diff --git a/CHANGELOG.md b/CHANGELOG.md index 3224fcd..1c1bf3a 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -7,7 +7,14 @@ The format is based on [Keep a Changelog](http://keepachangelog.com/) and this p ## [Unreleased] -TODO: add at least one Added, Changed, Deprecated, Removed, Fixed or Security section +### Added + +- TestWorkflowContext class to testing module for workflow context testing scenarios +- GraphParameterType: add QueryCatalog class to default list + +### Changed + +- TestExecutionContext now includes system and workflow contexts to match ExecutionContext specification ## [4.12.1] 2025-06-24 - shipped with DI v25.2.0 diff --git a/cmem_plugin_base/dataintegration/parameter/graph.py b/cmem_plugin_base/dataintegration/parameter/graph.py index 006119c..8dd6575 100644 --- a/cmem_plugin_base/dataintegration/parameter/graph.py +++ b/cmem_plugin_base/dataintegration/parameter/graph.py @@ -31,7 +31,7 @@ def __init__( :param show_di_graphs: show DI project graphs :param show_system_graphs: show system graphs such as shape and query catalogs :param classes: allowed classes of the shown graphs - - if None -> defaults to di:Dataset and void:Dataset + - if None -> defaults to di:Dataset, void:Dataset and shui:QueryCatalog :param allow_only_autocompleted_values: allow entering new graph URLs """ self.show_di_graphs = show_di_graphs @@ -44,6 +44,7 @@ def __init__( self.classes = { "https://vocab.eccenca.com/di/Dataset", "http://rdfs.org/ns/void#Dataset", + "https://vocab.eccenca.com/shui/QueryCatalog", } def autocomplete( diff --git a/cmem_plugin_base/dataintegration/typed_entities/file.py b/cmem_plugin_base/dataintegration/typed_entities/file.py index 0e77d81..3afb4ea 100644 --- a/cmem_plugin_base/dataintegration/typed_entities/file.py +++ b/cmem_plugin_base/dataintegration/typed_entities/file.py @@ -1,7 +1,11 @@ """File entities""" +import gzip +import io import zipfile from abc import abstractmethod +from collections.abc import Iterator +from contextlib import contextmanager from io import BytesIO from pathlib import Path from typing import IO @@ -15,6 +19,83 @@ ) +def _is_gzip(stream: io.BufferedReader) -> bool: + """Check if a stream contains gzip-compressed data.""" + head = stream.read(2) + stream.seek(0) + return head == b"\x1f\x8b" + + +def _prepare_stream_for_processing( + input_stream: IO[bytes], +) -> tuple[io.TextIOWrapper | IO[bytes], bool]: + """Prepare a file stream for processing. + + This utility function: + 1. Detects if the stream is gzip compressed + 2. Decompresses if needed + 3. Detects if the content is text or binary + 4. Returns appropriate stream wrapper + + Args: + input_stream: The input stream to process (should be in binary mode) + + Returns: + A tuple containing: + - The processed stream (TextIOWrapper for text, original stream for binary) + - Boolean indicating if the content is text (True) or binary (False) + + """ + buffered = io.BufferedReader(input_stream) # type: ignore[type-var] + + decompressed_stream = gzip.GzipFile(fileobj=buffered) if _is_gzip(buffered) else buffered # type: ignore[arg-type] + + sample = decompressed_stream.read(1024) + decompressed_stream.seek(0) + + try: + sample.decode("utf-8") + is_text = True + stream_for_processing = io.TextIOWrapper(decompressed_stream, encoding="utf-8") + except UnicodeDecodeError: + is_text = False + stream_for_processing = decompressed_stream # type: ignore[assignment] + + return stream_for_processing, is_text + + +class _TextToBytesWrapper: + """Helper class to wrap a text stream and provide a bytes interface.""" + + def __init__(self, text_stream: io.TextIOWrapper) -> None: + self._text_stream = text_stream + + def read(self, size: int = -1) -> bytes: + """Read and encode text as bytes.""" + text_content = self._text_stream.read(size) + return text_content.encode("utf-8") if text_content else b"" + + def readline(self, size: int = -1) -> bytes: + """Read a line and encode as bytes.""" + text_line = self._text_stream.readline(size) + return text_line.encode("utf-8") if text_line else b"" + + def __iter__(self) -> Iterator[bytes]: + """Iterate over lines as bytes.""" + for line in self._text_stream: + yield line.encode("utf-8") + + def close(self) -> None: + """Close the underlying text stream.""" + self._text_stream.close() + + def __enter__(self) -> "_TextToBytesWrapper": + return self + + def __exit__(self, *args: object) -> None: + self.close() + + class File: """A file entity that can be held in a FileEntitySchema. @@ -38,6 +119,95 @@ def read_stream(self, project_id: str) -> IO[bytes]: Caller is responsible for closing the stream. """ + def is_text(self, project_id: str) -> bool: + """Check if the file contains text data. + + Returns True if the file content can be decoded as UTF-8 text, False otherwise. + This method automatically handles gzip decompression if needed. + """ + with self.read_stream(project_id) as stream: + _, is_text = _prepare_stream_for_processing(stream) + return is_text + + def is_bytes(self, project_id: str) -> bool: + """Check if the file contains binary data. + + Returns True if the file content is binary (cannot be decoded as UTF-8), False otherwise. + This method automatically handles gzip decompression if needed. + """ + return not self.is_text(project_id) + + def read_text(self, project_id: str) -> str: + """Read the file content as text. + + Returns the file content as a string. Automatically handles gzip decompression if needed. + Raises UnicodeDecodeError if the file content is not valid UTF-8 text. + """ + with self.read_stream(project_id) as stream: + processed_stream, is_text = _prepare_stream_for_processing(stream) + if not is_text: + raise UnicodeDecodeError("utf-8", b"", 0, 0, "File content is not valid UTF-8 text") + return processed_stream.read() # type: ignore[return-value] + + def read_bytes(self, project_id: str) -> bytes: + """Read the file content as bytes. + + Returns the file content as bytes. Automatically handles gzip decompression if needed. + """ + with self.read_stream(project_id) as stream: + processed_stream, is_text = _prepare_stream_for_processing(stream) + if is_text: + content = processed_stream.read() # type: ignore[attr-defined] + return content.encode("utf-8") if isinstance(content, str) else content + return processed_stream.read() # type: ignore[return-value] + + @contextmanager + def text_stream(self, project_id: str) -> Iterator[io.TextIOWrapper]: + """Get a text stream for memory-efficient processing. + + Returns a context manager that yields a text stream for reading file content. + Automatically handles gzip decompression if needed. + Raises UnicodeDecodeError if the file content is not valid UTF-8 text. + + Example: + ```python + with file.text_stream(project_id) as stream: + for line in stream: + process_line(line) + ``` + + """ + with self.read_stream(project_id) as raw_stream: + processed_stream, is_text = _prepare_stream_for_processing(raw_stream) + if not is_text: + raise UnicodeDecodeError("utf-8", b"", 0, 0, "File content is not valid UTF-8 text") + yield processed_stream # type: ignore[misc] + + @contextmanager + def bytes_stream(self, project_id: str) -> Iterator[IO[bytes]]: + """Get a binary stream for memory-efficient processing. + + Returns a context manager that yields a binary stream for reading file content. + Automatically handles gzip decompression if needed. + + Example: + ```python + with file.bytes_stream(project_id) as stream: + while chunk := stream.read(8192): + process_chunk(chunk) + ``` + + """ + with self.read_stream(project_id) as raw_stream: + processed_stream, is_text = _prepare_stream_for_processing(raw_stream) + if is_text: + # Convert text stream back to bytes for consistent API + text_stream = processed_stream # type: ignore[assignment] + # Create a bytes stream by encoding the text stream + yield _TextToBytesWrapper(text_stream) # type: ignore[arg-type,misc] + else: + yield processed_stream # type: ignore[misc] + class LocalFile(File): """A file that's located on the local file system.""" diff --git a/cmem_plugin_base/testing.py b/cmem_plugin_base/testing.py index c82175e..2a3a592 100644 --- a/cmem_plugin_base/testing.py +++ b/cmem_plugin_base/testing.py @@ -6,12 +6,13 @@ - TestTaskContext: testing task context - TestExecutionContext: testing execution context with task and user linkage - TestSystemContext: testing system context with encryption/decryption placeholders +- TestWorkflowContext: testing workflow context with workflow ID and status These classes are intended for use in unit tests and other testing scenarios where real context objects are unavailable or unnecessary. """ -from typing import ClassVar +from typing import ClassVar, Literal from cmem.cmempy.api