Add 1aln format support
#116
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…query and target sequences
…sages for missing query and target metadata
…IGAR strings or tracepoints
…s, including validation for sequence data requirements and improved error messaging.
… name parameter, simplifying handling of output names.
…sequence index requirements for OneAln files.
…oved code organization and readability
…d efficiency and clarity
… enhancing logging in various functions
…nment calculations accordingly
…clarity and organization
…ved GDB file resolution
…eviction strategy
…o avoid 'too many files open'
… alignment processing
…ing alignment processing and reducing memory usage
…revent unbounded growth
…enhance readability
…s substitution inputs
… and improve parser initialization
…roved concurrency and eliminate global locking
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