station-x / lambda-r-survival-stats Goto Github PK

View Code? Open in Web Editor NEW

24.0 24.0 11.0 24 KB

Enables creating a AWS Lambda package that bundles R and a Python Lambda function for calculating survival statistics

License: Apache License 2.0

Shell 30.85% Python 69.15%

lambda-r-survival-stats's People

Stargazers

Watchers

Forkers

reinholdsson kapeed2091 rentrop nmcginn jiminygreen ccortezb josesaribeiro lmine wsyhhh rahul-c1

lambda-r-survival-stats's Issues

R Query

Where is the R script and how do I load the R libraries. Also how can I pass parameters to the R Script....do we send the input parameters to Python and Python sends it to R. I am unable to understand where do R and its related libraries come into the picture as I do not see a single script.R file which is supposed to take the input parameters and do the calculation using known R libraries and output the result back to the API

OSError: lib/libRrefblas.so: undefined symbol: xerbla_

Thanks for sharing your code on how to use R on AWS.

Unfortunately if i follow your code with the current Lambda-AMI i get the following error when testing it on a new AWS instance:

[ec2-user@***]$ python ./test_handler.py
Traceback (most recent call last):
  File "./test_handler.py", line 17, in <module>
    import handler
  File "/home/ec2-user/handler.py", line 29, in <module>
    ctypes.cdll.LoadLibrary(os.path.join('lib', file))
  File "/usr/lib64/python2.7/ctypes/__init__.py", line 438, in LoadLibrary
    return self._dlltype(name)
  File "/usr/lib64/python2.7/ctypes/__init__.py", line 360, in __init__
    self._handle = _dlopen(self._name, mode)
OSError: lib/libRrefblas.so: undefined symbol: xerbla_

I tried googling for it but unfortunately do not understand how to fix this...
Any idea?

While running the script it throws the following error:

cp: cannot stat '/usr/lib64/libblas.so.3': No such file or directory
cp: cannot stat '/usr/lib64/liblapack.so.3': No such file or directory

I tried installing these libraries using

sudo yum -y install blas
sudo yum -y install lapack

And then ran the script again... still same error

The script installs the current R version 3.3.2 - dont know if this helps

Might that have something to do with openBlas VS blas?
https://bodhi.fedoraproject.org/updates/rkward-0.6.5-3.fc24%20rpy-2.8.3-1.fc24%20R-3.3.2-2.fc24/edit

Python 3

Thanks for this great worked example!

When I run the build file I get an error - I believe rpy2 is looking for python3, not 2.7.

Thoughts about where in the build script I might change this?

Collecting rpy2
  Downloading https://files.pythonhosted.org/packages/f1/98/c7652cc9d7fc0afce74d2c30a52b9c9ac391713a63d037e4ab8feb56c530/rpy2-2.9.4.tar.gz (194kB)
    100% |████████████████████████████████| 204kB 13.4MB/s 
    Complete output from command python setup.py egg_info:
    rpy2 is no longer supporting Python < 3. Consider using an older rpy2 release when using an older Python release.
    
    ----------------------------------------
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-install-iPB2pw/rpy2/

Step 8: Deploy the Lambda function --- Not Fully Understood

I do not know how to apply Step 4 as mentioned here: https://aws.amazon.com/blogs/compute/extracting-video-metadata-using-lambda-and-mediainfo/
for our purposes.
I created the role for lambda_trust_policy and I skipped the DynamoDB related role creation as we are not doing anything with DynamoDB.
Then I execute this command:

    --function-name MyAmazingLambda \
    --runtime python2.7 \
    --role LambdaMediaInfoExecutionRole \
    --handler handler.lambda_handler \
    --description "My Amazing Lambda Function" \
    --timeout 30 \
    --memory-size 1536 \
    --zip-file fileb://lambda_r_survival.zip

but I get the following complaint:

When calling the CreateFunction operation: 1 validation error detected: Value 'LambdaMediaInfoExecutionRole' at 'role' failed to satisfy constraint: Member must satisfy regular expression pattern: arn:aws:iam::\d{12}:role/?[a-zA-Z_0-9+=,.@\-_/]+

Could you be so kind to specify more what needs to be done under Step 8: Deploy the Lambda function so I do not encounter the above error?

Thank

station-x / lambda-r-survival-stats Goto Github PK

lambda-r-survival-stats's People

Stargazers

Watchers

Forkers

lambda-r-survival-stats's Issues

R Query

OSError: lib/libRrefblas.so: undefined symbol: xerbla_

Python 3

Step 8: Deploy the Lambda function --- Not Fully Understood

Recommend Projects

React

Vue.js

Typescript

TensorFlow

Django

Laravel

D3

Recommend Topics

javascript

web

server

Machine learning

Visualization

Game

Recommend Org

Facebook

Microsoft

Google

Alibaba

D3

Tencent