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(v2.1.1.9222) python bump

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dr. M.S. (Matthijs) Berends
2025-03-20 22:02:44 +01:00
parent 43660f2b18
commit d147d6602d
4 changed files with 22 additions and 22 deletions
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38
data-raw/_generate_python_wrapper.sh
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@ -44,52 +44,52 @@ description_file="../DESCRIPTION"
cat <<EOL > "$datasets_file"
import os
import sys
from rpy2 import robjects
from rpy2.robjects import pandas2ri
from rpy2.robjects.packages import importr, isinstalled
import pandas as pd
import importlib.metadata as metadata
# Get the path to the virtual environment
venv_path = sys.prefix
# Define R library path within the venv
r_lib_path = os.path.join(venv_path, "R_libs")
# Ensure the R library path exists
os.makedirs(r_lib_path, exist_ok=True)
# Set environment variable before importing rpy2
os.environ['R_LIBS_SITE'] = r_lib_path
from rpy2 import robjects
from rpy2.robjects import pandas2ri
from rpy2.robjects.packages import importr, isinstalled
# Import base and utils
base = importr('base')
utils = importr('utils')
base.options(warn = -1)
base.options(warn=-1)
# Override R library paths globally for the session
robjects.r(f'.Library.site <- "{r_lib_path}"') # Replace site-specific library
base._libPaths(r_lib_path) # Override .libPaths() as well
# Get the effective library path
r_amr_lib_path = base._libPaths()[0]
# Ensure library paths explicitly
base._libPaths(r_lib_path)
# Check if the AMR package is installed in R
if not isinstalled('AMR', lib_loc=r_amr_lib_path):
print(f"AMR: Installing latest AMR R package to {r_amr_lib_path}...", flush=True)
if not isinstalled('AMR', lib_loc=r_lib_path):
print(f"AMR: Installing latest AMR R package to {r_lib_path}...", flush=True)
utils.install_packages('AMR', repos='https://msberends.r-universe.dev', quiet=True)
# Python package version of AMR
# Retrieve Python AMR version
try:
python_amr_version = metadata.version('AMR')
except metadata.PackageNotFoundError:
python_amr_version = ''
# R package version of AMR
r_amr_version = robjects.r(f'as.character(packageVersion("AMR", lib.loc = "{r_amr_lib_path}"))')
# Retrieve R AMR version
r_amr_version = robjects.r(f'as.character(packageVersion("AMR", lib.loc = "{r_lib_path}"))')
r_amr_version = str(r_amr_version[0])
print(python_amr_version)
print(r_amr_version)
# Compare R and Python package versions
if r_amr_version != python_amr_version:
try:
print(f"AMR: Updating AMR package in {r_amr_lib_path}...", flush=True)
print(f"AMR: Updating AMR package in {r_lib_path}...", flush=True)
utils.install_packages('AMR', repos='https://msberends.r-universe.dev', quiet=True)
except Exception as e:
print(f"AMR: Could not update: {e}", flush=True)