Install

Requirements¶

Python 3.9

Install from Pypi¶

We are currently working on this

Install from GitHub¶

To run SOMEF, please follow the next steps:

Clone this GitHub repository

git clone https://github.com/SciCodes/somef-core.git

Install somef-core (you should be in the folder that you just cloned). Note that for Python 3.7 and 3.8 the module Cython should be installed in advanced (through the command: pip install Cython).

cd somef-core
pip install -e .

Run SOMEF

somef_core --help

If everything goes fine, you should see:

Usage: somef_core [OPTIONS] COMMAND [ARGS]...

Options:
  -h, --help  Show this message and exit.

Commands:
  configure  Configure credentials
  describe   Running the Command Line Interface
  version    Show somef version.

Installing Through Docker¶

We provide a Docker image with SOMEF already installed. To run through Docker, you may build the Dockerfile provided in the repository by running:

docker build -t somef .

Or just use the Docker image already built in DockerHub:

docker pull kcapd/somef

Then, to run your image just type:

docker run -it kcapd/somef /bin/bash

And you will be ready to use SOMEF (see section below). If you want to have access to the results we recommend mounting a volume. For example, the following command will mount the current directory as the out folder in the Docker image:

docker run -it --rm -v $PWD/:/out kcapd/somef /bin/bash

If you move any files produced by somef into /out, then you will be able to see them in your current directory.

Configure¶

Before running SOMEF-core, you must configure it appropriately. Run:

python -m nltk.downloader wordnet
python -m nltk.downloader omw-1.4

To download two wordnet modules needed. Then run:

somef_core configure

And you will be asked to provide the following:

A GitHub authentication token [optional, leave blank if not used], which SOMEF uses to retrieve metadata from GitHub. If you don't include an authentication token, you can still use SOMEF. However, you may be limited to a series of requests per hour. For more information, see https://help.github.com/en/github/authenticating-to-github/creating-a-personal-access-token-for-the-command-line
The path to the trained classifiers (pickle files). If you have your own classifiers, you can provide them here. Otherwise, you can leave it blank

If you want to configure SOMEF with the default parameters, just type:

somef_core configure -a

For showing help about the available options, run:

somef_core configure --help

Which displays:

Usage: somef_core configure [OPTIONS]

  Configure GitHub credentials and classifiers file path

Options:
  -a, --auto  Automatically configure SOMEF
  -h, --help  Show this message and exit.