[galaxy-dev] [galaxy-user] Upload executable in galaxy

[Nate Coraor]

Hi Giota,

The executable should be placed in a directory on $PATH.  You can see what directories those are with:

    % echo $PATH

You can add to $PATH with:

    % export PATH="/new/dir:$PATH"

--nate

On Dec 4, 2011, at 3:55 PM, Giota Kottara wrote:

> Hi, 
> 
> I've put the executable in the directory where the xml file and wrapper is. The message I'm getting when I run the tool is  Unable to run tool: No such file or directory.
> I guess that I'm forgetting something....
> 
> > Subject: Re: [galaxy-user] Upload executable in galaxy
> > From: nate at bx.psu.edu
> > Date: Mon, 28 Nov 2011 13:40:24 -0500
> > CC: galaxy-dev at bx.psu.edu
> > To: giota_kottara at hotmail.com
> > 
> > On Nov 23, 2011, at 11:10 AM, Giota Kottara wrote:
> > 
> > > Dear galaxy developers, 
> > > 
> > > I am trying to integrate an executable tool in a private instance of galaxy. I stored the configuration .xml file and the executable in tools folder of Galaxy and the tool appears in the homepage. Nevertheless when i am running the tool it doesn't seem to find the executable. Am I forgetting something? 
> > 
> > Hi Giota,
> > 
> > I've moved this over to the galaxy-dev list since it pertains to tool development.
> > 
> > Executables will need to be on the $PATH of the user running Galaxy. Could you share the error messages you receive when you run the tool?
> > 
> > --nate
> > 
> > > 
> > > Thank you in advance
> > > Giota Kottara
> > > ___________________________________________________________
> > > The Galaxy User list should be used for the discussion of
> > > Galaxy analysis and other features on the public server
> > > at usegalaxy.org. Please keep all replies on the list by
> > > using "reply all" in your mail client. For discussion of
> > > local Galaxy instances and the Galaxy source code, please
> > > use the Galaxy Development list:
> > > 
> > > http://lists.bx.psu.edu/listinfo/galaxy-dev
> > > 
> > > To manage your subscriptions to this and other Galaxy lists,
> > > please use the interface at:
> > > 
> > > http://lists.bx.psu.edu/
> >