diff --git a/README.md b/README.md index 15bc03f..7747847 100644 --- a/README.md +++ b/README.md @@ -1,7 +1,7 @@ [![contraqctor](./assets/logo-letter.svg)](https://allenneuraldynamics.github.io/contraqctor/) [![contraqctor](https://tinyurl.com/zf46ufwa)](https://allenneuraldynamics.github.io/contraqctor/) -![CI](https://github.com/AllenNeuralDynamics/contraqctor/actions/workflows/ci.yml/badge.svg) +![CI](https://github.com/AllenNeuralDynamics/contraqctor/actions/workflows/contraqctor.yml/badge.svg) [![PyPI - Version](https://img.shields.io/pypi/v/contraqctor)](https://pypi.org/project/contraqctor/) [![License](https://img.shields.io/badge/license-MIT-brightgreen)](LICENSE) [![ruff](https://img.shields.io/endpoint?url=https://raw.githubusercontent.com/astral-sh/ruff/main/assets/badge/v2.json)](https://github.com/astral-sh/ruff) diff --git a/pyproject.toml b/pyproject.toml index ec4769d..806d644 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -5,9 +5,7 @@ build-backend = "uv_build" [project] name = "contraqctor" description = "A library for managing data contracts and quality control in behavioral datasets." -authors = [ - { name = "Bruno Cruz", email = "bruno.cruz@alleninstitute.org" }, -] +authors = [{ name = "Bruno Cruz", email = "bruno.cruz@alleninstitute.org" }] requires-python = ">=3.11" license = "MIT" @@ -15,7 +13,7 @@ classifiers = [ "Programming Language :: Python :: 3.11", "Operating System :: Microsoft :: Windows", ] -version = "0.4.10rc1" +version = "0.5.0rc0" readme = {file = "README.md", content-type = "text/markdown"} dependencies = [ @@ -42,13 +40,7 @@ Changelog = "https://github.com/AllenNeuralDynamics/contraqctor/releases" [dependency-groups] -dev = [ - 'codespell', - 'pytest', - 'pytest-cov', - 'ruff', - 'interrogate' -] +dev = ['codespell', 'pytest', 'pytest-cov', 'ruff', 'interrogate'] docs = [ 'mkdocs', @@ -81,10 +73,19 @@ testpaths = ["tests"] python_files = ["test_*.py"] python_classes = ["Test*"] python_functions = ["test_*"] +env = ["MPLBACKEND=Agg"] [tool.interrogate] ignore-init-method = true ignore-magic = true ignore_module = true fail-under = 100 -exclude = ["__init__.py", "tests", "docs", "build", "setup.py", "examples", "site"] +exclude = [ + "__init__.py", + "tests", + "docs", + "build", + "setup.py", + "examples", + "site", +] diff --git a/src/contraqctor/_typing.py b/src/contraqctor/_typing.py index 00b98f4..4de0fdc 100644 --- a/src/contraqctor/_typing.py +++ b/src/contraqctor/_typing.py @@ -1,8 +1,13 @@ -from typing import Any, Generic, Protocol, TypeAlias, TypeVar, Union, cast, final +from typing import TYPE_CHECKING, Any, Generic, Protocol, TypeAlias, TypeVar, Union, cast, final + +if TYPE_CHECKING: + from contraqctor.contract.base import DataStream +else: + DataStream = Any # type: ignore # Type variables -TData = TypeVar("TData", bound=Union[Any, "_UnsetData"]) -"""TypeVar: Type variable bound to Union[Any, "_UnsetData"] for data types.""" +TData = TypeVar("TData", bound=Union[Any, "_UnsetData", "ErrorOnLoad"]) +"""TypeVar: Type variable bound to Union[Any, "_UnsetData", "ErrorOnLoad"] for data types.""" TReaderParams = TypeVar("TReaderParams", contravariant=True) """TypeVar: Contravariant type variable for reader parameters.""" @@ -157,3 +162,42 @@ def is_unset(obj: Any) -> bool: True if the object is an unset sentinel value, False otherwise. """ return (obj is UnsetReader) or (obj is UnsetParams) or (obj is UnsetData) + + +@final +class ErrorOnLoad: + """A class representing data that failed to load due to an error. + + Attributes: + datastream: The data stream that failed to load. + error: The exception that occurred during data loading. + + This class is used to encapsulate information about data loading failures, + allowing for graceful handling of errors in data processing workflows. + """ + + def __init__(self, data_stream: "DataStream", exception: Exception | None = None): + self._data_stream = data_stream + self._exception = exception + + @property + def data_stream(self) -> "DataStream": + """The data