diff --git a/.github/workflows/ci-python.yml b/.github/workflows/ci-python.yml index 70f3bbe2..022b3135 100644 --- a/.github/workflows/ci-python.yml +++ b/.github/workflows/ci-python.yml @@ -72,7 +72,7 @@ jobs: fail-fast: false max-parallel: 8 matrix: - os: [ubuntu-latest, macos-latest, windows-latest] + os: [ubuntu-latest, macos-latest, macos-26-intel, windows-latest] steps: - name: Checkout Repo @@ -101,7 +101,7 @@ jobs: fail-fast: false max-parallel: 8 matrix: - os: [ubuntu-latest, macos-latest, windows-latest] + os: [ubuntu-latest, macos-latest, macos-26-intel, windows-latest] steps: - name: Checkout Repo @@ -130,8 +130,12 @@ jobs: fail-fast: false max-parallel: 8 matrix: - os: [ubuntu-latest, macos-latest] + os: [ubuntu-latest, macos-latest, macos-26-intel] python-version: ['3.13', '3.12'] + exclude: + # https://docling-project.github.io/docling/getting_started/installation/#:~:text=When%20installing%20Docling,using%20Python%203.13%2B. + - os: macos-26-intel + python-version: '3.13' steps: - uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2 diff --git a/.github/workflows/ci-rust.yml b/.github/workflows/ci-rust.yml index c7ac4e90..330802bf 100644 --- a/.github/workflows/ci-rust.yml +++ b/.github/workflows/ci-rust.yml @@ -35,7 +35,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev @@ -62,7 +61,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev @@ -89,7 +87,7 @@ jobs: strategy: fail-fast: false matrix: - os: [ubuntu-latest, macos-latest, windows-latest] + os: [ubuntu-latest, macos-latest, macos-26-intel, windows-latest] steps: - uses: actions/checkout@de0fac2e4500dabe0009e67214ff5f5447ce83dd # v6.0.2 @@ -97,7 +95,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev @@ -130,7 +127,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev @@ -161,7 +157,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev @@ -190,7 +185,6 @@ jobs: - uses: prefix-dev/setup-pixi@1b2de7f3351f171c8b4dfeb558c639cb58ed4ec0 # v0.9.5 with: pixi-version: v0.62.2 - frozen: true cache: true cache-write: ${{ github.ref == 'refs/heads/main' }} environments: rdev diff --git a/compass/_cli/process.py b/compass/_cli/process.py index 31712d5e..1d6621e3 100644 --- a/compass/_cli/process.py +++ b/compass/_cli/process.py @@ -105,7 +105,7 @@ def _setup_cli_logging(console, verbosity_level, log_level="INFO"): if verbosity_level >= 1: libs.append("compass") if verbosity_level >= 2: # noqa: PLR2004 - libs.append("elm") + libs.extend(("elm", "docling")) if verbosity_level >= 3: # noqa: PLR2004 libs.append("openai") if verbosity_level >= 4: # noqa: PLR2004 diff --git a/compass/scripts/download.py b/compass/scripts/download.py index 556bebc2..3393dd58 100644 --- a/compass/scripts/download.py +++ b/compass/scripts/download.py @@ -1,19 +1,17 @@ """Ordinance file downloading logic""" +import pprint import logging from contextlib import AsyncExitStack from elm.web.document import PDFDocument -from elm.web.search.run import ( - load_docs, - search_with_fallback, - web_search_links_as_docs, -) +from elm.web.search.run import load_docs, search_with_fallback from elm.web.website_crawl import ( _SCORE_KEY, # noqa: PLC2701 ELMWebsiteCrawler, ELMLinkScorer, ) +from elm.web.file_loader import AsyncLocalFileLoader from elm.web.utilities import filter_documents from compass.extraction import check_for_relevant_text, extract_date @@ -23,9 +21,9 @@ JurisdictionValidator, JurisdictionWebsiteValidator, ) +from compass.web.file_loader import COMPASSWebFileLoader from compass.web.website_crawl import COMPASSCrawler, COMPASSLinkScorer from compass.utilities.enums import LLMTasks -from compass.utilities.io import load_local_docs from compass.pb import COMPASS_PB @@ -74,13 +72,19 @@ async def download_known_urls( file_loader_kwargs = file_loader_kwargs or {} file_loader_kwargs.update({"file_cache_coroutine": TempFileCachePB.call}) + logger.trace( + "kwargs for COMPASSWebFileLoader:\n%s", + pprint.PrettyPrinter().pformat(file_loader_kwargs), + ) + file_loader = COMPASSWebFileLoader( + browser_semaphore=browser_semaphore, **file_loader_kwargs + ) + async with COMPASS_PB.file_download_prog_bar( jurisdiction.full_name, len(urls) ): try: - out_docs = await load_docs( - urls, browser_semaphore=browser_semaphore, **file_loader_kwargs - ) + out_docs = await load_docs(urls, file_loader) except KeyboardInterrupt: raise except Exception as e: @@ -130,11 +134,16 @@ async def load_known_docs(jurisdiction, fps, local_file_loader_kwargs=None): local_file_loader_kwargs.update( {"file_cache_coroutine": TempFileCachePB.call} ) + logger.trace( + "kwargs for AsyncLocalFileLoader:\n%s", + pprint.PrettyPrinter().pformat(local_file_loader_kwargs), + ) + fl = AsyncLocalFileLoader(**local_file_loader_kwargs) async with COMPASS_PB.file_download_prog_bar( jurisdiction.full_name, len(fps) ): try: - out_docs = await load_local_docs(fps, **local_file_loader_kwargs) + out_docs = await load_docs(fps, fl) except KeyboardInterrupt: raise except Exception as e: @@ -216,7 +225,7 @@ async def find_jurisdiction_website( queries=[query_1, query_2], num_urls=3, ignore_url_parts=url_ignore_substrings, - browser_sem=search_semaphore, + browser_semaphore=search_semaphore, task_name=jurisdiction.full_name, **kwargs, ) @@ -332,17 +341,23 @@ async def _crawl_hook(*__, **___): # noqa: RUF029 """Update progress bar as pages are searched""" COMPASS_PB.update_website_crawl_task(pb_jurisdiction_name, advance=1) - file_loader_kwargs = file_loader_kwargs or {} - file_loader_kwargs.update({"file_cache_coroutine": TempFileCache.call}) + flk = {"verify_ssl": False} + flk.update(file_loader_kwargs or {}) + flk.update({"file_cache_coroutine": TempFileCache.call}) browser_config_kwargs = browser_config_kwargs or {} - pw_launch_kwargs = file_loader_kwargs.get("pw_launch_kwargs", {}) + pw_launch_kwargs = flk.get("pw_launch_kwargs", {}) browser_config_kwargs["headless"] = pw_launch_kwargs.get("headless", True) + logger.trace( + "kwargs for COMPASSWebFileLoader:\n%s", + pprint.PrettyPrinter().pformat(flk), + ) + afl = COMPASSWebFileLoader(**flk) crawler = ELMWebsiteCrawler( validator=_doc_heuristic, + async_file_loader=afl, url_scorer=ELMLinkScorer(keyword_points).score, - file_loader_kwargs=file_loader_kwargs, browser_config_kwargs=browser_config_kwargs, crawler_config_kwargs=crawler_config_kwargs, include_external=True, @@ -545,41 +560,29 @@ async def download_jurisdiction_ordinance_using_search_engine( jurisdiction.full_name, description="Searching web..." ) - pb_store = [] - - async def _download_hook(urls): # noqa: RUF029 - """Update progress bar as file download starts""" - if not urls: - return - - COMPASS_PB.update_jurisdiction_task( - jurisdiction.full_name, description="Downloading files..." - ) - pb, task = COMPASS_PB.start_file_download_prog_bar( - jurisdiction.full_name, len(urls) - ) - pb_store.append((pb, task, len(urls))) - kwargs.update(file_loader_kwargs or {}) + kwargs.update({"file_cache_coroutine": TempFileCachePB.call}) try: - out_docs = await _docs_from_web_search( - query_templates=query_templates, - jurisdiction=jurisdiction, + docs = await _docs_from_web_search( + query_templates, num_urls=num_urls, search_semaphore=search_semaphore, browser_semaphore=browser_semaphore, - url_ignore_substrings=url_ignore_substrings, - on_search_complete_hook=_download_hook, + ignore_url_parts=url_ignore_substrings, + jurisdiction_full_name=jurisdiction.full_name, **kwargs, ) - finally: - if pb_store: - pb, task, num_urls = pb_store[0] - await COMPASS_PB.tear_down_file_download_prog_bar( - jurisdiction.full_name, num_urls, pb, task - ) + except KeyboardInterrupt: + raise + except Exception as e: + msg = ( + "Encountered error of type %r while searching web for docs for %s:" + ) + err_type = type(e) + logger.exception(msg, err_type, jurisdiction.full_name) + docs = [] - return out_docs + return docs async def filter_ordinance_docs( @@ -701,43 +704,55 @@ async def filter_ordinance_docs( async def _docs_from_web_search( query_templates, - jurisdiction, num_urls, search_semaphore, browser_semaphore, - url_ignore_substrings, - on_search_complete_hook, + ignore_url_parts, + jurisdiction_full_name, **kwargs, ): - """Download documents from the web using jurisdiction queries""" + """Retrieve top ``N`` search results as document instances""" + queries = [ - query.format(jurisdiction=jurisdiction.full_name) + query.format(jurisdiction=jurisdiction_full_name) for query in query_templates ] - kwargs.update({"file_cache_coroutine": TempFileCachePB.call}) + urls = await search_with_fallback( + queries, + num_urls=num_urls, + ignore_url_parts=ignore_url_parts, + browser_semaphore=search_semaphore, + task_name=jurisdiction_full_name, + **kwargs, + ) + if not urls: + return [] - try: - docs = await web_search_links_as_docs( - queries, - num_urls=num_urls, - search_semaphore=search_semaphore, - browser_semaphore=browser_semaphore, - ignore_url_parts=url_ignore_substrings, - task_name=jurisdiction.full_name, - on_search_complete_hook=on_search_complete_hook, - **kwargs, - ) - except KeyboardInterrupt: - raise - except Exception as e: - msg = ( - "Encountered error of type %r while searching web for docs for %s:" - ) - err_type = type(e) - logger.exception(msg, err_type, jurisdiction.full_name) - docs = [] + return await _docs_from_urls( + urls, jurisdiction_full_name, browser_semaphore, **kwargs + ) - return docs + +async def _docs_from_urls( + urls, jurisdiction_full_name, browser_semaphore, **kwargs +): + """Load documents from a list of URLs using AsyncWebFileLoader""" + logger.debug("Downloading documents for URLS: \n\t-%s", "\n\t-".join(urls)) + logger.trace( + "kwargs for COMPASSWebFileLoader:\n%s", + pprint.PrettyPrinter().pformat(kwargs), + ) + file_loader = COMPASSWebFileLoader( + browser_semaphore=browser_semaphore, **kwargs + ) + + COMPASS_PB.update_jurisdiction_task( + jurisdiction_full_name, description="Downloading files..." + ) + async with COMPASS_PB.file_download_prog_bar( + jurisdiction_full_name, len(urls) + ): + return await load_docs(urls, file_loader) async def _down_select_docs_correct_jurisdiction( diff --git a/compass/scripts/process.py b/compass/scripts/process.py index 518cc53e..3c8b1d9c 100644 --- a/compass/scripts/process.py +++ b/compass/scripts/process.py @@ -25,7 +25,7 @@ from compass.validation.location import JurisdictionWebsiteValidator from compass.llm import OpenAIConfig from compass.services.cpu import ( - PDFLoader, + FileLoader, OCRPDFLoader, read_pdf_doc, read_pdf_doc_ocr, @@ -598,7 +598,7 @@ def _base_services(self): self.dirs.out / "jurisdictions.json", tpe_kwargs=self.tpe_kwargs, ), - PDFLoader(**(self.process_kwargs.ppe_kwargs or {})), + FileLoader(**(self.process_kwargs.ppe_kwargs or {})), HTMLFileLoader(**self.tpe_kwargs), ] diff --git a/compass/services/cpu.py b/compass/services/cpu.py index 045a732a..72b2b1d0 100644 --- a/compass/services/cpu.py +++ b/compass/services/cpu.py @@ -1,16 +1,37 @@ """COMPASS Ordinance CPU-bound services""" import ast +import os +import sys +import time import asyncio +import logging import contextlib +import warnings +from io import BytesIO from pathlib import Path from functools import partial from concurrent.futures import ProcessPoolExecutor +from logging.handlers import QueueHandler -from elm.web.document import PDFDocument +import numpy as np +from elm.web.document import PDFDocument, MDDocument from elm.utilities.parse import read_pdf, read_pdf_ocr +from docling.datamodel.backend_options import HTMLBackendOptions +from docling.datamodel.base_models import DocumentStream, InputFormat +from docling.document_converter import ( + DocumentConverter, + HTMLFormatOption, + PdfFormatOption, +) +from docling.datamodel.pipeline_options import ( + PdfPipelineOptions, + TableStructureOptions, + TesseractCliOcrOptions, +) from compass.services.base import Service +from compass.utilities.logs import AddLocationFilter, LQ class ProcessPoolService(Service): @@ -31,31 +52,42 @@ def __init__(self, **kwargs): def acquire_resources(self): """Open thread pool and temp directory""" - self.pool = ProcessPoolExecutor(**self._ppe_kwargs) + os.environ.setdefault("OMP_NUM_THREADS", "1") + ppe_kwargs = dict(self._ppe_kwargs) + user_initializer = ppe_kwargs.pop("initializer", None) + initargs = tuple(ppe_kwargs.pop("initargs", ())) + ppe_kwargs["initializer"] = _configure_subprocess_logging + ppe_kwargs["initargs"] = ( + LQ.QUEUE, + user_initializer, + initargs, + ) + self.pool = ProcessPoolExecutor(**ppe_kwargs) def release_resources(self): """Shutdown thread pool and cleanup temp directory""" self.pool.shutdown(wait=True, cancel_futures=True) -class PDFLoader(ProcessPoolService): - """Class to load PDFs in a ProcessPoolExecutor""" +class FileLoader(ProcessPoolService): + """Class to load files in a ProcessPoolExecutor""" @property def can_process(self): """bool: Always ``True`` (limiting is handled by asyncio)""" return True - async def process(self, fn, pdf_bytes, **kwargs): - """Execute a PDF parsing function in the process pool + async def