Thank you Greg,

I will contact the owner of that software and see if we can get it installed.

Regards

From: Greg Von Kuster [mailto:greg@bx.psu.edu]
Sent: Friday, February 15, 2013 10:13 AM
To: Hakeem Almabrazi
Cc: Galaxy Dev
Subject: Re: [galaxy-dev] Install NGSRich in local galaxy

Hello Hakeem,

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:greg@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 instance.

http://wiki.galaxyproject.org/Tool%20Shed#Installing.2C_maintaining_and_uninstalling_tool_shed_repositories_within_a_Galaxy_instance

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:

HI,

Does anyone know who to install NGSRich software on a local instance of Galaxy? 

I tried to install it from the shed_tool but it does not show up in the repository, so I manually downloaded it from  

http://toolshed.g2.bx.psu.edu/repository/view_repository?sort=name&operation=view_or_manage_repository&page=1&async=false&show_item_checkboxes=false&f-free-text-search=ngs&id=feaea37bb0f3bdca

But now, I am not sure how to add it into my galaxy env.

Any help will be highly appreciated …

Regards,

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