obtain those files that are used by galaxy main instance? I don't want to use tool_shed and prefer to install all tools manually. In that case, how could I access the tool xml files that are used by tool_shed installation process?

Thanks, Rui

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