process(self, fn, source, **kwargs): + """Execute a file parsing function in the process pool Parameters ---------- fn : callable Callable executed inside the process pool. Receives ``pdf_bytes`` as the first argument. - pdf_bytes : bytes - Raw PDF payload forwarded to ``fn``. + source : bytes + Raw document payload or path to file on disk. Argument + forwarded to ``read_fn``. **kwargs Additional keyword arguments passed to ``fn``. @@ -66,67 +98,14 @@ async def process(self, fn, pdf_bytes, **kwargs): """ loop = asyncio.get_running_loop() return await loop.run_in_executor( - self.pool, partial(fn, pdf_bytes, **kwargs) + self.pool, partial(fn, source, **kwargs) ) -class OCRPDFLoader(PDFLoader): +class OCRPDFLoader(FileLoader): """Loader service for OCR""" -def _read_pdf(pdf_bytes, **kwargs): - """Utility func so that pdftotext.PDF doesn't have to be pickled""" - pages = read_pdf(pdf_bytes, verbose=False) - return PDFDocument(pages, **kwargs) - - -def _read_pdf_ocr(pdf_bytes, tesseract_cmd, **kwargs): - """Utility function that mimics `_read_pdf`""" - if tesseract_cmd: - _configure_pytesseract(tesseract_cmd) - - pages = read_pdf_ocr(pdf_bytes, verbose=False) - doc = PDFDocument(_try_decode_ocr_pages(pages), **kwargs) - doc.attrs["from_ocr"] = True - return doc - - -def _read_pdf_file(pdf_fp, **kwargs): - """Utility func so that pdftotext.PDF doesn't have to be pickled""" - pdf_bytes = Path(pdf_fp).read_bytes() - pages = read_pdf(pdf_bytes, verbose=False) - return PDFDocument(pages, **kwargs), pdf_bytes - - -def _read_pdf_file_ocr(pdf_fp, tesseract_cmd, **kwargs): - """Utility function that mimics `_read_pdf_file`""" - if tesseract_cmd: - _configure_pytesseract(tesseract_cmd) - - pdf_bytes = Path(pdf_fp).read_bytes() - pages = read_pdf_ocr(pdf_bytes, verbose=False) - doc = PDFDocument(_try_decode_ocr_pages(pages), **kwargs) - doc.attrs["from_ocr"] = True - return doc, pdf_bytes - - -def _configure_pytesseract(tesseract_cmd): - """Set the tesseract_cmd""" - import pytesseract # noqa: PLC0415 - - pytesseract.pytesseract.tesseract_cmd = tesseract_cmd - - -def _try_decode_ocr_pages(pages): - """Try to decode pages into strings""" - decoded_pages = [] - for page in pages: - with contextlib.suppress(Exception): - page = ast.literal_eval(page).decode("utf-8") # noqa: PLW2901 - decoded_pages.append(page) - return decoded_pages - - async def read_pdf_doc(pdf_bytes, **kwargs): """Read PDF file from bytes in a Process Pool @@ -143,7 +122,7 @@ async def read_pdf_doc(pdf_bytes, **kwargs): elm.web.document.PDFDocument PDFDocument instances with pages loaded as text. """ - return await PDFLoader.call(_read_pdf, pdf_bytes, **kwargs) + return await FileLoader.call(_read_pdf, pdf_bytes, **kwargs) async def read_pdf_file(pdf_fp, **kwargs): @@ -161,8 +140,10 @@ async def read_pdf_file(pdf_fp, **kwargs): ------- elm.web.document.PDFDocument PDFDocument instances with pages loaded as text. + bytes + Raw bytes of the PDF file. """ - return await PDFLoader.call(_read_pdf_file, pdf_fp, **kwargs) + return await FileLoader.call(_read_pdf_file, pdf_fp, **kwargs) async def read_pdf_doc_ocr(pdf_bytes, **kwargs): @@ -214,6 +195,8 @@ async def read_pdf_file_ocr(pdf_fp, **kwargs): ------- elm.web.document.PDFDocument PDFDocument instances with pages loaded as text. + bytes + Raw bytes of the PDF file. """ import pytesseract # noqa: PLC0415 @@ -223,3 +206,230 @@ async def read_pdf_file_ocr(pdf_fp, **kwargs): tesseract_cmd=pytesseract.pytesseract.tesseract_cmd, **kwargs, ) + + +async def read_docling_web_file(doc_bytes, url, **kwargs): + """Read a web file using Docling in a Process Pool + + Parameters + ---------- + doc_bytes : bytes + Raw document payload forwarded to the Docling parser. + url : str + URL of the file to read. + **kwargs + Additional keyword arguments passed to Docling's + :func:`~docling_core.types.doc.DoclingDocument.export_to_markdown` + method. + + Returns + ------- + elm.web.document.MDDocument + Parsed document. + """ + return await FileLoader.call(_read_docling, doc_bytes, url=url, **kwargs) + + +async def read_docling_local_file(fp, **kwargs): + """Read a web file using Docling in a Process Pool + + Parameters + ---------- + fp : path-like + Path to local file to read. + **kwargs + Additional keyword arguments passed to Docling's + :func:`~docling_core.types.doc.DoclingDocument.export_to_markdown` + method. + + Returns + ------- + elm.web.document.MDDocument + Parsed document. + bytes + Raw bytes of the PDF file. + """ + return await FileLoader.call(_read_file_docling, fp, **kwargs) + + +def _read_pdf(pdf_bytes, **kwargs): + """Utility func so that pdftotext.PDF doesn't have to be pickled""" + pages = read_pdf(pdf_bytes, verbose=False) + return PDFDocument(pages, **kwargs) + + +def _read_pdf_ocr(pdf_bytes, tesseract_cmd, **kwargs): + """Utility function that mimics `_read_pdf`""" + if tesseract_cmd: + _configure_pytesseract(tesseract_cmd) + + pages = read_pdf_ocr(pdf_bytes, verbose=False) + doc = PDFDocument(_try_decode_ocr_pages(pages), **kwargs) + doc.attrs["from_ocr"] = True + return doc + + +def _read_pdf_file(pdf_fp, **kwargs): + """Utility func so that pdftotext.PDF doesn't have to be pickled""" + pdf_bytes = Path(pdf_fp).read_bytes() + pages = read_pdf(pdf_bytes, verbose=False) + return PDFDocument(pages, **kwargs), pdf_bytes + + +def _read_pdf_file_ocr(pdf_fp, tesseract_cmd, **kwargs): + """Utility function that mimics `_read_pdf_file`""" + if tesseract_cmd: + _configure_pytesseract(tesseract_cmd) + + pdf_bytes = Path(pdf_fp).read_bytes() + pages = read_pdf_ocr(pdf_bytes, verbose=False) + doc = PDFDocument(_try_decode_ocr_pages(pages), **kwargs) + doc.attrs["from_ocr"] = True + return doc, pdf_bytes + + +def _read_docling(doc_bytes, url, headers=None, **kwargs): + """Utility func to read documents using Docling""" + + url = str(url) + if headers is not None: + headers = dict(headers) + + pipeline_options = PdfPipelineOptions() + pipeline_options.do_ocr = True + pipeline_options.do_table_structure = True + pipeline_options.table_structure_options = TableStructureOptions( + do_cell_matching=True + ) + pipeline_options.ocr_options = TesseractCliOcrOptions() + html_backend_options = HTMLBackendOptions(source_uri=url) + + doc_converter = DocumentConverter( + format_options={ + InputFormat.PDF: PdfFormatOption( + pipeline_options=pipeline_options + ), + InputFormat.HTML: HTMLFormatOption( + backend_options=html_backend_options + ), + } + ) + + start_time = time.monotonic() + stream = DocumentStream(name=url, stream=BytesIO(doc_bytes)) + conv_result = doc_converter.convert(stream, headers=headers) + conversion_time_seconds = time.monotonic() - start_time + + with warnings.catch_warnings(): + warnings.simplefilter("ignore", RuntimeWarning) + mean_confidence = conv_result.confidence.mean_score + low_score_confidence = conv_result.confidence.low_score + + attrs = { + "doc_filename": conv_result.input.file.stem, + "doc_type": conv_result.input.format.value, + "conversion_time_seconds": conversion_time_seconds, + "from_ocr": any( + ~np.isnan(c.ocr_score) + for c in conv_result.confidence.pages.values() + ), + "mean_confidence": mean_confidence, + "low_score_confidence": low_score_confidence, + } + doc_text = conv_result.document.export_to_markdown(**kwargs) + + return MDDocument([doc_text], attrs=attrs, remove_comments=False) + + +def _read_file_docling(fp, **kwargs): + """Read a local file using Docling""" + + fp = Path(fp) + doc_bytes = fp.read_bytes() + doc = _read_docling(doc_bytes, fp, headers=None, **kwargs) + return doc, doc_bytes + + +def _configure_pytesseract(tesseract_cmd): + """Set the tesseract_cmd""" + import pytesseract # noqa: PLC0415 + + pytesseract.pytesseract.tesseract_cmd = tesseract_cmd + + +def _try_decode_ocr_pages(pages): + """Try to decode pages into strings""" + decoded_pages = [] + for page in pages: + with contextlib.suppress(Exception): + page = ast.literal_eval(page).decode("utf-8") # noqa: PLW2901 + decoded_pages.append(page) + return decoded_pages + + +def _configure_subprocess_logging(logging_queue, user_initializer, initargs): + """Route subprocess output through the main process log queue""" + queue_handler = QueueHandler(logging_queue) + queue_handler.addFilter(AddLocationFilter()) + + root_logger = logging.getLogger() + root_logger.handlers = [] + root_logger.addHandler(queue_handler) # root emits to queue handler + root_logger.setLevel(logging.INFO) + + for lib in ("compass", "elm", "docling", "openai"): + lib_logger = logging.getLogger(lib) + lib_logger.handlers = [] # no handlers within subprocess + lib_logger.propagate = True # instead, propogate to root logger + lib_logger.setLevel(logging.INFO) + + stdout_logger = logging.getLogger("compass.subprocess.stdout") + stderr_logger = logging.getLogger("compass.subprocess.stderr") + stdout_logger.setLevel(logging.INFO) + stderr_logger.setLevel(logging.WARNING) + sys.stdout = _LogStream(stdout_logger, logging.INFO) + sys.stderr = _LogStream(stderr_logger, logging.WARNING) + + if user_initializer is not None: + user_initializer(*initargs) + + +class _LogStream: + """File-like object that forwards writes into a logger""" + + def __init__(self, logger, level): + """ + + Parameters + ---------- + logger : logging.Logger + Logger to emit redirected stream output to. + level : int + Logging level used for forwarded messages. + """ + self.logger = logger + self.level = level + self._buffer = "" + self.encoding = "utf-8" + + def write(self, message): + """Forward complete lines to the configured logger""" + if not message: + return 0 + + self._buffer += message + while "\n" in self._buffer: + line, self._buffer = self._buffer.split("\n", 1) + if line: + self.logger.log(self.level, line) + return len(message) + + def flush(self): + """Flush any partial line buffered from the stream""" + if self._buffer: + self.logger.log(self.level, self._buffer) + self._buffer = "" + + def isatty(self): # noqa: PLR6301 + """bool: Redirected subprocess streams are never TTYs""" + return False diff --git a/compass/utilities/__init__.py b/compass/utilities/__init__.py index d2cb3209..3c899164 100644 --- a/compass/utilities/__init__.py +++ b/compass/utilities/__init__.py @@ -25,7 +25,6 @@ ordinances_bool_index, ) from .nt import ProcessKwargs -from .io import load_local_docs RTS_SEPARATORS = [ diff --git a/compass/utilities/io.py b/compass/utilities/io.py index 4bda89d7..c2725809 100644 --- a/compass/utilities/io.py +++ b/compass/utilities/io.py @@ -14,8 +14,6 @@ import yaml import toml import pyjson5 -import pprint -from elm.web.file_loader import AsyncLocalFileLoader from compass.utilities.enums import CaseInsensitiveEnum from compass.exceptions import COMPASSValueError, COMPASSFileNotFoundError @@ -331,52 +329,3 @@ def resolve_path(path, base_dir): path = path.expanduser().resolve().as_posix() return path - - -async def load_local_docs(fps, **kwargs): - """Load local documents into `elm` document instances - - Parameters - ---------- - fps : Iterable - Iterable of paths referencing local files to load. - **kwargs - Additional keyword arguments forwarded to - :class:`elm.web.file_loader.AsyncLocalFileLoader` for - configuration such as ``loader``, caching, or parsing options. - - Returns - ------- - list of BaseDocument - Non-empty loaded documents corresponding to the supplied - filepaths. Empty results (e.g., unreadable files) are filtered - out of the returned list. - - Raises - ------ - elm.exceptions.ELMError - Propagated when the underlying loader fails to read one of the - provided files and is configured to raise on errors. - - Notes - ----- - Detailed debug information about loaded page counts is emitted via - the ``compass.utilities.io`` logger at ``TRACE`` level to assist - with troubleshooting ingestion runs. - """ - logger.trace("Loading docs for the following paths:\n%r", fps) - logger.trace( - "kwargs for AsyncLocalFileLoader:\n%s", - pprint.PrettyPrinter().pformat(kwargs), - ) - file_loader = AsyncLocalFileLoader(**kwargs) - docs = await file_loader.fetch_all(*fps) - - page_lens = { - doc.attrs.get("source_fp", "Unknown"): len(doc.pages) for doc in docs - } - logger.debug( - "Loaded the following number of pages for docs:\n%s", - pprint.PrettyPrinter().pformat(page_lens), - ) - return [doc for doc in docs if not doc.empty] diff --git a/compass/utilities/logs.py b/compass/utilities/logs.py index dc3470fc..a3ede45f 100644 --- a/compass/utilities/logs.py +++ b/compass/utilities/logs.py @@ -7,11 +7,12 @@ import os import time import json +import copy import asyncio import logging import threading +import multiprocessing from pathlib import Path -from queue import SimpleQueue from functools import partial, partialmethod from logging.handlers import QueueHandler, QueueListener from importlib.metadata import version, PackageNotFoundError @@ -20,10 +21,33 @@ from compass.exceptions import COMPASSValueError -LOGGING_QUEUE = SimpleQueue() COMPASS_DEBUG_LEVEL = int(os.environ.get("COMPASS_DEBUG_LEVEL", "0")) +class _LQ: + """Logging queue descriptor""" + + def __get__(self, __, lq_class=None): + lq_class.QUEUE = multiprocessing.get_context().Queue() + return lq_class.QUEUE + + +class LQ: + """Logging queue using lazy loading of multiprocessing queue + + Have to load it lazily so that multiprocessing context can still be + set elsewhere in the code (e.g. in the CLI). If the queue is loaded + at the module level, the multiprocessing context is set to "fork" by + default on unix systems, which causes issues when the process pool + executor is launched. By loading lazily, we can ensure that the + multiprocessing context is set to "spawn" in the CLI before the + queue is loaded. + """ + + QUEUE = _LQ() + """Logging queue instance""" + + class NoLocationFilter(logging.Filter): """Filter that catches all records without a location attribute.""" @@ -132,7 +156,11 @@ def emit(self, record): Log record containing the log message + default attributes. """ try: - self.enqueue(record) + self.enqueue( + _prepare_mp_queue_safe_record( + record, self.formatter or logging.Formatter() + ) + ) except asyncio.CancelledError: raise except Exception: # noqa: BLE001 @@ -157,7 +185,7 @@ def __init__(self, logger_names, level="INFO"): self.logger_names = logger_names self.level = level self._listener = None - self._queue_handler = _LocalProcessQueueHandler(LOGGING_QUEUE) + self._queue_handler = _LocalProcessQueueHandler(LQ.QUEUE) self._queue_handler.addFilter(AddLocationFilter()) def _setup_listener(self): @@ -165,7 +193,9 @@ def _setup_listener(self): if self._listener is not None: return self._listener = QueueListener( - LOGGING_QUEUE, logging.NullHandler(), respect_handler_level=True + LQ.QUEUE, + logging.NullHandler(), + respect_handler_level=True, ) self._listener.handlers = list(self._listener.handlers) @@ -363,7 +393,7 @@ async def __aenter__(self): async def __aexit__(self, exc_type, exc, tb): start_time = time.monotonic() while ( - not LOGGING_QUEUE.empty() + not LQ.QUEUE.empty() and (time.monotonic() - start_time) < self.max_teardown_time ): await asyncio.sleep(self.ASYNC_EXIT_SLEEP_SECONDS) @@ -375,29 +405,19 @@ class ExceptionOnlyFilter(logging.Filter): """Filter to only pass through Exception logging (errors)""" def filter(self, record): # noqa: D102, PLR6301 - return bool(record.exc_info) + return bool(record.exc_info or getattr(record, "exc_type", None)) class _JsonFormatter(logging.Formatter): """Formatter that converts a record into a dictionary""" def format(self, record): - exc_info = record.exc_info - exc_text = None - if exc_info: - try: - exc_text = exc_info[1].args[0] - except Exception: # noqa: BLE001 - exc_text = None - - try: - exc_info = exc_info[0].__name__ - except Exception: # noqa: BLE001 - exc_info = None + exc_info, exc_text = _extract_exc_info_from_record(record) message = record.getMessage() if message and len(message) > 103: # noqa: PLR2004 message = message[:103] + return { "timestamp": self.formatTime(record), "message": message, @@ -531,3 +551,59 @@ def _get_version(pkg_name): return version(pkg_name) except PackageNotFoundError: return "not installed" + + +def _prepare_mp_queue_safe_record(record, formatter): + """Prepare a multiprocessing queue-safe copy of a log record + + This resolves the formatted message eagerly, clears ``args`` to + avoid transporting arbitrary objects through the queue, and + converts ``exc_info`` into queue-safe exception fields before + removing the raw traceback tuple. + + The main benefit is that queued logging keeps useful exception + context (``exc_type``, ``exc_message``, and ``exc_text``) + without trying to transport traceback state, which is fragile + and can be difficult to serialize across queue boundaries. + """ + prepared = copy.copy(record) # don't break for other handlers + prepared.message = prepared.getMessage() + prepared.msg = prepared.message + prepared.args = None + + if prepared.exc_info: + exc_type, exc_value, __ = prepared.exc_info + prepared.exc_type = getattr(exc_type, "__name__", None) + prepared.exc_message = getattr(exc_value, "args", [None])[0] + prepared.exc_text = formatter.formatException(prepared.exc_info) + prepared.exc_info = None + + return prepared + + +def _extract_exc_info_from_record(record): + """Extract exception info from a log record + + This method accounts for both standard and multiprocessing + queue-safe versions of log- records + """ + + exc_info = record.exc_info + + if not exc_info: + # Check for multiprocessing queue-safe exception info attributes + exc_info = getattr(record, "exc_type", None) + exc_text = getattr(record, "exc_message", None) + return exc_info, exc_text + + try: + exc_text = exc_info[1].args[0] + except Exception: # noqa: BLE001 + exc_text = None + + try: + exc_info = exc_info[0].__name__ + except Exception: # noqa: BLE001 + exc_info = None + + return exc_info, exc_text diff --git a/compass/validation/location.py b/compass/validation/location.py index 6339d0ae..ca3a3a36 100644 --- a/compass/validation/location.py +++ b/compass/validation/location.py @@ -7,7 +7,6 @@ import asyncio import logging -from elm.web.file_loader import AsyncWebFileLoader from compass.llm.calling import BaseLLMCaller, ChatLLMCaller, LLMCaller from compass.common import setup_async_decision_tree, run_async_tree @@ -15,6 +14,7 @@ setup_graph_correct_jurisdiction_type, setup_graph_correct_jurisdiction_from_url, ) +from compass.web.file_loader import COMPASSWebFileLoader from compass.utilities.enums import LLMUsageCategory @@ -378,7 +378,7 @@ async def check(self, url, jurisdiction): if url_is_correct_jurisdiction: return True - fl = AsyncWebFileLoader( + fl = COMPASSWebFileLoader( browser_semaphore=self.browser_semaphore, **self.file_loader_kwargs, ) diff --git a/compass/web/file_loader.py b/compass/web/file_loader.py new file mode 100644 index 00000000..b01081e2 --- /dev/null +++ b/compass/web/file_loader.py @@ -0,0 +1,251 @@ +"""COMPASS file loader for web files using Docling""" + +import os +import asyncio +import logging + +from elm.web.file_loader import ( + AsyncFetchWithRetry, + AsyncHTMLLoader, + BaseAsyncFileLoader, + AsyncWebFileLoader, +) +from elm.web.document import MDDocument +from docling_core.utils.file import resolve_remote_filename, AnyHttpUrl + +from compass.services.cpu import read_docling_web_file +from compass.services.threaded import TempFileCache + + +logger = logging.getLogger(__name__) + + +class _AsyncHTMLOnlyLoader(BaseAsyncFileLoader): + """Class for loading HTML files using only the HTML loader""" + + def __init__( + self, + pw_launch_kwargs=None, + html_read_kwargs=None, + html_read_coroutine=None, + browser_semaphore=None, + use_scrapling_stealth=False, + num_pw_html_retries=3, + **__, # consume any extra kwargs + ): + """ + + Parameters + ---------- + pw_launch_kwargs : dict, optional + Keyword-value argument pairs to pass to + ``async_playwright.chromium.launch`` (only used when + reading HTML). By default, ``None``. + html_read_kwargs : dict, optional + Keyword-value argument pairs to pass to the + `html_read_coroutine`. By default, ``None``. + html_read_coroutine : callable, optional + HTML file read coroutine. Must by an async function. Should + accept HTML text as the first argument and kwargs as the + rest. Must return a :obj:`elm.web.document.HTMLDocument`. + If ``None``, a default function that runs in the main thread + is used. By default, ``None``. + browser_semaphore : asyncio.Semaphore, optional + Semaphore instance that can be used to limit the number of + playwright browsers open concurrently. If ``None``, no + limits are applied. By default, ``None``. + use_scrapling_stealth : bool, default=False + Option to use scrapling stealth scripts instead of + tf-playwright-stealth. By default, ``False``. + num_pw_html_retries : int, default=3 + Number of attempts to load HTML content. This is useful + because the playwright parameters are stochastic, and + sometimes a combination of them can fail to load HTML. The + default value is likely a good balance between processing + attempts and retrieval success. Note that the minimum number + of attempts will always be 2, even if the user provides a + value smaller than this. By default, ``3``. + """ + super().__init__(file_cache_coroutine=TempFileCache.call) + self._html_loader = AsyncHTMLLoader( + pw_launch_kwargs=pw_launch_kwargs, + html_read_kwargs=html_read_kwargs, + html_read_coroutine=html_read_coroutine, + browser_semaphore=browser_semaphore, + use_scrapling_stealth=use_scrapling_stealth, + num_pw_html_retries=num_pw_html_retries, + ) + + async def _fetch_doc(self, url): + """Fetch a doc using Docling""" + doc = await self._html_loader.fetch(url) + return doc, doc.text + + +class AsyncDoclingWebFileLoader(BaseAsyncFileLoader): + """Async web file loader using Docling""" + + def __init__( # noqa: PLR0913, PLR0917 + self, + header_template=None, + verify_ssl=True, + aget_kwargs=None, + pw_launch_kwargs=None, + html_read_kwargs=None, + html_read_coroutine=None, + file_cache_coroutine=None, + browser_semaphore=None, + use_scrapling_stealth=False, + num_pw_html_retries=3, + to_md_kwargs=None, + **__, # consume any extra kwargs + ): + """ + + Parameters + ---------- + header_template : dict, optional + Optional GET header template. If not specified, uses + :obj:`~elm.web.utilities.DEFAULT_HEADERS`. + By default, ``None``. + verify_ssl : bool, optional + Option to use aiohttp's default SSL check. If ``False``, + SSL certificate validation is skipped. By default, ``True``. + aget_kwargs : dict, optional + Other kwargs to pass to :meth:`aiohttp.ClientSession.get`. + By default, ``None``. + pw_launch_kwargs : dict, optional + Keyword-value argument pairs to pass to + ``async_playwright.chromium.launch`` (only used when + reading HTML). By default, ``None``. + html_read_kwargs : dict, optional + Keyword-value argument pairs to pass to the + `html_read_coroutine`. By default, ``None``. + html_read_coroutine : callable, optional + HTML file read coroutine. Must by an async function. Should + accept HTML text as the first argument and kwargs as the + rest. Must return a :obj:`elm.web.document.HTMLDocument`. + If ``None``, a default function that runs in the main thread + is used. By default, ``None``. + file_cache_coroutine : callable, optional + File caching coroutine. Can be used to cache files + downloaded by this class. Must accept an + :obj:`~elm.web.document.BaseDocument` instance as the first + argument and the file content to be written as the second + argument. If this method is not provided, no document + caching is performed. By default, ``None``. + browser_semaphore : asyncio.Semaphore, optional + Semaphore instance that can be used to limit the number of + playwright browsers open concurrently. If ``None``, no + limits are applied. By default, ``None``. + use_scrapling_stealth : bool, default=False + Option to use scrapling stealth scripts instead of + tf-playwright-stealth. By default, ``False``. + num_pw_html_retries : int, default=3 + Number of attempts to load HTML content. This is useful + because the playwright parameters are stochastic, and + sometimes a combination of them can fail to load HTML. The + default value is likely a good balance between processing + attempts and retrieval success. Note that the minimum number + of attempts will always be 2, even if the user provides a + value smaller than this. By default, ``3``. + to_md_kwargs : dict, optional + Keyword-value argument pairs to pass to to Docling's + :func:`~docling_core.types.doc.DoclingDocument.export_to_markdown` + method for converting the raw content to a markdown + document. Can be useful to specify image placeholders (i.e. + ``"image_placeholder"=""``) or page break placeholders (i.e. + ``"page_break_placeholder"=""). + By default, ``None``. + """ + super().__init__(file_cache_coroutine=file_cache_coroutine) + self.content_fetcher = AsyncFetchWithRetry( + header_template=header_template, + verify_ssl=verify_ssl, + aget_kwargs=aget_kwargs, + ) + self.html_loader = _AsyncHTMLOnlyLoader( + pw_launch_kwargs=pw_launch_kwargs, + html_read_kwargs=html_read_kwargs, + html_read_coroutine=html_read_coroutine, + browser_semaphore=browser_semaphore, + use_scrapling_stealth=use_scrapling_stealth, + num_pw_html_retries=num_pw_html_retries, + ) + self.to_md_kwargs = to_md_kwargs or {} + + async def fetch_all(self, *sources): + """Fetch documents for all requested sources. + + Parameters + ---------- + *sources + Iterable of sources (as strings) used to fetch the + documents. + + Returns + ------- + list + List of parsed documents. + """ + outer_task_name = asyncio.current_task().get_name() + fetches = [ + asyncio.create_task(self.fetch(source), name=outer_task_name) + for source in sources + ] + docs = await asyncio.gather(*fetches) + if docs: + logger.debug( + "Got the following doc types from initial fetch:\n\t- %s", + "\n\t- ".join( + [ + f"{doc.attrs['source']} -> {doc.attrs['doc_type']!r}" + for doc in docs + ] + ), + ) + + to_re_fetch = [ + doc.attrs["source"] + for doc in docs + if