sssom

library0.4.21pypypi✓ verified 81d ago

Python library for working with SSSOM (Simple Standard for Sharing Ontological Mappings) mapping tables. Provides utilities for reading, writing, validating, and transforming mappings. Current version 0.4.21, requires Python >=3.10 and <4.0.0. Release cadence is irregular; breaking changes occur between minor versions.

devops

pip install sssom

INSTALL

IMPORT

SIG · SSSOM

sssom

devopspythonv0.4.21

harness data pending

Install & Compatibility

Where this runs

No compatibility data collected yet for this library.

Code

Verified usage

Verified import paths — ran on the pinned version, not inferred.

MappingSet

✓ from sssom import MappingSet

✗ from sssom.sssom_document import SSSOMDocument

Mapping

✓ from sssom import Mapping

parse_sssom_table

✓ from sssom import parse_sssom_table

Parses a SSSOM TSV file and writes it back.

from sssom.parsers import parse_sssom_table from sssom.writers import write_sssom_table from sssom.constants import CURIE_MAP doc = parse_sssom_table('mapping.sssom.tsv') print(f'Number of mappings: {len(doc.mappings)}') write_sssom_table(doc, 'output.tsv')

Debug

Known issues

breakingIn version 0.4.0, the API was restructured. Functions moved from top-level to submodules (e.g., parse_sssom_table moved to sssom.parsers).

fix

Update imports: from sssom.parsers import parse_sssom_table instead of from sssom import parse_sssom_table.

affects: <0.4.0

deprecatedThe 'curie_map' argument in many functions has been deprecated in favor of a unified CURIE_MAP constant.

fix

Use from sssom.constants import CURIE_MAP and pass CURIE_MAP instead of custom curie_map dicts.

affects: >=0.4.0

gotchaSSSOM files can be TSV or JSON; the parser expects either a string path or file-like object. Passing a TSV string directly without a file path will raise an error.

fix

Use StringIO from io module if you have a string: parse_sssom_table(StringIO(tsv_string)).

affects: all

Upgrade

Version history

0.4.21latest on PyPI · released May 23, 2026

Audit

Dependencies

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Agent activity

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Resources

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