stream that failed to load.""" + return self._data_stream + + @property + def exception(self) -> Exception | None: + """The exception that occurred during data loading, if any.""" + return self._exception + + def __repr__(self): + return f"" + + def raise_from_error(self): + """Raises the stored error if it exists. + + Raises: + The stored exception if it is not None. + """ + if self.exception is not None: + raise self.exception diff --git a/src/contraqctor/contract/base.py b/src/contraqctor/contract/base.py index db40f22..8020961 100644 --- a/src/contraqctor/contract/base.py +++ b/src/contraqctor/contract/base.py @@ -1,7 +1,20 @@ import abc import dataclasses import os -from typing import Any, ClassVar, Dict, Generator, Generic, List, Optional, Protocol, Self, TypeVar, runtime_checkable +from typing import ( + Any, + ClassVar, + Dict, + Generator, + Generic, + List, + Optional, + Protocol, + Self, + TypeVar, + cast, + runtime_checkable, +) from semver import Version from typing_extensions import override @@ -201,7 +214,16 @@ def has_data(self) -> bool: Returns: bool: True if data has been loaded, False otherwise. """ - return not _typing.is_unset(self._data) + return not (_typing.is_unset(self._data) or self.has_error) + + @property + def has_error(self) -> bool: + """Check if the data stream encountered an error during loading. + + Returns: + bool: True if an error occurred, False otherwise. + """ + return isinstance(self._data, _typing.ErrorOnLoad) @property def data(self) -> _typing.TData: @@ -213,9 +235,22 @@ def data(self) -> _typing.TData: Raises: ValueError: If data has not been loaded yet. """ + if self.has_error: + cast(_typing.ErrorOnLoad, self._data).raise_from_error() if not self.has_data: raise ValueError("Data has not been loaded yet.") - return self._data + return cast(_typing.TData, self._data) + + def clear(self) -> Self: + """Clear the loaded data from the data stream. + + Resets the data to an unset state, allowing for reloading. + + Returns: + Self: The data stream instance for method chaining. + """ + self._data = _typing.UnsetData + return self def load(self) -> Self: """Load data into the data stream. @@ -239,7 +274,10 @@ def load(self) -> Self: print(f"Loaded {len(df)} rows") ``` """ - self._data = self.read() + try: + self._data = self.read() + except Exception as e: # pylint: disable=broad-except + self._data = _typing.ErrorOnLoad(self, exception=e) return self def __str__(self): @@ -266,9 +304,27 @@ def __iter__(self) -> Generator["DataStream", None, None]: Yields: DataStream: Child data streams (none for base DataStream). """ - yield + return + yield # This line is unreachable but needed for the generator type + + def collect_errors(self) -> List[_typing.ErrorOnLoad]: + """Collect all errors from this stream and its children. - def load_all(self, strict: bool = False) -> list[tuple["DataStream", Exception], None, None]: + Performs a depth-first traversal to gather all ErrorOnLoad instances. + + Returns: + List[ErrorOnLoad]: List of all errors raised on load encountered in the hierarchy. + """ + errors = [] + if self.has_error: + errors.append(cast(_typing.ErrorOnLoad, self._data)) + for stream in self: + if stream is None: + continue + errors.extend(stream.collect_errors()) + return errors + + def load_all(self, strict: bool = False) -> Self: """Recursively load this data stream and all child streams. Performs depth-first traversal to load all streams in the hierarchy. @@ -293,17 +349,13 @@ def load_all(self, strict: bool = False) -> list[tuple["DataStream", Exception], ``` """ self.load() - exceptions = [] for stream in self: if stream is None: continue - try: - exceptions += stream.load_all(strict=strict) - except Exception as e: - if strict: - raise e - exceptions.append((stream, e)) - return exceptions + stream.load_all(strict=strict) + if stream.has_error and strict: + cast(_typing.ErrorOnLoad, stream.data).raise_from_error() + return self TDataStream = TypeVar("TDataStream", bound=DataStream[Any, Any]) @@ -411,7 +463,7 @@ def