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: n...@bx.psu.edu
> > Date: Mon, 28 Nov 2011 13:40:24 -0500
> > CC: galaxy-...@bx.psu.edu
> > To: giota_kott...@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/
> >
___________________________________________________________
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:
http://lists.bx.psu.edu/
