junifer 0.0.4.dev831__py3-none-any.whl → 0.0.5__py3-none-any.whl

junifer-0.0.5.dist-info/RECORD

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junifer/datagrabber/tests/test_datagrabber_utils.py

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-"""Provide tests for utils."""
-
-# Authors: Federico Raimondo <f.raimondo@fz-juelich.de>
-# License: AGPL
-
-from contextlib import nullcontext
-from typing import ContextManager, Dict, List, Union
-
-import pytest
-
-from junifer.datagrabber.utils import (
-    validate_patterns,
-    validate_replacements,
-    validate_types,
-)
-
-
-@pytest.mark.parametrize(
-    "types, expect",
-    [
-        ("wrong", pytest.raises(TypeError, match="must be a list")),
-        ([1], pytest.raises(TypeError, match="must be a list of strings")),
-        (["T1w", "BOLD"], nullcontext()),
-    ],
-)
-def test_validate_types(
-    types: Union[str, List[str], List[int]],
-    expect: ContextManager,
-) -> None:
-    """Test validation of types.
-
-    Parameters
-    ----------
-    types : str, list of int or str
-        The parametrized data types to validate.
-    expect : typing.ContextManager
-        The parametrized ContextManager object.
-
-    """
-    with expect:
-        validate_types(types)  # type: ignore
-
-
-@pytest.mark.parametrize(
-    "replacements, patterns, expect",
-    [
-        (
-            "wrong",
-            "also wrong",
-            pytest.raises(TypeError, match="must be a list"),
-        ),
-        (
-            [1],
-            {
-                "T1w": {"pattern": "{subject}/anat/{subject}_T1w.nii.gz"},
-                "BOLD": {
-                    "pattern": "{subject}/func/{subject}_task-rest_bold.nii.gz"
-                },
-            },
-            pytest.raises(TypeError, match="must be a list of strings"),
-        ),
-        (
-            ["session"],
-            {
-                "T1w": {"pattern": "{subject}/anat/{subject}_T1w.nii.gz"},
-                "BOLD": {
-                    "pattern": "{subject}/func/{subject}_task-rest_bold.nii.gz"
-                },
-            },
-            pytest.raises(ValueError, match="is not part of"),
-        ),
-        (
-            ["subject", "session"],
-            {
-                "T1w": {"pattern": "{subject}/anat/_T1w.nii.gz"},
-                "BOLD": {"pattern": "{session}/func/_task-rest_bold.nii.gz"},
-            },
-            pytest.raises(ValueError, match="At least one pattern"),
-        ),
-        (
-            ["subject"],
-            {
-                "T1w": {"pattern": "{subject}/anat/{subject}_T1w.nii.gz"},
-                "BOLD": {
-                    "pattern": "{subject}/func/{subject}_task-rest_bold.nii.gz"
-                },
-            },
-            nullcontext(),
-        ),
-    ],
-)
-def test_validate_replacements(
-    replacements: Union[str, List[str], List[int]],
-    patterns: Union[str, Dict[str, Dict[str, str]]],
-    expect: ContextManager,
-) -> None:
-    """Test validation of replacements.
-
-    Parameters
-    ----------
-    replacements : str, list of str or int
-        The parametrized pattern replacements to validate.
-    patterns : str, dict
-        The parametrized patterns to validate against.
-    expect : typing.ContextManager
-        The parametrized ContextManager object.
-
-    """
-    with expect:
-        validate_replacements(replacements=replacements, patterns=patterns)  # type: ignore
-
-
-@pytest.mark.parametrize(
-    "types, patterns, expect",
-    [
-        (
-            ["T1w", "BOLD"],
-            "wrong",
-            pytest.raises(TypeError, match="must be a dict"),
-        ),
-        (
-            ["T1w", "BOLD"],
-            {
-                "T1w": {"pattern": "{subject}/anat/{subject}_T1w.nii.gz"},
-            },
-            pytest.raises(
-                ValueError,
-                match="Length of `types` more than that of `patterns`.",
-            ),
-        ),
-        (
-            ["T1w", "BOLD"],
-            {
-                "T1w": {"pattern": "{subject}/anat/{subject}_T1w.nii.gz"},
-                "T2w": {"pattern": "{subject}/anat/{subject}_T2w.nii.gz"},
-            },
-            pytest.raises(ValueError, match="contain all"),
-        ),
-        (
-            ["T3w"],
-            {
-                "T3w": {"pattern": "{subject}/anat/{subject}_T3w.nii.gz"},
-            },
-            pytest.raises(ValueError, match="Unknown data type"),
-        ),
-        (
-            ["BOLD"],
-            {
-                "BOLD": {"patterns": "{subject}/func/{subject}_BOLD.nii.gz"},
-            },
-            pytest.raises(KeyError, match="Mandatory key"),
-        ),
-        (
-            ["BOLD_confounds"],
-            {
-                "BOLD_confounds": {
-                    "pattern": "{subject}/func/{subject}_confounds.tsv",
-                    "format": "fmriprep",
-                    "space": "MNINLin6Asym",
-                },
-            },
-            pytest.raises(RuntimeError, match="not accepted"),
-        ),
-        (
-            ["T1w"],
-            {
-                "T1w": {
-                    "pattern": "{subject}/anat/{subject}*.nii",
-                    "space": "native",
-                },
-            },
-            pytest.raises(ValueError, match="following a replacement"),
-        ),
-        (
-            ["T1w", "T2w", "BOLD", "BOLD_confounds"],
-            {
-                "T1w": {
-                    "pattern": "{subject}/anat/{subject}_T1w.nii.gz",
-                    "space": "native",
-                },
-                "T2w": {
-                    "pattern": "{subject}/anat/{subject}_T2w.nii.gz",
-                    "space": "native",
-                },
-                "BOLD": {
-                    "pattern": (
-                        "{subject}/func/{subject}_task-rest_bold.nii.gz"
-                    ),
-                    "space": "MNI152NLin6Asym",
-                },
-                "BOLD_confounds": {
-                    "pattern": "{subject}/func/{subject}_confounds.tsv",
-                    "format": "fmriprep",
-                },
-            },
-            nullcontext(),
-        ),
-    ],
-)
-def test_validate_patterns(
-    types: List[str],
-    patterns: Union[str, Dict[str, Dict[str, str]]],
-    expect: ContextManager,
-) -> None:
-    """Test validation of patterns.
-
-    Parameters
-    ----------
-    types : list of str
-        The parametrized data types.
-    patterns : str, dict
-        The patterns to validate.
-    expect : typing.ContextManager
-        The parametrized ContextManager object.
-
-    """
-    with expect:
-        validate_patterns(types=types, patterns=patterns)  # type: ignore