at(self) -> _At[TDataStream]: return self._at @override - def load(self): + def load(self) -> Self: """Load data for this collection. Overrides the base method to add validation that loaded data is a list of DataStreams. diff --git a/src/contraqctor/contract/utils.py b/src/contraqctor/contract/utils.py index 5076a24..a2e7c5e 100644 --- a/src/contraqctor/contract/utils.py +++ b/src/contraqctor/contract/utils.py @@ -1,5 +1,40 @@ from .base import DataStream +_ICON_MAP = { + False: "📄", + True: "📂", + None: "❓", +} + + +def _get_node_icon(node: DataStream, show_missing_indicator: bool) -> str: + """Determines the icon for a data stream node based on its type and data presence.""" + node_icon = _ICON_MAP[node.is_collection] + if not node.has_data and show_missing_indicator: + node_icon += _ICON_MAP[None] + return node_icon + + +def _build_line_prefix(parents: list[bool], is_last: bool) -> str: + """Builds the line prefix for a node based on its position in the tree.""" + line_prefix = "" + for parent_is_last in parents[:-1]: + line_prefix += " " if parent_is_last else "│ " + if parents: + branch = "└── " if is_last else "├── " + line_prefix += branch + return line_prefix + + +def _build_node_label(node: DataStream, show_type: bool, show_params: bool) -> str: + """Builds the label for a data stream node, optionally including type and parameters.""" + node_label = node.name + if show_type: + node_label += f" [{node.__class__.__name__}]" + if show_params and hasattr(node, "reader_params") and node.reader_params: + node_label += f" ({node.reader_params})" + return node_label + def print_data_stream_tree( node: DataStream, @@ -32,56 +67,192 @@ def print_data_stream_tree( from contraqctor.contract import Dataset, csv, json from contraqctor.contract.utils import print_data_stream_tree - # Create a dataset with streams csv_stream = csv.Csv("data", reader_params=csv.CsvParams(path="data.csv")) json_stream = json.Json("config", reader_params=json.JsonParams(path="config.json")) dataset = Dataset("experiment", [csv_stream, json_stream], version="1.0.0") - # Print the tree tree = print_data_stream_tree(dataset) print(tree) - # Output: - # 📂 experiment - # ├── 📄 data - # └── 📄 config ``` """ - icon_map = { - False: "📄", - True: "📂", - None: "❓", - } + node_icon = _get_node_icon(node, show_missing_indicator) + line_prefix = _build_line_prefix(parents, is_last) + node_label = _build_node_label(node, show_type, show_params) - node_icon = icon_map[node.is_collection] - if not node.has_data and show_missing_indicator: - node_icon += f"{icon_map[None]}" + tree_representation = f"{line_prefix}{node_icon} {node_label}\n" - line_prefix = "" - for parent_is_last in parents[:-1]: - line_prefix += " " if parent_is_last else "│ " + if node.is_collection and node.has_data: + for i, child in enumerate(node.data): + child_is_last = i == len(node.data) - 1 + tree_representation += print_data_stream_tree( + child, + prefix="", + is_last=child_is_last, + parents=parents + [is_last], + show_params=show_params, + show_type=show_type, + show_missing_indicator=show_missing_indicator, + ) - if parents: - branch = "└── " if is_last else "├── " - line_prefix += branch + return tree_representation - # Build node label with name, type, and parameters - node_label = node.name - if show_type: - node_label += f" [{node.__class__.__name__}]" +def _get_html_header() -> str: + """Returns the HTML header with CSS styles for the tree visualization.""" + return """ + + + + + Data Stream Tree + + + +
+""" - if show_params and hasattr(node, "reader_params") and node.reader_params: - params_str = str(node.reader_params) - node_label += f" ({params_str})" - tree_representation = f"{line_prefix}{node_icon} {node_label}\n" +def _get_tooltip_text(node: DataStream) -> str: + """Generates the HTML content for a node's tooltip.""" + import html as html_module + + parts = [] + typ = getattr(node, "__class__", None) + if typ: + parts.append(f"Type: {html_module.escape(typ.__name__)}") + else: + parts.append("Type: Unknown") + + description = getattr(node, "description", None) + if description: + escaped_desc = html_module.escape(str(description)) + parts.append(f"Description: {escaped_desc}") + else: + parts.append("Description: No description available") + + return "
