Batch Ensembl CDS, stabilize BioMart downloads, and improve PAE handling#80

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St3451 wants to merge 60 commits intomasterfrom

dev/fix_build_datasets

Commits on Feb 16, 2026

fix: enhance download_biomart_metadata function with retry logic and fallback URL
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feat: improve get_ref_dna_from_ensembl_mp function with error handling and optimized processing
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refactor: streamline get_ref_dna_from_ensembl function by removing unnecessary wrapper
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logs: enhance get_ref_dna_from_ensembl function with improved error handling and logging
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docs: update organism specification in README to include full scientific names
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refactor: simplify multiprocessing in get_ref_dna_from_ensembl_mp function
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fix: enhance download_biomart_metadata function with improved error handling and fallback mechanism
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logs: improve error handling and logging in download_biomart_metadata function
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fix: improve error handling by removing partial BioMart metadata files before fallback
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Commits on Feb 17, 2026

Commits on Feb 18, 2026

Commits on Feb 19, 2026

Commits on Feb 20, 2026