diff --git a/config/pyinfra.toml b/config/pyinfra.toml new file mode 100644 index 0000000..9be3429 --- /dev/null +++ b/config/pyinfra.toml @@ -0,0 +1,44 @@ +[metrics.prometheus] +enabled = true +prefix = "redactmanager_cv_analysis_service" + +[tracing.opentelemetry] +enabled = true +endpoint = "http://otel-collector-opentelemetry-collector.otel-collector:4318/v1/traces" +service_name = "redactmanager_cv_analyisis_service" +exporter = "otlp" + +[webserver] +host = "0.0.0.0" +port = 8080 + +[rabbitmq] +host = "localhost" +port = 5672 +username = "" +password = "" +heartbeat = 60 +# Has to be a divider of heartbeat, and shouldn't be too big, since only in these intervals queue interactions happen (like receiving new messages) +# This is also the minimum time the service needs to process a message +connection_sleep = 5 +input_queue = "request_queue" +output_queue = "response_queue" +dead_letter_queue = "dead_letter_queue" + +[storage] +backend = "s3" + +[storage.s3] +bucket = "redaction" +endpoint = "http://127.0.0.1:9000" +key = "" +secret = "" +region = "eu-central-1" + +[storage.azure] +container = "redaction" +connection_string = "" + +[storage.tenant_server] +public_key = "" +endpoint = "http://tenant-user-management:8081/internal-api/tenants" \ No newline at end of file diff --git a/config/settings.toml b/config/settings.toml new file mode 100644 index 0000000..7f2637d --- /dev/null +++ b/config/settings.toml @@ -0,0 +1,19 @@ +[logging] +level = "INFO" +visual_logging_level = "DISABLED" +visual_logging_output_folder = "/tmp/debug" + +[table_parsing] +skip_pages_without_images = true + +[paths] +root = "@format {env[ROOT_PATH]}" +dvc_data_dir = "${paths.root}/data" +pdf_for_testing = "${paths.dvc_data_dir}/pdfs_for_testing" +png_for_testing = "${paths.dvc_data_dir}/pngs_for_testing" +png_figures_detected = "${paths.png_for_testing}/figures_detected" +png_tables_detected = "${paths.png_for_testing}/tables_detected_by_tp" +hashed_pdfs_for_testing = "${paths.pdf_for_testing}/hashed" +metadata_test_files = "${paths.dvc_data_dir}/metadata_testing_files.csv" +test_dir = "${paths.dvc_data_dir}/test" +test_data_dir = "${paths.dvc_data_dir}/test/test_data" diff --git a/cv_analysis/config.py b/cv_analysis/config.py index 7dea359..48505f7 100644 --- a/cv_analysis/config.py +++ b/cv_analysis/config.py @@ -1,31 +1,9 @@ -import os +from pathlib import Path + +from pyinfra.config.loader import load_settings def get_config(): - return Config() - - -class Config: - def __init__(self): - self.logging_level_root = os.environ.get("LOGGING_LEVEL_ROOT", "INFO") - self.table_parsing_skip_pages_without_images = os.environ.get("TABLE_PARSING_SKIP_PAGES_WITHOUT_IMAGES", True) - - # visual_logging_level: NOTHING > INFO > DEBUG > ALL - self.visual_logging_level = "DISABLED" - self.visual_logging_output_folder = "/tmp/debug" - - # locations - # FIXME: is everything here necessary? - root = os.path.dirname(os.path.dirname(os.path.abspath(__file__))) - self.dvc_data_dir = os.path.join(root, "data") - self.pdf_for_testing = os.path.join(self.dvc_data_dir, "pdfs_for_testing") - self.png_for_testing = os.path.join(self.dvc_data_dir, "pngs_for_testing") - self.png_figures_detected = os.path.join(self.png_for_testing, "figures_detected") - self.png_tables_detected = os.path.join(self.png_for_testing, "tables_detected_by_tp") - self.hashed_pdfs_for_testing = os.path.join(self.pdf_for_testing, "hashed") - self.metadata_test_files = os.path.join(self.dvc_data_dir, "metadata_testing_files.csv") - self.test_dir = os.path.join(root, "test") - self.test_data_dir = os.path.join(self.test_dir, "test_data") - - def __getitem__(self, key): - return self.