".join(parts) + + +def print_data_stream_tree_html( + node: DataStream, + is_last: bool = True, + parents: list[bool] | None = None, + show_params: bool = False, + show_type: bool = False, + show_missing_indicator: bool = True, +) -> str: + """Generates an HTML tree representation of a data stream hierarchy with tooltips. + + Creates a formatted HTML string displaying the hierarchical structure of a data stream + and its children as a tree with branch indicators, icons, and tooltips showing descriptions. + + Args: + node: The data stream node to start printing from. + is_last: Whether this node is the last child of its parent. + parents: List tracking whether each ancestor was a last child, used for drawing branches. + show_params: Whether to render parameters of the datastream. + show_type: Whether to render the class name of the datastream. + show_missing_indicator: Whether to render the missing data indicator. + + Returns: + str: A formatted HTML string representing the data stream tree with tooltips. + + Examples: + ```python + from contraqctor.contract import Dataset, csv, json + from contraqctor.contract.utils import print_data_stream_tree_html + + csv_stream = csv.Csv("data", reader_params=csv.CsvParams(path="data.csv")) + json_stream = json.Json("config", reader_params=json.JsonParams(path="config.json")) + dataset = Dataset("experiment", [csv_stream, json_stream], version="1.0.0") + + html = print_data_stream_tree_html(dataset) + with open("tree.html", "w") as f: + f.write(html) + ``` + """ + import html as html_module + + if parents is None: + parents = [] + + html_header = _get_html_header() if not parents else "" + node_icon = _get_node_icon(node, show_missing_indicator) + line_prefix = _build_line_prefix(parents, is_last) + node_label = _build_node_label(node, show_type, show_params) + tooltip_text = _get_tooltip_text(node) + + node_label_escaped = html_module.escape(node_label) + line_prefix_escaped = html_module.escape(line_prefix) + + tooltip_span = f'{tooltip_text}' + node_content = f"{node_icon} {node_label_escaped}{tooltip_span}" + tree_representation = f'{html_header}{line_prefix_escaped}{node_content}\n' if node.is_collection and node.has_data: for i, child in enumerate(node.data): child_is_last = i == len(node.data) - 1 - tree_representation += print_data_stream_tree( + tree_representation += print_data_stream_tree_html( child, - prefix="", is_last=child_is_last, parents=parents + [is_last], show_params=show_params, @@ -89,4 +260,10 @@ def print_data_stream_tree( show_missing_indicator=show_missing_indicator, ) + if not parents: + tree_representation += """
+ + +""" + return tree_representation diff --git a/src/contraqctor/qc/camera.py b/src/contraqctor/qc/camera.py index 8da0979..22ba4d4 100644 --- a/src/contraqctor/qc/camera.py +++ b/src/contraqctor/qc/camera.py @@ -60,6 +60,7 @@ def __init__( clock_jitter_s: float = 1e-4, start_time_s: t.Optional[float] = None, stop_time_s: t.Optional[float] = None, + saturation_bounds: tuple[t.Optional[int], t.Optional[int]] = (5, 250), ): """Initialize the camera test suite. @@ -69,12 +70,14 @@ def __init__( clock_jitter_s: Maximum allowed time difference between frame timestamps, in seconds. start_time_s: Optional expected start time for validation, in seconds. stop_time_s: Optional expected stop time for validation, in seconds. + saturation_bounds: Pixel intensity bounds to check for saturation (min, max). """ self.data_stream: Camera = data_stream self.expected_fps = expected_fps self.clock_jitter_s = clock_jitter_s self.start_time_s = start_time_s self.stop_time_s = stop_time_s + self.saturation_bounds = saturation_bounds def test_metadata_shape(self): """ @@ -201,34 +204,65 @@ def test_histogram_and_create_asset(self): return self.fail_test(None, "Failed