Multi index again #326
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Multi index again #326
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…usage This commit introduces a robust mechanism for maintaining consistent sequence ID assignments during wfmash index creation and usage. Key changes include: - Added export/import methods for sequence ID mappings in SequenceIdManager - Modified addSequence to use a nextId counter for new sequences - Updated index header reading/writing to preserve sequence ID information - Ensured sequence ID consistency across different runs and filtering scenarios The implementation allows: - Preserving original sequence IDs when creating/using indexes - Adding new sequences without disrupting existing ID assignments - Handling cases with multiple input files and sequence subsets Resolves potential mapping issues when working with complex sequence sets.
This commit enhances the robustness of sequence ID management by: 1. Adding more detailed error messages for missing sequences 2. Improving ID mapping import and merging 3. Adding prefix-based sequence filtering 4. Providing better logging for sequence-related issues
…ory-efficient subset handling
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Fixes and improves index saving and loading, and also target subset (
wfmash -b) index building and loading.