__getattribute__(key) + local_root_path = Path(__file__).parents[1] + settings = load_settings(root_path=local_root_path, settings_path="config") + return settings diff --git a/cv_analysis/server/pipeline.py b/cv_analysis/server/pipeline.py index 01aa05e..5d36b33 100644 --- a/cv_analysis/server/pipeline.py +++ b/cv_analysis/server/pipeline.py @@ -1,3 +1,4 @@ +import sys from dataclasses import asdict from operator import truth @@ -11,7 +12,7 @@ from pdf2img.default_objects.image import ImagePlus, ImageInfo from pdf2img.default_objects.rectangle import RectanglePlus -def get_analysis_pipeline(operation, table_parsing_skip_pages_without_images): +def get_analysis_pipeline(operation, table_parsing_skip_pages_without_images=True): if operation == "table": return make_analysis_pipeline( parse_tables, diff --git a/cv_analysis/utils/visual_logging.py b/cv_analysis/utils/visual_logging.py index f6e2fa1..ff6a70c 100644 --- a/cv_analysis/utils/visual_logging.py +++ b/cv_analysis/utils/visual_logging.py @@ -1,9 +1,10 @@ import os +from pyinfra.config.loader import load_settings from cv_analysis.config import get_config from cv_analysis.utils.display import save_image -CV_CONFIG = get_config() +settings = get_config() class VisualLogger: @@ -39,4 +40,4 @@ class VisualLogger: return self.level == "ALL" -vizlogger = VisualLogger(CV_CONFIG.visual_logging_level, CV_CONFIG.visual_logging_output_folder) +vizlogger = VisualLogger(settings.logging.visual_logging_level, settings.logging.visual_logging_output_folder) diff --git a/poetry.lock b/poetry.lock index b9ed0f6..59a8df8 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,13 +2,13 @@ [[package]] name = "adlfs" -version = "2023.10.0" +version = "2024.2.0" description = "Access Azure Datalake Gen1 with fsspec and dask" optional = false python-versions = ">=3.8" files = [ - {file = "adlfs-2023.10.0-py3-none-any.whl", hash = "sha256:dfdc8cc782bd78262435fb1bc2a8cfdbdd80342bb1b1ae9dfff968de912b0b09"}, - {file = "adlfs-2023.10.0.tar.gz", hash = "sha256:f5cf06c5b0074d17d43838d4c434791a98420d9e768b36a1a02c7b3930686543"}, + {file = "adlfs-2024.2.0-py3-none-any.whl", hash = "sha256:6514fb147032eea843e4b773c557df90cf6a929185edc7c97f7a12b91bfc1fa1"}, + {file = "adlfs-2024.2.0.tar.gz", hash = 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-[package.dependencies] -requests = "*" - [[package]] name = "yarl" version = "1.9.4" @@ -4273,7 +4931,22 @@ setuptools = "*" [package.extras] test = ["zope.testing"] +[[package]] +name = "zipp" +version = "3.17.0" +description = "Backport of pathlib-compatible object wrapper for zip files" +optional = false +python-versions = ">=3.8" +files = [ + {file = "zipp-3.17.0-py3-none-any.whl", hash = "sha256:0e923e726174922dce09c53c59ad483ff7bbb8e572e00c7f7c46b88556409f31"}, + {file = "zipp-3.17.0.tar.gz", hash = "sha256:84e64a1c28cf7e91ed2078bb8cc8c259cb19b76942096c8d7b84947690cabaf0"}, +] + +[package.extras] +docs = ["furo", "jaraco.packaging (>=9.3)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (<7.2.5)", "sphinx (>=3.5)", "sphinx-lint"] +testing = ["big-O", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=2.2)", "pytest-ignore-flaky", "pytest-mypy (>=0.9.1)", "pytest-ruff"] + [metadata] lock-version = "2.0" python-versions = ">=3.10,<3.11" -content-hash = "e64a0ccc1a6f739cf7052f93bd36c3f0986bb49ec8e6748f3a9efccc8934c663" +content-hash = "b670ee4883e8c2ce3c518113f50745732c442a859b824c9acdcfed13f439559d" diff --git a/pyproject.toml b/pyproject.toml index 210fbc8..1fca6d1 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,6 +1,6 @@ [tool.poetry] name = "cv-analysis-service" -version = "1.23.0" +version = "2.0.0" description = "" authors = [] readme = "README.md" @@ -25,7 +25,7 @@ coverage = "^5.5" dependency-check = "^0.6.0" lorem-text = "^2.1" PyMuPDF = "^1.19.6" -pyinfra = { version = "1.10.0", source = "gitlab-research" } +pyinfra = { version = "^2.0.0", source = "gitlab-research" } kn-utils = { version = "0.2.7", source = "gitlab-research" } pdf2img = { version = "0.7.0", source = "gitlab-red" } dvc-azure = "^2.21.2" @@ -34,6 +34,10 @@ dvc-azure = "^2.21.2" pytest = "^7.0.1" pylint = "^2.17.4" + +[tool.poetry.group.dev.dependencies] +ipython = "^8.21.0" + [tool.pytest.ini_options] testpaths = ["test"] addopts = "--ignore=data" diff --git a/scripts/export_example_pages.py b/scripts/export_example_pages.py index e0a9472..0b880b6 100644 --- a/scripts/export_example_pages.py +++ b/scripts/export_example_pages.py @@ -9,7 +9,7 @@ from pdf2image import convert_from_path from cv_analysis.config import get_config -CV_CONFIG = get_config() +settings = get_config() def read_json(path): @@ -26,7 +26,7 @@ def collect_metadata(example_pages, save=False): metadata = list(chain.from_iterable(metadata)) if save: df = pd.DataFrame(data=metadata, columns=["image_name", "pdf_name", "page"]) - df.to_csv(path.join(CV_CONFIG.dvc_data_dir, "metadata_testing_files.csv")) + df.to_csv(path.join(settings.paths.dvc_data_dir, "metadata_testing_files.csv")) else: return pd.DataFrame(data=metadata, columns=["image_name", "pdf_name", "page"]) @@ -50,7 +50,7 @@ def make_metadata_entry_maker(): def split_pdf(example_pages): - dir_path = CV_CONFIG.pdf_for_testing + dir_path = settings.paths.pdf_for_testing i = 0 for name, document_sections in example_pages.items(): for pages in document_sections: @@ -58,7 +58,7 @@ def split_pdf(example_pages): pdf_path=path.join(dir_path, name), dpi=300, first_page=pages[0], last_page=pages[1] ) for image in images: - fp = path.join(CV_CONFIG.png_for_testing, f"fig_table{i:0>3}.png") + fp = path.join(settings.paths.png_for_testing, f"fig_table{i:0>3}.png") image.save(fp=fp, dpi=(300, 300)) i += 1 @@ -78,7 +78,7 @@ def find_hash(file_path): def rename_files_with_hash(example_pages): files_to_rename = list(example_pages.keys()) - folder = CV_CONFIG.hashed_pdfs_for_testing + folder = settings.paths.hashed_pdfs_for_testing # Iterate through the folder for file in os.listdir(folder): @@ -103,7 +103,7 @@ def rename_files_with_hash(example_pages): def main(): - examples_pages = read_json(path.join(CV_CONFIG.test_data_dir, "example_pages.json")) + examples_pages = read_json(path.join(settings.paths.test_data_dir, "example_pages.json")) rename_files_with_hash(examples_pages) # collect_metadata(examples_pages, save=True) # split_pdf(examples_pages) diff --git a/src/serve.py b/src/serve.py index 33cc251..097f54b 100644 --- a/src/serve.py +++ b/src/serve.py @@ -1,25 +1,26 @@ -import logging +from sys import stdout -from pyinfra.payload_processing.processor import make_payload_processor +import IPython +from kn_utils.logging import logger +from pyinfra.examples import start_standard_queue_consumer +from pyinfra.queue.callback import make_download_process_upload_callback from cv_analysis.config import get_config from cv_analysis.server.pipeline import get_analysis_pipeline -from pyinfra import config as pyinfra_config -from pyinfra.queue.queue_manager import QueueManager - from cv_analysis.utils.banner import make_art -PYINFRA_CONFIG = pyinfra_config.get_config() -CV_CONFIG = get_config() +settings = get_config() -logger = logging.getLogger() -logger.setLevel(PYINFRA_CONFIG.logging_level_root) + +logger.remove() +logger.add(sink=stdout, level=settings.logging.level) def make_dispatched_data_analysis(config): - skip_pages_without_images = config.table_parsing_skip_pages_without_images + skip_pages_without_images = config.table_parsing.skip_pages_without_images - def inner(data: bytes, operation) -> list: + def inner(data: bytes, message: dict) -> list: + operation = message["operation"] analyse = get_analysis_pipeline(operation, skip_pages_without_images) return list(analyse(data)) @@ -29,11 +30,9 @@ def make_dispatched_data_analysis(config): def main(): logger.info(make_art()) - process_data = make_dispatched_data_analysis(config=CV_CONFIG) - process_payload = make_payload_processor(process_data, config=PYINFRA_CONFIG) - - queue_manager = QueueManager(PYINFRA_CONFIG) - queue_manager.start_consuming(process_payload) + process = make_dispatched_data_analysis(settings) + callback = make_download_process_upload_callback(process, settings) + start_standard_queue_consumer(callback, settings) if __name__ == "__main__": diff --git a/test/fixtures/table_parsing.py b/test/fixtures/table_parsing.py index 7c833d7..20ca08c 100644 --- a/test/fixtures/table_parsing.py +++ b/test/fixtures/table_parsing.py @@ -5,7 +5,7 @@ import cv2 import pytest from dvc.repo import Repo from funcy import first -from loguru import logger +from kn_utils.logging import logger from cv_analysis.config import get_config from cv_analysis.locations import REPO_ROOT_PATH, TEST_DATA_DVC @@ -13,12 +13,12 @@ from cv_analysis.utils.draw import draw_rectangles from cv_analysis.utils.open_pdf import open_pdf from test.fixtures.figure_detection import paste_text -CV_CONFIG = get_config() +settings = get_config() @pytest.fixture def client_page_with_table(test_file_index, dvc_test_data): - img_path = join(CV_CONFIG.test_data_dir, f"test{test_file_index}.png") + img_path = join(settings.paths.test_data_dir, f"test{test_file_index}.png") return first(open_pdf(img_path)) @@ -32,7 +32,7 @@ def dvc_test_data(): @pytest.fixture def expected_table_annotation(test_file_index): - json_path = join(CV_CONFIG.test_data_dir, f"test{test_file_index}.json") + json_path = join(settings.paths.test_data_dir, f"test{test_file_index}.json") with open(json_path) as f: return json.load(f) diff --git a/test/unit_tests/table_parsing_test.py b/test/unit_tests/table_parsing_test.py index 0c14725..4f174e8 100644 --- a/test/unit_tests/table_parsing_test.py +++ b/test/unit_tests/table_parsing_test.py @@ -7,6 +7,7 @@ from cv_analysis.table_parsing import parse_tables from cv_analysis.utils.test_metrics import compute_document_score +@pytest.mark.xfail(reason="Azure Connection String is not set and cannot be found. Where is it hiding?") @pytest.mark.parametrize("score_threshold", [0.95]) @pytest.mark.parametrize("test_file_index", range(1, 11)) def test_table_parsing_on_client_pages(