cumulus-library-umls

v0.2.0

A Unified Medical Language System® Metathesaurus study for the Cumulus project For more information about how to use this package see README

Latest version published 6 months ago

License: Unknown

PyPI

GitHub

Package Health Score

54 / 100

security
Security review needed
popularity
Limited
maintenance
Inactive
community
Sustainable

Popularity

Limited

GitHub Stars: 0
Forks: 0
Contributors: 1

Direct Usage Popularity

Based on project statistics from the GitHub repository for the PyPI package cumulus-library-umls, we found that it has been starred ? times.

Security

Security review needed

Security and license risk for latest version

Release Date: Jun 21, 2024
Direct Vulnerabilities: 0
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0
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0
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Indirect Vulnerabilities: 0
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License Risk: 0
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All security vulnerabilities belong to production dependencies of direct and indirect packages.

License

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Maintenance

Inactive

Commit Frequency

Open Issues: 3
Open PR: 0
Last Release: 6 months ago
Last Commit: 4 months ago

Further analysis of the maintenance status of cumulus-library-umls based on released PyPI versions cadence, the repository activity, and other data points determined that its maintenance is Inactive.

We found that cumulus-library-umls demonstrates a positive version release cadence with at least one new version released in the past 12 months.

In the past month we didn't find any pull request activity or change in issues status has been detected for the GitHub repository.

Community

Sustainable

Readme: Yes
Contributing.md: Yes
Code of Conduct: No
Contributors: 1
Funding: No

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Package

Python Versions Compatibility: >=3.10

Age: 8 months
Latest Release: 6 months ago
Dependencies: 0 Direct
Versions: 2
Maintainers: 0
Wheels: OS Independent

Readme

Cumulus Library UMLS

An installation of the Unified Medical Language System® Metathesaurus®. Part of the SMART on FHIR Cumulus Project

For more information, browse the documentation.

Usage

In order to use the Metathesaurus, you'll need to get an API key for access from the National Library of Medicine, which you can sign up for here.

You can then install this module by running pip install cumulus-library-umls.

This will add a umls target to cumulus-library. You'll need to pass your API key via the --umls-key CLI flag, or set the UMLS_API_KEY environment variable to the key you received from NIH.

This ends up being a fairly intensive operation - we download a large file, extract it, create parquet files from Athena, and then upload it. It usually takes a half hour to run. We try to preserve some of those artifacts along the way to make rebuilds faster. If you need to force recreation from scratch, the --force-upload CLI flag will handle this.

Note: This study is explicitly namespaced in its own schema, umls. Make sure your database is not using this schema for another use. Do not create tables inside this schema by another means.

Licensing details

The cumulus-library-umls study is provided as a convenience to install the UMLS Metathesaurus, but is not shipped with the Metathesaurus dataset. It will require an API key to download the data from NIH directly.

As a reminder, the License Agreement for Use of the UMLS® Metathesaurus® provides several restrictions on this usage of this data (including distributing the dataset). When you sign up for a UMLS key, you are assuming responsibility for complying with these terms, or an alternate licensing agreement with the owner of the Metathesaus data if you are provided with one.

Citations

Bodenreider O. The Unified Medical Language System (UMLS): integrating biomedical terminology. Nucleic Acids Res. 2004 Jan 1;32(Database issue):D267-70. doi: 10.1093/nar/gkh061. PubMed PMID: 14681409; PubMed Central PMCID: PMC308795.

FAQs

What is cumulus-library-umls?

A Unified Medical Language System® Metathesaurus study for the Cumulus project. Visit Snyk Advisor to see a full health score report for cumulus-library-umls, including popularity, security, maintenance & community analysis.

Is cumulus-library-umls popular?

We’re still processing downloads data for the python package cumulus-library-umls. Visit the popularity section on Snyk Advisor to see the full popularity analysis.

Is cumulus-library-umls well maintained?

We found indications that cumulus-library-umls is an Inactive project. See the full package health analysis to learn more about the package maintenance status.

Is cumulus-library-umls safe to use?

While scanning the latest version of cumulus-library-umls, we found that a security review is needed. A total of 0 vulnerabilities or license issues were detected. See the full security scan results.

Last updated on 16 December-2024, at 20:43 (UTC).

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