to read a frame from the video") max_d = 2 ** (frame.dtype.itemsize * 8) - if frame.shape[2] == 1: - frame = cv2.cvtColor(frame, cv2.COLOR_GRAY2RGB) - elif frame.shape[2] == 3: - frame = cv2.cvtColor(frame, cv2.COLOR_BGR2RGB) - else: - return self.fail_test(None, f"Frame has unexpected number of channels({frame.shape[2]}).") - - hist_r = cv2.calcHist([frame], [0], None, [max_d], [0, max_d]) - hist_g = cv2.calcHist([frame], [1], None, [max_d], [0, max_d]) - hist_b = cv2.calcHist([frame], [2], None, [max_d], [0, max_d]) - - hist_r /= hist_r.sum() - hist_g /= hist_g.sum() - hist_b /= hist_b.sum() - - fig, ax = plt.subplots(1, 2, figsize=(15, 5)) - - ax[0].imshow(frame) - ax[0].axis("off") - ax[0].set_title("Frame from video") - ax[1].plot(hist_r, color="red", label="Red") - ax[1].plot(hist_g, color="green", label="Green") - ax[1].plot(hist_b, color="blue", label="Blue") - ax[1].set_xlim([0, max_d]) - ax[1].set_xlabel("Pixel Value") - ax[1].set_ylabel("Normalized Frequency") - ax[1].set_title("Color Histogram") - ax[1].legend() + fig, ax = plt.subplots(2, frame.shape[2], figsize=(15, 7)) + + for channel in range(frame.shape[2]): + hist = cv2.calcHist([frame], [channel], None, [max_d], [0, max_d]) + hist /= hist.sum() + ax[0, channel].imshow(frame[:, :, channel], cmap="gray") + ax[0, channel].axis("off") + ax[1, channel].plot(hist, color="k", label=f"Channel-{channel}") + ax[1, channel].set_xlim([0, max_d]) + ax[1, channel].set_xlabel("Pixel Value") + ax[1, channel].set_ylabel("Normalized Frequency") + ax[1, channel].set_title(f"Histogram channel-{channel}") + fig.subplots_adjust(top=0.9) # Leave space for suptitle + fig.suptitle("Pixel value histogram") + fig.tight_layout() + + return self.pass_test( + None, "Histogram and asset created successfully.", context=ContextExportableObj.as_context(fig) + ) + + def test_create_pixel_saturation_visualizer(self): + """Creates a visualization highlighting saturated and underexposed pixels in the video frame.""" + data = self.data_stream.data + if not data.has_video: + return self.skip_test("No video data available. Skipping test.") + + with data.as_video_capture() as video: + video.set(cv2.CAP_PROP_POS_FRAMES, video.get(cv2.CAP_PROP_FRAME_COUNT) // 2) + ret, frame = video.read() + + if not ret: + return self.fail_test(None, "Failed to read a frame from the video") + + lower_bound, upper_bound = self.saturation_bounds + + fig, ax = plt.subplots(1, frame.shape[2], figsize=(15, 5)) + + for channel in range(frame.shape[2]): + channel_data = frame[:, :, channel] + + channel_saturated = np.zeros(frame.shape[:2], dtype=bool) + channel_underexposed = np.zeros(frame.shape[:2], dtype=bool) + + if upper_bound is not None: + channel_saturated = channel_data >= upper_bound + if lower_bound is not None: + channel_underexposed = channel_data <= lower_bound + + # Create RGB image: grayscale with saturated pixels in red and underexposed in blue + colored_frame = np.stack([channel_data, channel_data, channel_data], axis=-1) + colored_frame[channel_saturated] = [255, 0, 0] # Red for saturated + colored_frame[channel_underexposed] = [0, 0, 255] # Blue for underexposed + + ax[channel].imshow(colored_frame) + ax[channel].axis("off") + ax[channel].set_title(f"Channel-{channel}") + + fig.subplots_adjust(top=0.9) # Leave space for suptitle + fig.suptitle("Pixel Saturation Visualization (bounds: {})".format(self.saturation_bounds)) fig.tight_layout() return self.pass_test( diff --git a/src/contraqctor/qc/contract.py b/src/contraqctor/qc/contract.py index 1db5057..d7e9143 100644 --- a/src/contraqctor/qc/contract.py +++ b/src/contraqctor/qc/contract.py @@ -1,5 +1,6 @@ import typing as t +from .._typing import ErrorOnLoad from ..contract.base import DataStream from .base import Suite @@ -36,9 +37,7 @@ class ContractTestSuite(Suite): ``` """ - def __init__( - self, loading_errors: list[tuple[DataStream, Exception]], exclude: t.Optional[list[DataStream]] = None - ): + def __init__(self, loading_errors: list[ErrorOnLoad], exclude: