activate bloom #119

	name: BLOOM CENTOS

	on:
	push:
	branches:
	- 'main'
	tags:
	- '*'
	pull_request:
	branches:
	- '**'

	jobs:
	centos-stream-job:
	runs-on: ubuntu-latest # Host OS for the Docker container

	container:
	image: quay.io/centos/centos:stream9 # Using CentOS Stream 9

	steps:
	- name: Check out repository
	uses: actions/checkout@v4

	- name: Set up Python
	run: \|
	dnf install -y python3
	python3 -m ensurepip
	python3 -m pip install --upgrade pip

	- name: Set up Miniconda
	run: \|
	dnf install -y wget sudo
	useradd -m bloom
	ls -lta .
	cat bloom_lims/env/install_postgres.sh

	chmod -R a+wrx ./*
	chown -R bloom:bloom ./*
	cp -r ./* /home/bloom/
	chown -R bloom:bloom /home/bloom/*
	ogpwd=$PWD

	echo $PWD
	echo GOGOGOGO

	echo 'bloom ALL=(ALL) NOPASSWD:ALL' >> /etc/sudoers

	# Create the setup script
	cat <<'EOF' >setup_bloom.sh
	#!/bin/bash
	cd /home/bloom
	wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh
	bash miniconda.sh -b -p /home/bloom/miniconda
	export PATH="/home/bloom/miniconda/bin:$PATH"
	conda init
	pwd
	export USER=bloom
	source /home/bloom/.bashrc
	conda env list
	cd $ogpwd
	ls -lta .
	sleep 5
	echo $PWD
	ls -lta ./
	sleep 10
	source bloom_lims/env/install_postgres.sh
	pytest
	EOF

	# Make the script executable
	chmod +x setup_bloom.sh

	# Execute the script as the 'bloom' user
	sudo -u bloom ./setup_bloom.sh

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