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(v2.1.1.9133) (v2.1.1.9132) unit test, final fixes

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dr. M.S. (Matthijs) Berends
2025-01-27 22:06:32 +01:00
parent f03933940c
commit 9520977a10
14 changed files with 25 additions and 21 deletions
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2
PythonPackage/AMR/AMR.egg-info/PKG-INFO
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@ -1,6 +1,6 @@
Metadata-Version: 2.2
Name: AMR
Version: 2.1.1.9131
Version: 2.1.1.9133
Summary: A Python wrapper for the AMR R package
Home-page: https://github.com/msberends/AMR
Author: Matthijs Berends

4
PythonPackage/AMR/AMR/datasets.py
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@ -18,6 +18,8 @@ os.makedirs(r_lib_path, exist_ok=True)
base = importr('base')
utils = importr('utils')
base.options(warn = -1)
# Override R library paths globally for the session
robjects.r(f'.Library <- "{r_lib_path}"') # Replace default library
robjects.r(f'.Library.site <- "{r_lib_path}"') # Replace site-specific library
@ -73,4 +75,6 @@ microorganisms = pandas2ri.rpy2py(robjects.r('AMR::microorganisms[, !sapply(AMR:
antibiotics = pandas2ri.rpy2py(robjects.r('AMR::antibiotics[, !sapply(AMR::antibiotics, is.list)]'))
clinical_breakpoints = pandas2ri.rpy2py(robjects.r('AMR::clinical_breakpoints[, !sapply(AMR::clinical_breakpoints, is.list)]'))
base.options(warn = 0)
print(f"AMR: Done.", flush=True)

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PythonPackage/AMR/dist/AMR-2.1.1.9131-py3-none-any.whl → PythonPackage/AMR/dist/AMR-2.1.1.9133-py3-none-any.whl vendored
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PythonPackage/AMR/dist/amr-2.1.1.9131.tar.gz vendored
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PythonPackage/AMR/dist/amr-2.1.1.9133.tar.gz vendored Normal file
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2
PythonPackage/AMR/setup.py
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@ -2,7 +2,7 @@ from setuptools import setup, find_packages
setup(
name='AMR',
version='2.1.1.9131',
version='2.1.1.9133',
packages=find_packages(),
install_requires=[
'rpy2',