Related Issues (20)
- Implement batching/retries for downloads as decorators
- Upgrade schema/interface for cache HOT 1
- Mock remote service calls in tests HOT 2
- CircleCI test error: Entrez calls failing
- `ncfp` not recovering all coding sequences from NCBI HOT 2
- Drop terminal stop codons HOT 3
- Add an indicator of total steps to progress bars
- Writing log file fails if only filename given HOT 1
- Tests indicate a deprecated method HOT 2
- Stockholm domain format doesn't work with non-UniProt FASTA sequences
- Incorrect protein sequences being retrieved for some accessions HOT 2
- Documentation no longer reflects CLI for `-u` option
- Error occuring when ncfp encounters sequences which have been removed from NCBI database HOT 6
- UniProt warning HOT 2
- When multiple possible CDS matches are found, sometimes the 'wrong one' is processed.
- UniProt protein ID is available but not used for resolution of ambiguous gene names
- List index out of range when processing sequences HOT 1
- Biopython DeprecationWarning for ungap() Method
- Not identifying CDS feature despite feature existing
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from ncfp.