Merge pull request #73 from UCD-BDLab/docs-update-for-release-1.1.0 #128

	name: BioNeuralNet CI

	on:
	push:
	branches: [main]
	pull_request:
	branches: [main]

	jobs:
	build:
	strategy:
	matrix:
	os: [ubuntu-latest, macos-latest, windows-latest]
	python-version: ["3.10", "3.11", "3.12"]

	runs-on: ${{ matrix.os }}

	steps:
	- name: Checkout repository
	uses: actions/checkout@v3

	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v4
	with:
	python-version: ${{ matrix.python-version }}
	check-latest: true

	- name: Cache pip dependencies
	uses: actions/cache@v3
	with:
	path: ~/.cache/pip
	key: ${{ runner.os }}-pip-${{ hashFiles('/requirements.txt', '/requirements-dev.txt') }}
	restore-keys: ${{ runner.os }}-pip-

	- name: Install Python dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install -r requirements.txt
	pip install -r requirements-dev.txt
	pip install torch
	pip install torch_geometric
	shell: bash

	- name: Run pytest
	run: pytest tests/

	# - name: Install R
	# uses: r-lib/actions/setup-r@v2
	# with:
	# r-version: "latest"

	# - name: Install R packages
	# run: \|
	# Rscript -e "if (!requireNamespace('BiocManager', quietly = TRUE)) install.packages('BiocManager', repos='https://cran.r-project.org')"
	# Rscript -e "install.packages(c('dplyr', 'jsonlite'), repos='https://cran.r-project.org')"
	# Rscript -e "BiocManager::install(c('impute', 'preprocessCore', 'GO.db', 'AnnotationDbi'), update=FALSE, ask=FALSE)"
	# Rscript -e "install.packages('SmCCNet', repos='https://cran.r-project.org')"
	# Rscript -e "install.packages('WGCNA', repos='https://cran.r-project.org')"
	# shell: bash

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