However, when I create an AMI, terminate the cluster and create a new cluster using the new AMI, both /mnt/galaxyData and /mnt/galaxyTools do not exist anymore, i.e. /dev/sdg3 and /dev/sdg4 are not mounted automatically.
If I mount those two devices manually, everything runs smoothly again.

So, is there anything that I might have forgotten to do while creating the AMI? Is there a way to make sure that those devices will be mounted automatically?

It is not necessary to create a new AMI when wanting to customize your cluster. Instead, on the admin interface - after you have modified the file systems, there is an option to persist static file systems (galaxyTools & galaxyIndices). Once the process is completed and you restart the cluster, just continue to use the same AMI. CloudMan will use the new, customized, data snapshots at runtime.

Let us know how it goes,

Enis

Regards,
Marcel

On 11/30/11 3:57 PM, Enis Afgan wrote:

Hi Marcel,
It would be best to use 'galaxy' user to add any tools. To do so, after
you've logged in as ubuntu user, simply execute:
sudo su galaxy
and you will become galaxy user. You can then make the desired
modifications.

Good luck,
Enis

On Wed, Nov 30, 2011 at 3:42 PM, Greg Von Kuster<greg@bx.psu.edu> wrote:

Hello Marcel,

In the future, please send all questions like this to the galaxy-dev
mailing list, as doing so will streamline the process of getting a timely
answer. I believe Enis is best able to answer your questions.

Thanks!

On Nov 30, 2011, at 9:29 AM, Marcel Schumann wrote:

Hi Greg,

I'm currently trying to create a GalaxyCloudman version that includes

CADDSuite.

Thus, I launched GalaxyCloudman as described in your wiki and tried to

modify it afterwards.

Well, starting cloudman worked without any problems... so far, so good

:-)

As described on
http://wiki.g2.bx.psu.edu/Admin/Cloud/Customize%20Galaxy%20Cloud
I could then log-in via ssh as user 'ubuntu' (not as user 'galaxy').
However, all files of the galaxy installation belong to user and group

'galaxy'.

Thus my question: How should users be able to customize cloudman? Is

there some trick by which I can log-in as 'galaxy' or do you have any other
idea how to make this work ? ;-)

Sorry Greg, if you are not the correct contact in this case, but I found

not specific contact or mailing list for cloudman. Perhaps, you could just
forward this mail in that case ...

Cheers,
Marcel

--
Marcel Schumann

University of Tuebingen
Wilhelm Schickard Institute for Computer Science
Division for Applied Bioinformatics
Room C313, Sand 14, D-72076 Tuebingen

phone: +49 (0)7071-29 70437
fax: +49 (0)7071-29 5152
email: schumann@informatik.uni-tuebingen.de

Greg Von Kuster
Galaxy Development Team
greg@bx.psu.edu

--
Marcel Schumann

University of Tuebingen
Wilhelm Schickard Institute for Computer Science
Division for Applied Bioinformatics
Room C313, Sand 14, D-72076 Tuebingen

phone: +49 (0)7071-29 70437
fax: +49 (0)7071-29 5152
email: schumann@informatik.uni-tuebingen.de