Hi Marcel, 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<g...@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<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: >>>> schum...@informatik.uni-**tuebingen.de<schum...@informatik.uni-tuebingen.de> >>>> >>> >>> Greg Von Kuster >>> Galaxy Development Team >>> g...@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: > schum...@informatik.uni-**tuebingen.de<schum...@informatik.uni-tuebingen.de> >
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