xabush/moses_snet_service repository overview

The MOSES⁠ service for SingularityNET

The purpose of this service is to use MOSES⁠ for Supervised classification of SNP or Gene Expression data.

⁠Running the Service

1. Clone the project:

   $ git clone --recursive https://github.com/Habush/mozi_snet_service.git

2. Go to the project folder and start docker containers to run the gRPC server and its dependencies (redis, mongo, etc)

   2a. Define the APP_PORT, SERVICE_ADDR variables. Change <PORT_NUM> to the port number you would like to run the react app and <ADDR> to the address of the host that you are going to run the app. If you are running this locally, set SERVICE_ADDR to localhost

    $ export APP_PORT=<PORT_NUM>
    $ export SERVICE_ADDR=<ADDR>
   

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   2b. Start the docker containers:

    $ docker-compose up
   

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3. Install the python dependencies for running the service client on your local system. Run:

   $ pip install grpcio grpcio-tools pyyaml

4. Generate the gRPC code from the protobufs. Run the following:

   $ ./build.sh

   Note: Make sure you have set execute permission for build.sh. If not, just run chmod +x build.sh

5. On a new terminal, while still in the project directory, call the service client. Replace with a .yaml file containing the moses and cross-validation with the path to file you want to run analysis on

   $ python -m service.moses_service_client <options-file> <dataset-file>

   This will output a link where you can poll the status and download the result files once the analysis is finished.

   NOTE: You can find a sample options.yaml file in the tests/data directory of the project