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Bug fixes for Mac M1 chips (arm64) and various improvements to CLI
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@langmm langmm released this 01 Mar 18:16
· 405 commits to main since this release
v1.8.5
bfbfecc
  • Fix bug where yggcompile was compiling some languages multiple times
  • Allow yggcompile to be called like yggcc
  • Add flag (--with-asan) and YAML option (with_asan) for compiltion with the address sanitizer turned on
  • Add flag (--disable-python-c-api) and YAML option (disable_python_c_api) for disabling the Python C API
  • Allow for 128 bit types to be absent
  • Generalize option for running with a debugging tool via the --with-debugger flag for yggrun or with_debugger YAML option
  • Modify verification of file descriptor cleanup in tests to allow for persistence of a socket file descriptor if the socket is closed
  • Fix bug in connection tracking of connected models that sometimes prevented integrations from exiting for connections receiving from more than one
    model
  • Update setup script, including option specifically to set up a BioCro-OSR integration environment
  • Migrate creation of coveragerc into CLI
  • Fix bug where configuration was not completed after call to install from CLI, resulting in second call to install at next import
  • Make GNU linkers explicit for simplicity of inheritance from LDLinker
  • Allow compilation flag options to be passed to OSR (requires updated version of yggdrasil-enabled OSR)
  • Always run reticulate::py_config before importing R source code to prevent segfault
  • Allow R interpreter to be specified on the command line during install CLI and use that during dev setup
  • Fix bug in Mac SDKROOT configuration where it was being overwritten and stored more than once
  • Fix bug where '=' in requirement was interpreted as separator in .ini config parser by changing to use JSON to store the extra requirements
  • Change sprintf to snprintf and fix display of bytes when there is no terminating character
  • Add CLI utility for installing packages from conda recipes
  • Handle conda bug where removing env does not remove the directory and ensure that yggdrasil always installed in a fresh environment
  • Clean up leaks in temporary variables
  • Add emacs and pre-commit to dev dependencies
  • Short cut checking for R dependencies by just checking for the interface
  • Update XML for OSR example
  • Change deprecated calls to pandas DataFrame.append to concat in TimeSyncModelDriver
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