Skip to main content

A PyBEL extension for interconversion with CX

Project description

A PyBEL extension for interconversion with CX.

Installation Current version on PyPI Stable Supported Python Versions MIT License

PyBEL-CX can be installed easily from PyPI with the following code in your favorite terminal:

$ python3 -m pip install pybel-cx

or from the latest code on GitHub with:

$ python3 -m pip install git+https://github.com/pybel/pybel-cx.git

Command Line Usage

PyBEL-CX installs two command line utilities: bel_to_cx and cx_to_bel.

CX to BEL

Running this script has the caveat that the CX document should conform to the schema created by PyBEL-CX.

$ cat my_network.cx | cx_to_bel > my_network.bel

BEL to CX

$ cat my_network.bel | bel_to_cx > my_network.cx

Since this operation can be expensive, PyBEL caches namespace resources. The -c flag can be used to specify a database connection string to use a high performance RDBMS instead of the default SQLite. For example, if you would like to use MySQL, this database string will look something like mysql+pymysql://<username>:<password>@<host>/<dbname>?charset=utf8[&<options>]. Be sure to pip install the connector, which is pymysql in this example.

$ pip install pymysql
$ cat my_network.bel | bel_to_cx -c "mysql+pymysql://root:root@localhost/mydb?charset=utf8" > my_network.cx

More documentation on connection strings at http://pybel.readthedocs.io/en/latest/manager.html#pybel.manager.BaseManager.from_connection.

Project details


Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

pybel_cx-0.1.2.dev0.tar.gz (23.4 kB view hashes)

Uploaded Source

Built Distribution

pybel_cx-0.1.2.dev0-py3-none-any.whl (11.8 kB view hashes)

Uploaded Python 3

Supported by

AWS AWS Cloud computing and Security Sponsor Datadog Datadog Monitoring Fastly Fastly CDN Google Google Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Sentry Sentry Error logging StatusPage StatusPage Status page