t.Optional[list[DataStream]] = None): """Initialize the contract test suite. Args: @@ -51,9 +50,9 @@ def __init__( def test_has_errors_on_load(self): """Check if any non-excluded data streams had loading errors.""" - errors = [(ds, err) for ds, err in self.loading_errors if ds not in self.exclude] + errors = [err for err in self.loading_errors if err.data_stream not in self.exclude] if errors: - str_errors = "\n".join([f"{ds.resolved_name}" for ds, _ in errors]) + str_errors = "\n".join([f"{err.data_stream.resolved_name}" for err in errors]) return self.fail_test( None, f"The following DataStreams raised errors on load: \n {str_errors}", @@ -64,7 +63,7 @@ def test_has_errors_on_load(self): def test_has_excluded_as_warnings(self): """Check if any excluded data streams had loading errors and report as warnings.""" - warnings = [(ds, err) for ds, err in self.loading_errors if ds in self.exclude] + warnings = [err for err in self.loading_errors if err.data_stream in self.exclude] if warnings: return self.warn_test( None, diff --git a/tests/__init__.py b/tests/__init__.py deleted file mode 100644 index e69de29..0000000 diff --git a/tests/test_contract/conftest.py b/tests/conftest.py similarity index 98% rename from tests/test_contract/conftest.py rename to tests/conftest.py index 7952de2..96d64f8 100644 --- a/tests/test_contract/conftest.py +++ b/tests/conftest.py @@ -1,4 +1,5 @@ import json +import os import tempfile import typing as t from pathlib import Path @@ -7,6 +8,7 @@ import pytest from pydantic import BaseModel +os.environ["MPLBACKEND"] = "Agg" from contraqctor.contract.base import ( DataStream, FilePathBaseParam, diff --git a/tests/test_contract/test_core.py b/tests/test_contract/test_core.py index 4a93730..a43f9c4 100644 --- a/tests/test_contract/test_core.py +++ b/tests/test_contract/test_core.py @@ -1,10 +1,9 @@ import pytest +from conftest import SimpleDataStream, SimpleParams from contraqctor import _typing from contraqctor.contract.base import DataStreamCollection -from .conftest import SimpleDataStream, SimpleParams - class TestDataStream: """Tests for the DataStream class.""" @@ -76,6 +75,19 @@ def test_invalid_name(self, text_file): name="test::invalid", description="Test stream", reader_params=SimpleParams(path=text_file) ) + def test_clear_data(self, text_file): + """Test clearing loaded data.""" + stream = SimpleDataStream(name="test", reader_params=SimpleParams(path=text_file)) + + stream.load() + assert stream.has_data + + stream.clear() + assert not stream.has_data + + with pytest.raises(ValueError): + _ = stream.data # Accessing data after clearing should raise ValueError + class TestDataStreamCollection: """Tests for the DataStreamCollection anonymous class.""" @@ -225,7 +237,7 @@ def test_load_all_success(self, text_file): collection = DataStreamCollection(name="collection", data_streams=[stream1, stream2]) result = collection.load_all() - assert result == [] # No exceptions + assert result.collect_errors() == [] assert stream1.has_data assert stream2.has_data @@ -239,14 +251,17 @@ def test_load_all_with_exception(self, text_file, temp_dir): collection = DataStreamCollection(name="collection", data_streams=[stream1, stream2]) result = collection.load_all() - - assert len(result) == 1 - assert result[0][0] == stream2 - assert isinstance(result[0][1], FileNotFoundError) + errors = result.collect_errors() + assert len(errors) == 1 + assert errors[0].data_stream == stream2 + assert isinstance(errors[0].exception, FileNotFoundError) assert stream1.has_data assert not stream2.has_data + with pytest.raises(FileNotFoundError): + raise errors[0].exception + def test_load_all_strict(self, text_file, temp_dir): """Test load_all with strict=True.""" stream1 = SimpleDataStream(name="stream1", reader_params=SimpleParams(path=text_file)) diff --git a/tests/test_contract/test_json.py b/tests/test_contract/test_json.py index 0cf23f4..83c8446 100644 --- a/tests/test_contract/test_json.py +++ b/tests/test_contract/test_json.py @@ -1,6 +1,7 @@ import json import pandas