Quantile Threshold Calculation + Filtering #252
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- Added `PairedThresholdFilter` class to filter text JSONL based on scores from paired JSONL files. - Introduced `ThresholdFilterPipelineBuilder` to facilitate the construction of filtering pipelines with support for local and Slurm execution. - Created tests for `PairedThresholdFilter` to ensure correct filtering behavior, handling of mismatches, and error conditions. - Developed `NumWordsFilter` for additional filtering based on word count, with corresponding tests. - Implemented `ScoresParser` for parsing scores JSONL files with threshold filtering capabilities, including tests for various scenarios. - Updated documentation and added example configurations for the new filtering pipeline.
- Updated configuration to support multiple input directories for text, scores, and optional domains. - Added parameters for handling paired alignment errors and word-count filtering. - Introduced a local dummy configuration for testing with paired data. - Deprecated the old domain filtering class in favor of a unified approach. - Modified the JSONL writer to include score and domain metadata in the output. - Adjusted tests to reflect changes in the pipeline structure and expected outputs.
…hold filter pipeline
… filter pipeline configuration
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