What's the current version for each biological database?
Project description
Bioversions
What's the current version for each biological database?
A daily updated static listing of all current versions (that are incorporated) can be found at https://cthoyt.github.io/bioversions.
🚀 Installation
$ pip install bioversions
💪 Usage
import bioversions
assert bioversions.get_version('biogrid') == '4.2.192', 'This was true on Dec 5th, 2020!'
# If you want more information, use the resolve() function
bioversion = bioversions.resolve('biogrid')
assert bioversion.version == '4.2.192'
By default, the results are cached and only refreshed once per day with the help
of cachier. The cache is stored in ~/.data/bioversions. The cache location
can be overridden by setting the
BIOVERSIONS_HOME environment variable via pystow.
🌐 Web Application
While https://cthoyt.github.io/bioversions provides a daily updated static listing of the database, you can run a dynamic version with an API from your shell with:
$ bioversions web
Options can be listed with bioversions web --help.
You can navigate to http://localhost:5000 to see all versions as HTML or programmatically resolve given databases with
the
http://localhost:5000/database/<name> endpoint like in the following:
import requests
res = requests.get('http://localhost:5000/database/biogrid').json()
assert res['success']
assert res['result']['name'] == 'BioGRID'
assert res['result']['version'] == '4.2.192', 'This was true on Dec 5th, 2020!'
CLI Usage
You can use bioversions get to incorporate the latest versions in your shell scripts or REPL usage like in:
$ wget "https://downloads.thebiogrid.org/Download/BioGRID/Release-Archive/BIOGRID-$(bioversions get biogrid)/BIOGRID-ALL-$(bioversions get biogrid).mitab.zip"
🙏 Contributing
To add more databases to the list, you can create a new submodule of
bioversions.sources and extend the bioversions.utils.Getter class to identify the most recent version for your
target database. See
bioversions.sources.biogrid as an example.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
Hashes for bioversions-0.1.0-py3-none-any.whl
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | fa8c8d71fed522c90f8e79e68be7aba6d693162727a4478768ec3f579ce7f138 |
|
| MD5 | 320d7992f64bd8dca6975e42de59d389 |
|
| BLAKE2b-256 | 50e80080998879d3ad0c3d1057856b47a54b3752e454cf99cb22471d2850be2c |
