When searching the tool shed from Galaxy, only repositories that are
automatically installable into Galaxy will be located. Repositories are
considered "installable" if they contain valid Galaxy utilities (tools,
proprietary datatypes, repository dependency definitions, tool dependency
definitions ) that can be loaded and used within Galaxy.
Since the ngsrich repository in the main Galaxy tool shed consists of only a
README file ( not valid Galaxy utilities ), it was not displayed when you
searched the tool shed from Galaxy.
As you discovered, manually downloading the tar archive of the repository from
the tool shed and attempting to get any of it's contents to display in Galaxy
will not work either because it contains no useful Galaxy utilities.
You may contact the repository owner to see if they are planning to add any
valid Galaxy utilities in the near future.
Greg Von Kuster
On Feb 15, 2013, at 10:26 AM, Hakeem Almabrazi wrote:
> Thank you Greg,
> That what I tried to do initially but I could not find this tool the tool
> shed repository. Here is what I did, as an admin I went to Search and browse
> shed tool->Galaxy main tool shed
> Then I searched for “ngsrich” I could not find it. Then I looked under
> static category I still could not find it. I even went to the search page I
> looked for the software and still will not show up. I finally downloaded it
> manually but had not gone that far.
> I am not sure if what I did make sense or not or the right way to do. Can
> you please tell me how to find that tool other than what I did above? Or if
> what I did is missing something?
> I appreciate your help…
> From: Greg Von Kuster [mailto:g...@bx.psu.edu]
> Sent: Thursday, February 14, 2013 5:29 PM
> To: Hakeem Almabrazi
> Cc: Galaxy Dev
> Subject: Re: [galaxy-dev] Install NGSRich in local galaxy
> Hello Hakeem,
> Here is a link to the tool shed wiki sections that provide all of the details
> for installing repositories from the tool shed into your local Galaxy
> We advise that you use the automatic installation process when installing
> into your Galaxy instance and not the manual installation process.
> Greg Von Kuster
> On Feb 14, 2013, at 5:48 PM, Hakeem Almabrazi wrote:
> Does anyone know who to install NGSRich software on a local instance of
> I tried to install it from the shed_tool but it does not show up in the
> repository, so I manually downloaded it from
> But now, I am not sure how to add it into my galaxy env.
> Any help will be highly appreciated …
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Please keep all replies on the list by using "reply all"
in your mail client. To manage your subscriptions to this
and other Galaxy lists, please use the interface at: