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- iLISI is now computed per group; groups where batch is fully confounded by group are skipped and return NaN - Refactored cLISI calculation into helper.py - Added compute_ilisi_per_group and compute_clisi to helper.py - Updated CHANGELOG.md
- Switch Docker image to base_pytorch_nvidia:1.0.0 - Pin harmonypy>=0.2.0 and add torch dependency - Pass device=None to run_harmony for auto GPU detection - Remove epsilon workaround as harmonypy v0.2.0 handles numerical stability internally via clamping and L2 normalisation - Update Nextflow label to lowcpu, gpu - Update CHANGELOG.md
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Proposed changes are described in the CHANGELOG.md
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