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NEWS.md

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December 11th, 2024

Bug Fixes:

  • The HPC init script no longer fails if a conda environment is already active, GH-388.
  • Stdout/stderr from flepimop-inference-slot called by flepimop-inference-main are piped to a log file via system2 instead of pipes to support MINGW64, GH-289.

Dependencies:

  • click minimum is now 8.1.7 (latest as of Aug 17, 2023).
  • Added missing h5py dependency to gempyor requirements and specified dask dependency to include dataframe optional dependencies, GH-391.

Deprecates:

  • gempyor-simulate ... in favor of flepimop simulate ....
  • Soft deprecated the -c/--config_files option (config file(s) are now arguments not options).

New Features:

  • Basic support for multiple config files
  • A patch command that takes multiple config files and yields the merged result
  • Converted gempyor's setup.cfg to the more modern pyproject.toml, GH-391. No user facing changes.
  • Added flepimop modifiers subcommand with one action, config-plot, for plotting the effects of modifiers on a config, GH-404.

Removes/Modifies:

  • gempyor-(seir|outcomes) ... - these were already no longer supported, just pruning entry points