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v1.2.10

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@jab57 jab57 released this 15 Sep 14:43
· 30 commits to main since this release

Patch release — bug fixes only, no API changes.

Fixed

  • The regnetagents-server console script was broken: [project.scripts]
    pointed directly at the async main() coroutine, so the generated wrapper
    called it synchronously and printed a RuntimeWarning without starting
    the server. Added a sync entry-point wrapper.
  • verify_installation.py's Git LFS check inspected the GREmLN
    network_index.pkl files, which are not Git-LFS-tracked (only
    .csv/.h5/.pt/.h5ad are). A missing git lfs pull could leave the
    actual LFS-tracked TCGA network.csv files as broken pointer stubs while
    the script still reported all required checks passing. The check now
    inspects a real TCGA network.csv and is promoted from optional to
    required.

Data licensing note (added 2026-10-03). This release's source archive includes TCGA tumor-state network files (models/networks/tcga/) derived from the Bioconductor package aracne.networks (F. M. Giorgi), which is distributed under a Columbia University software evaluation license (non-commercial academic research use only): https://bioconductor.org/packages/release/data/experiment/licenses/aracne.networks/LICENSE. These files are not covered by the MIT license, which applies to the RegNetAgents source code. v1.2.11 (https://doi.org/10.5281/zenodo.23128584) and later do not include these files; install them from Bioconductor with scripts/setup_tcga_networks.py.