openvax / pyensembl / 25821529179

Builds Branch Commit Type Ran Committer Via Coverage
25821529179 main test.sh: memory-aware pytest-xdist worker count Mirror the worker-cap logic from trufflepig/hitlist/tsarina/vaxrank so concurrent test runs across sibling repos can't fork-bomb the laptop. Picks min(cpu_reserve, available_RAM / PER_WORKER_GB), re... push iskandr github
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25818977747 v2.10.1 Fix #169: add three-tier protein-coding biotype ontology (#357) Introduces a layered set of flags for "does this transcript make a polypeptide?": * `is_protein_coding` - unchanged, strict canonical `protein_coding` only. Preserves the contract... push web-flow github
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25818956626 main Fix #169: add three-tier protein-coding biotype ontology (#357) Introduces a layered set of flags for "does this transcript make a polypeptide?": * `is_protein_coding` - unchanged, strict canonical `protein_coding` only. Preserves the contract... push web-flow github
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25818157036 fix-169-extended-protein-coding-flags Fix #169: add three-tier protein-coding biotype ontology Introduces a layered set of flags for "does this transcript make a polypeptide?": * `is_protein_coding` - unchanged, strict canonical `protein_coding` only. Preserves the contract downst... Pull #357 iskandr github
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25816710251 v2.10.0 Preserve FASTA-header versions in SequenceData (closes #351) (#355) * Preserve FASTA-header versions in SequenceData (#351) `_parse_header_id` no longer strips ENS .N version suffixes — the versioned form is preserved as the canonical FASTA iden... push web-flow github
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25816687834 main Preserve FASTA-header versions in SequenceData (closes #351) (#355) * Preserve FASTA-header versions in SequenceData (#351) `_parse_header_id` no longer strips ENS .N version suffixes — the versioned form is preserved as the canonical FASTA iden... push web-flow github
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25816358406 feature/preserve-fasta-versions Address PR #355 review: drop pickle schema bump, surface fasta_version * Reverted FASTA_PICKLE_SCHEMA_VERSION + the .v2.pickle filename suffix. v1 (bare-keyed) pickles load cleanly under the new code path - the rebuilt _stripped_index stays e... Pull #355 iskandr github
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25810747793 v2.9.8 Fix #335 (part 1): wire GENCODE_BIOTYPE_ALIASES into read_gtf call (#356) GENCODE GTFs use gene_type / transcript_type where Ensembl uses gene_biotype / transcript_biotype. Before this fix, pointing pyensembl at a vanilla GENCODE GTF produced a s... push web-flow github
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25810734911 main Fix #335 (part 1): wire GENCODE_BIOTYPE_ALIASES into read_gtf call (#356) GENCODE GTFs use gene_type / transcript_type where Ensembl uses gene_biotype / transcript_biotype. Before this fix, pointing pyensembl at a vanilla GENCODE GTF produced a s... push web-flow github
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25810373798 fix-335-part1-gencode-biotype-aliases Fix #335 (part 1): wire GENCODE_BIOTYPE_ALIASES into read_gtf call GENCODE GTFs use gene_type / transcript_type where Ensembl uses gene_biotype / transcript_biotype. Before this fix, pointing pyensembl at a vanilla GENCODE GTF produced a sqlite d... Pull #356 iskandr github
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25808026971 feature/preserve-fasta-versions Preserve FASTA-header versions in SequenceData (#351) `_parse_header_id` no longer strips ENS .N version suffixes — the versioned form is preserved as the canonical FASTA identifier, with the version treated as authoritative source-of-truth for t... Pull #355 iskandr github
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25807313368 main docs: use text-fragment anchors on README API links so methods land precisely (#354) The previous pass (#353) stripped line-number anchors as a brittleness fix, but the result linked every method to the bare genome.py file, which is not actually ... push web-flow github
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25806969380 docs-readme-text-fragment-anchors docs: use text-fragment anchors on README API links so methods land precisely The previous pass (#353) stripped line-number anchors as a brittleness fix, but the result linked every method to the bare genome.py file, which is not actually useful.... Pull #354 iskandr github
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25806552947 main docs: drop README line-number anchors that drift on every source change (#353) The line-number anchors I added in #348 (e.g. genome.py#L573) were already off by 6 lines after #350 (v2.9.6) grew Genome.protein_sequence's docstring. The links still... push web-flow github
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25806193640 docs-drop-readme-line-anchors docs: drop README line-number anchors that drift on every source change The line-number anchors I added in #348 (e.g. genome.py#L573) were already off by 6 lines after #350 (v2.9.6) grew Genome.protein_sequence's docstring. The links still landed... Pull #353 iskandr github
84.97