Hi Isabelle,
It is most likely the NFS that's blocking the unmount. If you edit the
file /etc/exports to comment the reference to /mnt/galaxyTools and then
restart the NFS server using the following command
'/etc/init.d/nfs-kernel-server restart', you will hopefully be able to
unmount without any trouble.

Enis

On Fri, Mar 11, 2011 at 8:39 PM, Isabelle Phan <
isabelle.p...@seattlebiomed.org> wrote:

> Hello Enis,
>
> Many thanks for your reply.
> I've made some progress: the middle pane view works if I start galaxy with
> --deamon. I have figured out that I can test modifying the tools xml  files
> (e.g. adding options).
>
> Now I am having issues with not being able to unmount /mnt/galaxyTools
> (step 3). It keeps complaining that the device is busy. - I check first all
> my windows that I am not accessing that directory
> - "lsof" shows nginx processes running under user galaxy. I kill all of
> them. Still can't unmount.
> - tried force unmount. Still no luck.
>
> Any ideas?
>
> Isabelle
>
> > -----Original Message-----
> > From: Enis Afgan [mailto:eaf...@emory.edu]
> > Sent: Friday, March 11, 2011 4:42 PM
> > To: Isabelle Phan
> > Cc: galaxy-dev@lists.bx.psu.edu; Gowthaman Ramasamy
> > Subject: Re: [galaxy-dev] testing updates on Galaxy CloudMan
> >
> > Hi
> > Isabelle,
> > There is nothing special on the instance of Galaxy deployed through
> CloudMan, so
> > any changes performed to the configuration of Galaxy should be tested the
> same
> > way they would be tested if they were installed on a local system. That
> said, if there
> > are system dependencies that need to be satisfied for some of the
> functionality to
> > work, the update is more complicated because it would, most likely,
> involve creation
> > of a new AMI. Especially if the mentioned functionality is not working on
> the default
> > instance of CloudMan, we should work out the issue and release a new
> CloudMan
> > AMI that fixes the underlying problem. I'll test the functionality you
> mentioned on a
> > new instance of Galaxy CloudMan and help you resolving the issues.
> >
> > Enis
> >
> >
> > On Fri, Mar 11, 2011 at 5:32 PM, Isabelle Phan <
> isabelle.p...@seattlebiomed.org>
> > wrote:
> >
> >
> >       I am at step 2 of Galaxy CloudMan deployment.
> >       "Now, manipulate Galaxy as desired."
> >
> >       How do I test that my updates are working before proceeding to step
> 3?
> >
> >       I assumed I could just type 'run.sh'. This starts Galaxy but:
> >       - fasta files do not display in the middle pane
> >       - png images generated by e.g. boxplot do not display in the middle
> pane
> >       - saving images does not work (get empty file)
> >
> >       I need to know how people are customizing their cloud instance of
> galaxy. If
> > it is NOT possible to test modifications in the usual way PLEASE would
> somebody
> > simply confirm?
> >
> >       I really would appreciate a response.
> >
> >
> >       Isabelle
> >       --
> >       Isabelle Phan, DPhil
> >       Seattle Biomedical Research Institute
> >       +1(206)256 7113 <tel:%2B1%28206%29256%207113>
> >
> >
> >
> >       ___________________________________________________________
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> >
> >
>
>
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