doc.attrs["doc_type"].casefold() == "html" + ] + if to_re_fetch: + logger.debug( + "Loading HTML with Playwright for %d source(s):\n%r", + len(to_re_fetch), + to_re_fetch, + ) + docs += await self.html_loader.fetch_all(*to_re_fetch) + return docs + + async def _fetch_doc(self, url): + """Fetch a doc using Docling""" + + out = await self.content_fetcher.fetch(url) + if out is None: + return MDDocument(pages=[]), None + + logger.debug("Got content from %r", url) + raw_content, __, __, headers = out + doc = await read_docling_web_file( + raw_content, + url=resolve_remote_filename( + http_url=AnyHttpUrl(url), response_headers=dict(headers) + ), + headers=dict(headers), + **self.to_md_kwargs, + ) + + if doc.attrs["doc_type"].casefold() != "html": + doc.WRITE_KWARGS = {"mode": "wb"} + doc.FILE_EXTENSION = doc.attrs["doc_type"] + return doc, raw_content + + return doc, doc.text + + +if os.environ.get("COMPASS_FILE_LOAD_BACKEND", "elm") == "docling": + COMPASSWebFileLoader = AsyncDoclingWebFileLoader +else: + COMPASSWebFileLoader = AsyncWebFileLoader diff --git a/compass/web/website_crawl.py b/compass/web/website_crawl.py index 63df168c..b9097de1 100644 --- a/compass/web/website_crawl.py +++ b/compass/web/website_crawl.py @@ -26,9 +26,10 @@ from playwright._impl._errors import Error as PlaywrightError # noqa: PLC2701 from elm.web.utilities import pw_page from elm.web.document import PDFDocument, HTMLDocument -from elm.web.file_loader import AsyncWebFileLoader from elm.web.website_crawl import ELMLinkScorer, _SCORE_KEY # noqa: PLC2701 +from compass.web.file_loader import COMPASSWebFileLoader + logger = logging.getLogger(__name__) _DEPTH_KEY = "web_crawl_depth" @@ -181,7 +182,7 @@ def __init__( file_loader_kwargs = file_loader_kwargs or {} flk = {"verify_ssl": False} flk.update(file_loader_kwargs or {}) - self.afl = AsyncWebFileLoader(**flk) + self.afl = COMPASSWebFileLoader(**flk) self.pw_launch_kwargs = ( file_loader_kwargs.get("pw_launch_kwargs") or {} ) diff --git a/docs/source/conf.py b/docs/source/conf.py index 11874848..5636263e 100644 --- a/docs/source/conf.py +++ b/docs/source/conf.py @@ -61,6 +61,8 @@ ] intersphinx_mapping = { + "aiohttp": ("https://docs.aiohttp.org/en/stable", None), + "docling_core": ("https://docling-project.github.io/docling", None), "elm": ("https://natlabrockies.github.io/elm", None), "matplotlib": ("https://matplotlib.org/stable", None), "networkx": ("https://networkx.org/documentation/stable", None), @@ -79,8 +81,8 @@ # You can specify multiple suffix as a list of string: # source_suffix = { - '.rst': 'restructuredtext', - '.md': 'markdown', + ".rst": "restructuredtext", + ".md": "markdown", } # source_parsers = {'.md': MarkdownParser} @@ -141,6 +143,7 @@ "compass.extraction.wind.ordinance.WindPermittedUseDistrictsTextExtractor.OUT_LABEL", ), ("py:class", "compass.utilities.io._ConfigType"), + ("py:class", "elm.web.document.Document"), ] # -- Options for HTML output ------------------------------------------------- diff --git a/pixi.lock b/pixi.lock index abb8377d..bc750ea6 100644 --- a/pixi.lock +++ b/pixi.lock @@ -24,9 +24,9 @@ environments: - conda: https://conda.anaconda.org/conda-forge/linux-64/brotli-python-1.2.0-py312hdb49522_1.conda - conda: https://conda.anaconda.org/conda-forge/linux-64/bzip2-1.0.8-hda65f42_9.conda - conda: https://conda.anaconda.org/conda-forge/linux-64/c-ares-1.34.6-hb03c661_0.conda - - conda: https://conda.anaconda.org/conda-forge/noarch/ca-certificates-2026.2.25-hbd8a1cb_0.conda + - conda: 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features = ["python-default", "elm", "python-build"], solve-group = "python" } + +[tasks] +openai-solar-demo = { cmd = "export OPENAI_API_KEY={{ api_key }}; compass process -c config.json5", args = ["api_key"], cwd = "examples/openai_solar_demo"} + +[feature.rust-dev.tasks] +tests-r = "cargo test --locked --workspace --no-fail-fast" +publish-db = "cargo publish --locked -p infra-compass-db --all-features" +publish-cli = "cargo publish --locked -p infra-compass-cli --all-features" + +[feature.python-dev.tasks] +lint = "ruff check ./compass" +format = "ruff format ./compass" + +[feature.python-test.tasks] +tests-p = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=30 tests/python" +tests-u = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=30 tests/python/unit" +tests-i = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=10 tests/python/integration" + +[feature.python-doc.tasks] +python-docs = { cmd = "make clean html", cwd = "docs", env = { SPHINXOPTS = "--fail-on-warning --keep-going --nitpicky" }} + +[feature.python-build.tasks] +build-wheels = { cmd = "uv build --sdist --wheel --out-dir dist/ ." } + +[dependencies] +poppler = ">=24.8.0,<25" +python = ">=3.12,<3.14" + +[target.linux-aarch64.dependencies] +compilers = ">=1.11.0,<2" +clangdev = ">=20.1.8,<21" +libclang = ">=20.1.8,<21" +maturin = ">=1.8.6,<2" +rust = ">=1.89.0,<1.90" + +[target.win.dependencies] +pdftotext = ">=2.2.2,<3" + +[target.linux-64.dependencies] +pdftotext = ">=2.2.2,<3" + +[target.osx.dependencies] +pdftotext = ">=2.2.2,<3" + +[feature.rust-dev.dependencies] +rust = ">=1.89.0,<1.92" +cxx-compiler = ">=1.11.0,<2" +graphviz = ">=12.2.1,<13" + +[feature.rust-dev.target.win-64.dependencies] +cargo-c = ">=0.10.16,<0.11" +clangdev = ">=21.1.6,<22" +libclang = 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+[feature.python-doc.pypi-dependencies] +sphinx-tabs = ">=3.5,<4" + +[feature.python-anthropic.dependencies] +anthropic = ">=0.40.0,<0.41" +botocore = ">=1.35.72,<2" +boto3 = ">=1.35.71,<2" + +[feature.python-build.dependencies] +python-build = ">=1.2.2,<2" +pkginfo = ">=1.12.1.2,<2" +uv = ">=0.8.4,<0.9" diff --git a/pyproject.toml b/pyproject.toml index e3fb40d0..ae26d326 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -20,7 +20,7 @@ maintainers = [ ] license = "BSD-3-Clause" keywords = ["COMPASS", "NLR", "Ordinance", "Database"] -requires-python = ">= 3.12" +requires-python = ">=3.12" classifiers=[ "Development Status :: 4 - Beta", "Intended Audience :: Science/Research", @@ -35,19 +35,24 @@ dependencies = [ "beautifulsoup4>=4.12.3,<5", "click>=8.1.7,<9", "crawl4ai>=0.6.3,<0.7", + "docling>=2.90.0,<3", + "docling-core>=2.73.0,<3.0.0", + "docling-parse>=5.3.2,<6.0.0", "html5lib>=1.1,<2", + "huggingface_hub<1", "langchain-text-splitters>=1.0.0,<2", "networkx>=3.4.2,<4", "nltk>=3.9.1,<4", - "nlr-elm>=0.0.38,<1", + "nlr-elm>=0.0.39,<1", "numpy>=2.4.3,<3", - "openai>=1.1.0", + "openai>=2.34.0", "pandas>=2.2.3,<3", "pdftotext>=2.2.2,<3", "platformdirs>=4.5.1,<5", "playwright>=1.49.0,<1.52", # version