import get_token from cmem.cmempy.config import get_oauth_default_credentials @@ -23,6 +24,7 @@ SystemContext, TaskContext, UserContext, + WorkflowContext, ) @@ -77,10 +79,17 @@ class TestExecutionContext(ExecutionContext): __test__ = False - def __init__(self, project_id: str = "TestProject", task_id: str = "TestTask"): + def __init__( + self, + project_id: str = "TestProject", + task_id: str = "TestTask", + workflow_id: str = "TestWorkflow", + ): + self.system = TestSystemContext() self.report = ReportContext() self.task = TestTaskContext(project_id=project_id, task_id=task_id) self.user = TestUserContext() + self.workflow = TestWorkflowContext(workflow_id=workflow_id) class TestSystemContext(SystemContext): @@ -102,3 +111,25 @@ def encrypt(self, value: str) -> str: def decrypt(self, value: str) -> str: """Decrypt a value.""" return value + + +class TestWorkflowContext(WorkflowContext): + """Testing workflow context""" + + __test__ = False + + def __init__( + self, + workflow_id: str = "TestWorkflow", + status: Literal["Idle", "Waiting", "Running", "Canceling", "Finished"] = "Running", + ): + self._workflow_id = workflow_id + self._status = status + + def workflow_id(self) -> str: + """Get the workflow ID.""" + return self._workflow_id + + def status(self) -> Literal["Idle", "Waiting", "Running", "Canceling", "Finished"]: + """Get the workflow status.""" + return self._status diff --git a/poetry.lock b/poetry.lock index bb95ca6..6997aa2 100644 --- a/poetry.lock +++ b/poetry.lock @@ -14,116 +14,103 @@ files = [ [[package]] name = "certifi" -version = "2025.6.15" +version = "2025.8.3" description = "Python package for providing Mozilla's CA Bundle." optional = false python-versions = ">=3.7" groups = ["main", "dev"] files = [ - {file = "certifi-2025.6.15-py3-none-any.whl", hash = "sha256:2e0c7ce7cb5d8f8634ca55d2ba7e6ec2689a2fd6537d8dec1296a477a4910057"}, - {file = "certifi-2025.6.15.tar.gz", hash = "sha256:d747aa5a8b9bbbb1bb8c22bb13e22bd1f18e9796defa16bab421f7f7a317323b"}, + {file = "certifi-2025.8.3-py3-none-any.whl", hash = "sha256:f6c12493cfb1b06ba2ff328595af9350c65d6644968e5d3a2ffd78699af217a5"}, + {file = "certifi-2025.8.3.tar.gz", hash = "sha256:e564105f78ded564e3ae7c923924435e1daa7463faeab5bb932bc53ffae63407"}, ] [[package]] name = "charset-normalizer" -version = "3.4.2" +version = "3.4.3" description = "The Real First Universal Charset Detector. 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Generator from dataclasses import dataclass +from pathlib import Path import pytest from cmem.cmempy.workspace.projects.datasets.dataset import ( @@ -16,6 +17,8 @@ DATASET_NAME = "sample_test" RESOURCE_NAME = "sample_test.json" +FIXTURE_DIR = Path(__file__).parent / "fixture" + @pytest.fixture(name="json_dataset", scope="module") def _json_dataset() -> Generator[dict, None, None]: @@ -34,7 +37,7 @@ def _json_dataset() -> Generator[dict, None, None]: @dataclass -class JSONResourceFixtureDate: +class ResourceFixture: """fixture dataclass""" project_name: str @@ -42,9 +45,9 @@ class JSONResourceFixtureDate: @pytest.fixture(name="json_resource", scope="module") -def _json_resource() -> Generator[JSONResourceFixtureDate, None, None]: +def _json_resource() -> Generator[ResourceFixture, None, None]: """Set up json resource""" - _project_name = "resource_test_project" + _project_name = "json_test_project" _resource_name = "sample_test.json" make_new_project(_project_name) create_resource( @@ -54,6 +57,25 @@ def _json_resource() -> Generator[JSONResourceFixtureDate, None, None]: replace=True, ) - _ = JSONResourceFixtureDate(project_name=_project_name, resource_name=_resource_name) + _ = ResourceFixture(project_name=_project_name, resource_name=_resource_name) + yield _ + delete_project(_project_name) + + +@pytest.fixture(name="pdf_resource", scope="module") +def _pdf_resource() -> Generator[ResourceFixture, None, None]: + """Set up pdf resource""" + _project_name = "pdf_test_project" + _resource_name = "sample.pdf" + make_new_project(_project_name) + with Path(FIXTURE_DIR / "sample.pdf").open("rb") as pdf: + create_resource( + project_name=_project_name, + resource_name=_resource_name, + file_resource=pdf, + replace=True, + ) + + _ = ResourceFixture(project_name=_project_name, resource_name=_resource_name) yield _ delete_project(_project_name) diff --git a/tests/fixture/sample.pdf