Remove calculate_true_values_and_predictions_for_validation_spectra, … #1336

	name: CI Build

	on:
	push:
	pull_request:
	types: [opened, reopened]

	jobs:

	thorough_check:
	name: Thorough code check / python-3.9 / ubuntu-latest
	runs-on: ubuntu-latest
	steps:
	- uses: actions/checkout@v2
	- name: Set up Python
	uses: actions/setup-python@v1
	with:
	python-version: 3.9
	- name: Python info
	run: \|
	which python
	python --version
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install -e .[dev,train]
	- name: Show pip list
	run: \|
	pip list
	- name: Run test with coverage
	run: pytest --cov --cov-report term --cov-report xml
	- name: Check style against standards using Ruff
	run: ruff check .
	- name: SonarCloud Scan
	uses: sonarsource/sonarcloud-github-action@master
	env:
	GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
	SONAR_TOKEN: ${{ secrets.SONAR_TOKEN }}

	basic_checks:
	name: Basic code checks / python-${{ matrix.python-version }} / ${{ matrix.os }}
	runs-on: ${{ matrix.os }}
	strategy:
	fail-fast: false
	matrix:
	os: ['ubuntu-latest', 'macos-latest', 'windows-latest']
	python-version: ['3.9', '3.10', '3.11']
	exclude:
	# already tested in first_check job
	- python-version: 3.9
	os: ubuntu-latest
	steps:
	- uses: actions/checkout@v4
	- name: Set up Python ${{ matrix.python-version }}
	uses: actions/setup-python@v5
	with:
	python-version: ${{ matrix.python-version }}
	- name: Python info
	run: \|
	which python
	python --version
	- name: Install dependencies
	run: \|
	python -m pip install --upgrade pip
	pip install -e .[dev,train]
	- name: Show pip list
	run: \|
	pip list
	- name: Run tests
	run: \|
	pytest

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