[TEST] #60: FASTA/FASTQ parsing#93
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Add comprehensive acceptance tests for FASTA/FASTQ parser covering:
- Valid FASTA files (single/multiple sequences, wrapped lines)
- Valid FASTQ files (4-line format with quality scores)
- Auto-detection via magic bytes ('>' for FASTA, '@' for FASTQ)
- Gzip compression support (transparent decompression)
- Iterator-based streaming for memory efficiency
- Quality score validation (length must match sequence length)
- Empty file handling (returns empty iterator)
- Malformed file detection (missing quality, wrong line count, invalid characters)
- Edge cases (long sequences, special characters, IUPAC codes, case insensitivity)
- Real-world formats (NCBI FASTA headers, Illumina FASTQ headers)
All tests currently fail (RED phase) as implementation does not exist yet.
Test stats: 13 passed (error-expecting tests), 30 failed (feature tests)
Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
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Closing stale PR. Work has been superseded or merged via alternative approach. |
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