openvax / pyensembl

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LAST BUILD ON BRANCH v2.9.1

branch: v2.9.1

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Build # 25764410360

Build Type

push

github

Committed by web-flow

Commit Message

Fix #177: push biotype filter into SQL for genes() / transcripts() (#344)

Genome.genes(), Genome.transcripts(), gene_ids(), transcript_ids(), and
the underlying Database.query_feature_values() now take an optional
biotype= kwarg that filters on the matching {feature}_biotype column
inside the SQL query, avoiding a Python-side scan over every feature.

Filtering by biotype on a feature whose biotype column doesn't exist
(e.g. exons) raises ValueError rather than silently returning all rows.

Bump version to 2.9.1.

Coverage Stats

13 of 13 new or added lines in 3 files covered. (100.0%)

1560 of 1844 relevant lines covered (84.6%)

3.38 hits per line