start working with cloudman

Question: start working with cloudman

2.3 years ago by

ggeo1 • 10

ggeo1 • 10 wrote:

Hello,

So, I want to start working with cloudman.I can't find how to start though.. I have created a cloudman instance (cluster only) on amazon ec2.

Now, how can I send the data and the workflow to cluster and start running? And the results?Can I send them back?

Thanks!

galaxy cloudman • 689 views

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modified 2.3 years ago by Enis Afgan • 690 • written 2.3 years ago by ggeo1 • 10

2.3 years ago by

Martin Čech ♦♦ 4.9k

United States

Martin Čech ♦♦ 4.9k wrote:

Did you have a look at https://wiki.galaxyproject.org/CloudMan/GettingStarted?

After your cloud instance starts you can access the Galaxy directly and work on it.

ADD COMMENT • link written 2.3 years ago by Martin Čech ♦♦ 4.9k

Yes, I have setup following this guide but I chose the only cluster option.I want to run galaxy on my local PC and just use cluster for doing the work.

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

This setup with local Galaxy and AWS cluster is not something we have prepared or support. It might be possible to set it up this way but not easily. Why do you want it this way?

ADD REPLY • link written 2.3 years ago by Martin Čech ♦♦ 4.9k

I want to be able to use galaxy on my local pc and do the job on the cluster.I just wanted to know if I can do this.It would just be "good for me" that why.So, you say this is extremely difficult,if not possible?Thanks for the info.

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

You would have to have a decent knowledge of Galaxy, programming, and some subprojects like Pulsar. To run the job on cluster remotely you would have to transfer the data anyways so you wouldn't gain much in this area either.

ADD REPLY • link written 2.3 years ago by Martin Čech ♦♦ 4.9k

So the best way you say is just run the cloudman cluster with galaxy option?And work on that galaxy (on aws directly)?Thanks!

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

2.3 years ago by

Enis Afgan • 690

United States

Enis Afgan • 690 wrote:

As Martin said in the comments, this is not natively supported but it's an experimental feature. You can take a look at this paper for details on how to set it up and see how it preforms: http://onlinelibrary.wiley.com/doi/10.1002/cpe.3536/abstract Granted, this has not seen any adoption until now so some software is likely to need to be updated before it will readily run.

ADD COMMENT • link written 2.3 years ago by Enis Afgan • 690

Ok,thank you very much.So, (as I wrote in the above comment) the best thing is to run galaxy on aws directly?Thanks!

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

Yep. Let us know if you have questions about it.

ADD REPLY • link written 2.3 years ago by Enis Afgan • 690

Ok,and if I have galaxy on my local PC and want to do the job (run the whole workflow) on the aws galaxy?Is there some kind of guide for that?Thank you.

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

I am still unclear about the usecase here. Could you please explain why you want to use local Galaxy's interface but run jobs remotely so we can better assist you? Thanks.

ADD REPLY • link written 2.3 years ago by Martin Čech ♦♦ 4.9k

OK,nevermind.I can see that using cloudman is better..Thanks!

ADD REPLY • link written 2.3 years ago by ggeo1 • 10

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