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Copilot AI commented Dec 8, 2025

Addresses review feedback from #202 identifying a redundant validation check after FASTA sequence reconstruction.

Changes

  • Removed if not sequence_data.strip() check in check_for_sequence_data (helpers.py:1109-1110)

Context

The check is redundant because:

  • sequence_found is already validated as non-None (line 1099-1100)
  • sequence_found.seq is already validated as non-empty (line 1103-1104)
  • Therefore sequence_data = f">{sequence_found.description}\n{str(sequence_found.seq)}" cannot be empty
# Before
sequence_data = f">{sequence_found.description}\n{str(sequence_found.seq)}"

if not sequence_data.strip():
    return False, f"No sequence data found for isolate '{isolate_sample_id}'"

# After
sequence_data = f">{sequence_found.description}\n{str(sequence_found.seq)}"

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Copilot AI changed the title [WIP] Address feedback on handling FASTA files with Biopython Remove redundant sequence_data validation in check_for_sequence_data Dec 8, 2025
Copilot AI requested a review from desafinadude December 8, 2025 10:16
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2 participants