How to configure cloud launch app for aws?

Question: How to configure cloud launch app for aws?

19 months ago by

Hello. I am new to AWS and Galaxy, though I'm comfortable with technology. I am trying to set up a Cloudman Galaxy system in a private AWS subnet following the instructions at https://galaxyproject.org/cloudman/building/. I was able to install the Cloud Launch app and can successfully log into the admin page. However, I'm now trying to add a cloud entry, and I don't know what values to provide to configure it. For example, is us-east-1.amazonaws.com reasonable for a Region endpoint? What are EC2 port and EC2 conn path referring to? Does S3 host apply to aws, or leave it blank?

I've tried to access the Documentation link at the top of the admin page, but it tells me to install docutils. I installed it (sudo apt-get install python-docutils), restarted the app via supervisor, and I still get the same message.

I would appreciate any assistance in understanding what is expected in all these configuration fields. If this is already addressed in the documentation, then help getting the documentation working would be great.

Thanks. Richard

galaxy cloudman • 510 views

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modified 18 months ago • written 19 months ago by richard_martinez • 0

18 months ago by

Enis Afgan • 690

United States

Enis Afgan • 690 wrote:

Here's an example for the values: enter image description here The values come from the AWS docs, e.g., http://docs.aws.amazon.com/general/latest/gr/rande.html#ec2_region

Since you're setting this up, you may consider using the new version of CloudLaunch that will soon become the default: https://github.com/galaxyproject/cloudlaunch/tree/dev (granted, that one has less documentation for this time being).

ADD COMMENT • link written 18 months ago by Enis Afgan • 690

18 months ago by

richard_martinez • 0

richard_martinez • 0 wrote:

I was able to get past the errors and get the AMI created without packer, by running the following commands after crating the instance:

sudo apt-get update sudo apt-get install python-pip python-dev build-essential sudo pip install --upgrade virtualenv

I assume the above installed some pre-req software.

Richard

ADD COMMENT • link written 18 months ago by richard_martinez • 0

18 months ago by

richard_martinez • 0

richard_martinez • 0 wrote:

Thanks, Enis. I have added a cloud entry with the above values, so i'm good right now with the CloudLaunch app.

I am now in the "Build a Machine Image" part of the building instructions, and I am getting an error when i run

packer build -only=amazon-ebs image.json

I get lots of green output, but then get this:

amazon-ebs: Found existing installation: setuptools 3.3
    amazon-ebs: Not uninstalling setuptools at /usr/lib/python2.7/dist-packages, owned by OS
    amazon-ebs: Running setup.py install for MarkupSafe
    amazon-ebs: Traceback (most recent call last):
    amazon-ebs: File "<string>", line 1, in <module>
    amazon-ebs: File "/usr/local/lib/python2.7/dist-packages/setuptools/__init__.py", line 12, in <module>
    amazon-ebs: import setuptools.version
    amazon-ebs: File "/usr/local/lib/python2.7/dist-packages/setuptools/version.py", line 1, in <module>
    amazon-ebs: import pkg_resources
    amazon-ebs: File "/usr/local/lib/python2.7/dist-packages/pkg_resources/__init__.py", line 70, in <module>
    amazon-ebs: import packaging.version
    amazon-ebs: ImportError: No module named packaging.version
    amazon-ebs: Complete output from command /usr/bin/python -c "import setuptools, tokenize;__file__='/tmp/pip_build_root/MarkupSafe/s                                                                        etup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\r\n', '\n'), __file__, 'exec'))" install --record /tmp                                                                        /pip-9oTqlJ-record/install-record.txt --single-version-externally-managed --compile:

The lines displayed after the last line are the same Traceback lines as above, so i'm not repeating them.

I also tried the steps in "Running without Packer", but the behavior is different. Unlike above, i get "Successfully uninstalled setuptools", but then immediately fails with this:

Running setup.py install for pycrypto
    Traceback (most recent call last):      
    File \"<string>\", line 1, in <module>      
    File \"/opt/cloudman/boot/.venv/local/lib/python2.7/site-packages/setuptools/__init__.py\", line 10, in <module>        
    from six.moves import filter, map    
    ImportError: No module named six.moves    
    Complete output from command /opt/cloudman/boot/.venv/bin/python -c \"import setuptools, tokenize;__file__='/opt/cloudman/boot/.venv/build/pycrypto/setup.py';exec(compile(getattr(tokenize, 'open', open)(__file__).read().replace('\\r\\n', '\\n'), __file__, 'exec'))\" install --record /tmp/pip-YWLKi1-record/install-record.txt --single-version-externally-managed --compile --install-headers /opt/cloudman/boot/.venv/include/site/python2.7:

Any thoughts? Thanks. Richard

ADD COMMENT • link written 18 months ago by richard_martinez • 0

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