On Wed, Apr 2, 2014 at 6:03 PM, Mohammad Heydarian <mheyd...@jhmi.edu>wrote:
> Hi Dannon, > Thanks for this information. Will the ENA SRA button be enabled on the > next update of Cloudman? > I'll check to make sure there wasn't a good reason to remove it (couldn't find one in my first pass, and it's available on main, so it should be in the cloud), but yes. Is there a protocol (or help page) available for how to re-enable tools in > the 'tool_conf.xml'? > With everything headed to the toolshed, hopefully this is a thing of the past very soon. The only documentation I found on the wiki is here: https://wiki.galaxyproject.org/Admin/Tools/AddToolTutorial In short, you'll need to: 1) ssh to your cloud galaxy instance 2) navigate to /mnt/galaxy/galaxy-app 3) open tool_conf.xml in your favorite editor, and add the line below, exactly, in the Get Data section (the first one, begins on line 3): <tool file="data_source/ebi_sra.xml" /> 4) Close down ssh, 5) In a web browser, go to the cloud admin panel and click restart for the Galaxy service. > One of the great things about Galaxy Cloudman is that someone who doesn't > know programming (myself and many other biologists and clinicians) can > seamlessly use the platform. Unfortunately, when trivial issues arise where > the solution is to insert a line or two of code in the universe of Galaxy > Cloudman people like me are stymied and really don't even know where to > start. I know it requires work at some level, but a tutorial on "how to > find your 'tool_conf.xml'" (or "dummies guide to quick Cloudman fixes") > would likely be helpful to many end users (including myself). > We definitely do try to make it as ready-to-go out of the box as possible, but that's a great idea. I'll try to document this better. > Thanks again, Dannon! > Anytime, thanks for your patience and for using Galaxy/Cloudman!
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