Minimise conda usage in installation process #102

	name: HTTomo pipelines tests

	on:
	pull_request:
	branches:
	- main
	push:
	branches:
	- main

	jobs:
	iris-gpu:
	runs-on: iris-gpu
	container:
	image: nvidia/cuda:12.6.3-devel-ubi8
	env:
	NVIDIA_VISIBLE_DEVICES: ${{ env.NVIDIA_VISIBLE_DEVICES }}

	defaults:
	run:
	shell: bash -l {0}

	steps:
	- name: Checkout repository code
	uses: actions/checkout@v4

	- name: Create conda environment
	uses: mamba-org/setup-micromamba@v1
	with:
	environment-name: httomo
	create-args: >-
	cupy==12.3.0
	h5py==mpi_openmpi*
	mpi4py
	tomopy==1.15
	post-cleanup: 'all'
	init-shell: bash

	- name: Install httomo libraries, httomo-backends and httomo
	run: \|
	micromamba activate httomo
	pip install .[dev-gpu]
	micromamba list

	- name: Generate full yaml pipelines using pipeline directives
	run: \|
	pip install "ruamel.yaml>0.18.0"
	python ./docs/source/scripts/execute_pipelines_build.py -o ./docs/source/pipelines_full/

	- name: Run HTTomo pipelines tests (small data)
	run: \|
	pytest tests/test_pipeline_small.py --small_data

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