as pd +from conftest import MockModel from contraqctor.contract.json import ( Json, @@ -12,8 +13,6 @@ PydanticModelParams, ) -from .conftest import MockModel - class TestJson: """Tests for the Json class.""" diff --git a/tests/test_qc/test_contract.py b/tests/test_qc/test_qc_contract.py similarity index 70% rename from tests/test_qc/test_contract.py rename to tests/test_qc/test_qc_contract.py index 8ec8339..1a7bd80 100644 --- a/tests/test_qc/test_contract.py +++ b/tests/test_qc/test_qc_contract.py @@ -1,38 +1,37 @@ import pytest +from conftest import SimpleDataStream, SimpleParams -from contraqctor.contract.base import DataStream +from contraqctor._typing import ErrorOnLoad +from contraqctor.contract.base import DataStreamCollection from contraqctor.qc.base import Status from contraqctor.qc.contract import ContractTestSuite -class MockDataStream(DataStream): - """Mock DataStream class for testing.""" +def raise_value_error(*args, **kwargs): + raise ValueError("Simulated load error") - def __init__(self, name="test"): - super().__init__(name=name) - self._resolved_name = name - @property - def resolved_name(self): - return self._resolved_name +def raise_io_error(*args, **kwargs): + raise IOError("Simulated load error") @pytest.fixture -def loading_errors(): - ds1 = MockDataStream(name="stream1") - ds2 = MockDataStream(name="stream2") - ds3 = MockDataStream(name="stream3") +def loading_errors(text_file) -> list[ErrorOnLoad]: + stream1 = SimpleDataStream(name="stream1", reader_params=SimpleParams(path=text_file)) + stream1._reader = raise_value_error - err1 = ValueError("Error loading stream1") - err2 = FileNotFoundError("File not found for stream2") - err3 = RuntimeError("Error in stream3") + stream2 = SimpleDataStream(name="stream2", reader_params=SimpleParams(path=text_file)) + stream2._reader = raise_io_error - return [(ds1, err1), (ds2, err2), (ds3, err3)] + collection = DataStreamCollection(name="collection", data_streams=[stream1, stream2]) + + collection.load_all() + return collection.collect_errors() @pytest.fixture def excluded_streams(loading_errors): - return [loading_errors[0][0]] + return [loading_errors[0].data_stream] class TestContractTestSuite: @@ -54,7 +53,9 @@ def test_has_errors_on_load_with_errors(self, loading_errors): result = suite.test_has_errors_on_load() assert result.status == Status.FAILED + assert result.message is not None assert "raised errors on load" in result.message + assert result.context is not None assert "errors" in result.context assert len(result.context["errors"]) == len(loading_errors) @@ -64,6 +65,7 @@ def test_has_errors_on_load_no_errors(self): result = suite.test_has_errors_on_load() assert result.status == Status.PASSED + assert result.message is not None assert "All DataStreams loaded successfully" in result.message def test_has_errors_on_load_with_excludes(self, loading_errors, excluded_streams): @@ -72,11 +74,12 @@ def test_has_errors_on_load_with_excludes(self, loading_errors, excluded_streams result = suite.test_has_errors_on_load() assert result.status == Status.FAILED + assert result.context is not None assert "errors" in result.context assert len(result.context["errors"]) == len(loading_errors) - len(excluded_streams) excluded_names = [ds.resolved_name for ds in excluded_streams] - for ds, _ in result.context["errors"]: - assert ds.resolved_name not in excluded_names + for err in result.context["errors"]: + assert err.data_stream.resolved_name not in excluded_names def test_has_excluded_as_warnings_with_excludes(self, loading_errors, excluded_streams): """Test test_has_excluded_as_warnings method with excluded streams.""" @@ -84,10 +87,11 @@ def test_has_excluded_as_warnings_with_excludes(self, loading_errors, excluded_s result = suite.test_has_excluded_as_warnings() assert result.status == Status.WARNING + assert result.context is not None assert "warnings" in result.context assert len(result.context["warnings"]) == len(excluded_streams) - for ds, _ in 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