Twitter's R breakout detection package wraper for python on a docker.
For more information on the Breakout detection package you can check this article explaining it.
Make sure to have installed docker on your environment, if you need more information go to DOCKER DOCUMENTATION.
This script also uses Pipenv for it's python virtual environment and dependencies, for more information on how to use this go to the pipenv documentation.
To run this script you need clone this repo and then build and run the docker container as following:
Based on the Docker build and run Documentation:
Build the app
Make sure you are in the repository top. Here’s what ls should show:
$ ls
Dockerfile README.md
Pipfile breakout_detection_wraper
Pipfile.lock install_packages.R
Now run the build command. This creates a Docker image, which we’re going to name using the --tag option. Use -t if you want to use the shorter option.
$ docker build --tag=boutdetect .
(NOTICE THAT THERE IS A DOT AT THE END OF THIS COMMAND)
Where is your built image? It’s in your machine’s local Docker image registry To show it run the following command:
$ docker image ls
| REPOSITORY | TAG | IMAGE ID | CREATED |
|---|---|---|---|
| boutdetect | lastest | 326387cea398 | 23 seconds ago |
Now to run the image you need to run the command:
$ docker run boutdetect
That's it! Now you should get a result like the following:
$loc
[1] 31 88 750
$time
[1] 1.406
$pval
[1] NA
To work with R inside Python I used a Wrapper library called RPY2. It is already installed in this docker container but you can install it with:
pip install rpy2
To "build" the wrapper first you need to read the R script file of the function you are about to use with the following:
with open('breakout_detection_wraper/breakout_function.R') as code:
rcode = os.linesep.join(code.readlines())
Then you need to put it into the wrapper:
wrapper = SignatureTranslatedAnonymousPackage(rcode, "breakout_function")
And finally run the function you just wrapped:
result = wrapper.Detect(FloatVector(mydata), minsize, method, degree)
For more information you can go to the Rpy2 documentation