b/tests/fixture/sample.pdf new file mode 100644 index 0000000..fd46350 Binary files /dev/null and b/tests/fixture/sample.pdf differ diff --git a/tests/parameter_types/test_resource.py b/tests/parameter_types/test_resource.py index 09b5bfd..7ca92b1 100644 --- a/tests/parameter_types/test_resource.py +++ b/tests/parameter_types/test_resource.py @@ -2,12 +2,12 @@ from cmem_plugin_base.dataintegration.parameter.resource import ResourceParameterType from cmem_plugin_base.testing import TestPluginContext -from tests.conftest import JSONResourceFixtureDate +from tests.conftest import ResourceFixture from tests.utils import get_autocomplete_values, needs_cmem @needs_cmem -def test_resource_parameter_type_completion(json_resource: JSONResourceFixtureDate) -> None: +def test_resource_parameter_type_completion(json_resource: ResourceFixture) -> None: """Test resource parameter type completion""" project_name = json_resource.project_name resource_name = json_resource.resource_name diff --git a/tests/test_file_stream.py b/tests/test_file_stream.py new file mode 100644 index 0000000..c276d41 --- /dev/null +++ b/tests/test_file_stream.py @@ -0,0 +1,83 @@ +"""Tests for file stream utilities. + +This module contains tests for the File class methods, +specifically testing the is_text, is_bytes, read_text, and read_bytes methods +with various file types including text (JSON) and binary (PDF) files. +""" + +import hashlib +import tempfile + +from cmem_plugin_base.dataintegration.entity import Entity +from cmem_plugin_base.dataintegration.typed_entities.file import FileEntitySchema +from tests.conftest import ResourceFixture + + +def test_file_class_methods(json_resource: ResourceFixture, pdf_resource: ResourceFixture) -> None: + """Test the File class methods with different file types. + + This test validates: + 1. Text file (JSON) processing - ensures proper text detection and content reading + 2. Binary file (PDF) processing - ensures binary detection, checksum validation, + and proper file handling + + Args: + json_resource: Fixture providing a JSON test resource + pdf_resource: Fixture providing a PDF test resource + + """ + # Test text file methods + file_entity = Entity(uri="test.uri", values=[["sample_test.json"], ["Project"], [], []]) + file = FileEntitySchema().from_entity(file_entity) + + assert file.is_text(json_resource.project_name) + assert not file.is_bytes(json_resource.project_name) + assert file.read_text(json_resource.project_name) == "SAMPLE CONTENT" + + # Test binary file methods + file_entity = Entity(uri="test.uri", values=[["sample.pdf"], ["Project"], [], []]) + file = FileEntitySchema().from_entity(file_entity) + + assert not file.is_text(pdf_resource.project_name) + assert file.is_bytes(pdf_resource.project_name) + content = file.read_bytes(pdf_resource.project_name) + checksum = hashlib.sha256(content).hexdigest() + assert checksum == "ec19194d4aad4f0a452b60f92009c0ba3a2b909ddbb2483f65ff91f72c2ec8b3" + with tempfile.NamedTemporaryFile(suffix=".pdf", delete=True, mode="wb") as temp2: + temp2.write(content) + + +def test_file_streaming_methods( + json_resource: ResourceFixture, pdf_resource: ResourceFixture +) -> None: + """Test the File class streaming methods for memory-efficient processing. + + This test validates: + 1. Text streaming - ensures line-by-line processing of text files + 2. Binary streaming - ensures chunk-based processing of binary files + + Args: + json_resource: Fixture providing a JSON test resource + pdf_resource: Fixture providing a PDF test resource + + """ + # Test text streaming + file_entity = Entity(uri="test.uri", values=[["sample_test.json"], ["Project"], [], []]) + file = FileEntitySchema().from_entity(file_entity) + + with file.text_stream(json_resource.project_name) as stream: + content_lines = [line.strip() for line in stream] + assert "".join(content_lines) == "SAMPLE CONTENT" + + # Test binary streaming + file_entity = Entity(uri="test.uri", values=[["sample.pdf"], ["Project"], [], []]) + file = FileEntitySchema().from_entity(file_entity) + + with file.bytes_stream(pdf_resource.project_name) as stream: + chunks = [] + while chunk := stream.read(1024): + chunks.append(chunk) + + full_content = b"".join(chunks) + checksum = hashlib.sha256(full_content).hexdigest() + assert checksum == "ec19194d4aad4f0a452b60f92009c0ba3a2b909ddbb2483f65ff91f72c2ec8b3"