Feature/huggingface migration

[avantikalal]

Summary

Addresses #180

This PR migrates the gReLU model zoo from Weights & Biases to HuggingFace as the default backend. This is a breaking change for v1.1.0.

Key Changes

• New HuggingFace API in grelu.resources:

  • list_models() / list_datasets() - browse the model zoo
  • load_model(repo_id, filename) - load models from HuggingFace
  • download_model() / download_dataset() - download files
  • get_model_info() / get_dataset_info() - get metadata including file lists
  • get_datasets_by_model() / get_models_by_dataset() / get_base_models() - lineage queries

• Legacy wandb support preserved at grelu.resources.wandb

• deprecation errors guide users from old API to new:

  # Old API raises DeprecationError with migration instructions
  grelu.resources.load_model(project="X", model_name="Y")
  # DeprecationError: grelu.resources.load_model() API has changed.
  #   - New (HuggingFace): load_model(repo_id='Genentech/X-model', filename='model.ckpt')
  #   - Legacy (wandb): use grelu.resources.wandb.load_model(...)

• Updated pretrained models (BorzoiPretrainedModel, EnformerPretrainedModel) to download from HuggingFace

• Modified some tests to use a mock genome file instead of downloading hg38 (which takes a long time and requires a network).

Migration Guide

  # Before (v1.0)
  import grelu.resources
  model = grelu.resources.load_model(project="human-atac-catlas", model_name="model")

  # After (v1.1.0)
  import grelu.resources
  model = grelu.resources.load_model(repo_id="Genentech/human-atac-catlas-model", filename="model.ckpt")

  # Or use get_model_info() to see available files first
  grelu.resources.get_model_info("Genentech/borzoi-model")["files"]
  # ['human_rep0.ckpt', 'human_rep1.ckpt', ...]

Test Plan

• All new HuggingFace resource tests pass
• Deprecation error tests verify messages guiding users to the new API
• All 8 tutorials run successfully with new API
• wandb tests marked with @pytest.mark.wandb (skipped by default)

Links

• https://huggingface.co/collections/Genentech/grelu-model-zoo