range required for c4ai" "pyjson5>=2.0.0,<3", "rich>=13.9.4,<14", + "toml>=0.10.2,<0.11", ] [project.optional-dependencies] @@ -109,158 +114,6 @@ fallback_version = "9999" git_describe_command = [ "git", "describe", "--dirty", "--tags", "--long", "--match", "v*[0-9]*" ] version_file = "compass/_version.py" -[tool.pixi.workspace] -channels = ["conda-forge", "microsoft"] -platforms = ["win-64", "osx-arm64", "osx-64", "linux-64", "linux-aarch64"] - -[tool.pixi.environments] -default = { features = ["python-default", "elm"], solve-group = "default" } -rdev = { features = ["rust-dev"], solve-group = "rust" } -pdev = { features = ["python-default", "elm", "python-dev", "python-build", "python-test", "python-doc", "python-anthropic", "ocr", "dev", "test", "doc"], solve-group = "python" } -ptest = { features = ["python-default", "elm", "python-test", "test"], solve-group = "python" } -pdoc = { features = ["python-default", "elm", "python-doc", "doc"], solve-group = "python" } -pbuild = { features = ["python-build", "python-default", "elm"], solve-group = "python" } - -[tool.pixi.tasks] -openai-solar-demo = { cmd = "export OPENAI_API_KEY={{ api_key }}; compass process -c config.json5", args = ["api_key"], cwd = "examples/openai_solar_demo"} - -[tool.pixi.feature.rust-dev.tasks] -tests-r = "cargo test --locked --workspace --no-fail-fast" -publish-db = "cargo publish --locked -p infra-compass-db --all-features" -publish-cli = "cargo publish --locked -p infra-compass-cli --all-features" - -[tool.pixi.feature.python-dev.tasks] -lint = "ruff check ./compass" -format = "ruff format ./compass" - -[tool.pixi.feature.python-test.tasks] -tests-p = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=30 tests/python" -tests-u = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=30 tests/python/unit" -tests-i = "pytest --durations=20 -rapP -vv --cov=compass --cov-report=html --cov-branch --cov-report=xml:coverage.xml --cov-fail-under=10 tests/python/integration" - -[tool.pixi.feature.python-doc.tasks] -python-docs = { cmd = "make clean html", cwd = "docs", env = { SPHINXOPTS = "--fail-on-warning --keep-going --nitpicky" }} - -[tool.pixi.feature.python-build.tasks] -build-wheels = { cmd = "uv build --sdist --wheel --out-dir dist/ ." } - -[tool.pixi.dependencies] -poppler = ">=24.8.0,<25" - -[tool.pixi.feature.rust-dev.dependencies] -rust = ">=1.89.0,<1.92" -cxx-compiler = ">=1.11.0,<2" -graphviz = ">=12.2.1,<13" -python = ">=3.12,<3.14" - -[tool.pixi.feature.rust-dev.target.win-64.dependencies] -cargo-c = ">=0.10.16,<0.11" -clangdev = ">=21.1.6,<22" -libclang = ">=21.1.6,<22" - -[tool.pixi.feature.python-default.dependencies] -aiohttp = ">=3.11.6,<4" -beautifulsoup4 = ">=4.12.3,<5" -click = ">=8.1.7,<9" -google-api-python-client = ">=2.160.0,<3" -html2text = ">=2024.2.26,<2025" -html5lib = ">=1.1,<2" -httpx = ">=0.28.1,<0.29" -ipython = ">=8.29.0,<9" -langchain-text-splitters = ">=1.0.0,<2" -lxml = ">=5.3.0,<6" -networkx = ">=3.4.2,<4" -nltk = ">=3.9.1,<4" -numpy = ">=2.4.3,<3" -openai = ">=1.1.0" -pandas = ">=2.2.3,<3" -pdf2image = ">=1.17.0,<2" -pillow = ">=10.4,<11.dev0" # version range required for c4ai -playwright = ">=1.49.1,<1.50" # version range required for c4ai is >=1.49.0,<1.52, but we pin for consistency with rebrowser-playwright -platformdirs = ">=4.5.1,<5" -pypdf2 = ">=3.0.1,<4" -pytesseract = ">=0.3.13,<0.4" -python = ">=3.12" -python-dotenv = ">=1.0.1,<2" -python-slugify = ">=8.0.4,<9" -rich = ">=13.9.4,<14" -scipy = ">=1.14.1,<2" -snowballstemmer = ">=2.2,<3.dev0" # version range required for c4ai -tabulate = ">=0.9.0,<0.10" -tesseract = ">=5.5.0,<6" -tiktoken = ">=0.12.0,<0.13" - -# rebrowser-playwright -greenlet = "==3.1.1" # version pin required for rebrowser-playwright -pyee = "==12.0.0" # version pin required for rebrowser-playwright - -[tool.pixi.feature.python-default.pypi-dependencies] -INFRA-COMPASS = { path = ".", editable = true} -crawl4ai = ">=0.6.3,<0.7" - -[tool.pixi.target.linux-aarch64.dependencies] -compilers = ">=1.11.0,<2" -clangdev = ">=20.1.8,<21" -libclang = ">=20.1.8,<21" -maturin = ">=1.8.6,<2" -rust = ">=1.89.0,<1.90" - -[tool.pixi.target.win-64.dependencies] -pdftotext = ">=2.2.2,<3" - -# ELM dependencies explicitly enumerated -# We should remove this once ELM better defines its dependencies -[tool.pixi.feature.elm.pypi-dependencies] -camoufox = ">=0.4.11,<0.5" -ddgs = ">=9.2.3,<10" -fake-useragent = ">=2.0.3,<3" -google-search-results = ">=2.4.2,<3" -rebrowser-playwright = ">=1.49.1,<1.50" # match playwright dep -scrapling = ">=0.2.99,<0.3" -tavily-python = ">=0.5.0,<0.6" -tf-playwright-stealth = ">=1.2.0,<2" - -[tool.pixi.feature.python-dev.dependencies] -geopandas = ">=1.0.1,<2" -ipykernel = ">=7.1.0,<8" -jupyter = ">=1.0.0,<1.1" -pipreqs = ">=0.4.13,<0.5" -ruff = ">=0.15.5,<0.16" -ruff-lsp = ">=0.0.62,<0.0.63" -seaborn = ">=0.13.2,<0.14" - -[tool.pixi.feature.python-test.dependencies] -flaky = ">=3.8.1,<4" -pytest = ">=9.0.3,<10" -pytest-asyncio = ">=1.3.0,<2" -pytest-cases = ">=3.10.1,<4" -pytest-cov = ">=7.1.0,<8" -pytest-mock = ">=3.15.1,<4" -pytest-profiling = ">=1.8.1,<2" -pytest-xdist = ">=3.8.0,<4" -snakeviz = ">=2.2.2,<3" -tox = ">=4.52.1,<5" - -[tool.pixi.feature.python-doc.dependencies] -ghp-import = ">=2.1.0,<3" -make = ">=4.4.1,<5" -myst-parser = ">=5.0.0,<6" -pydata-sphinx-theme = ">=0.17.1,<0.18" -sphinx-click = ">=6.2.0,<7" -sphinx-copybutton = ">=0.5.2,<0.6" -sphinxcontrib-mermaid = ">=2.0.1,<3" - -[tool.pixi.feature.python-anthropic.dependencies] -anthropic = ">=0.40.0,<0.41" -botocore = ">=1.35.72,<2" -boto3 = ">=1.35.71,<2" - -[tool.pixi.feature.python-build.dependencies] -python-build = ">=1.2.2,<2" -pkginfo = ">=1.12.1.2,<2" -uv = ">=0.8.4,<0.9" - - [tool.ruff] line-length = 79 diff --git a/tests/python/integration/test_integrated.py b/tests/python/integration/test_integrated.py index adcaa8f8..ecf36bc0 100644 --- a/tests/python/integration/test_integrated.py +++ b/tests/python/integration/test_integrated.py @@ -30,6 +30,7 @@ def __init__(self, read_return): self.read_return = read_return self.content_type = "application/pdf" self.charset = "utf-8" + self.headers = {} async def read(self): return self.read_return @@ -46,7 +47,7 @@ def mock_get_methods(sample_file): """Return patched get methods""" @asynccontextmanager - async def patched_get(session, url, *args, **kwargs): # noqa: RUF029 + async def patched_get(session, url, *args, **kwargs): if url == "Whatcom": with sample_file.open("rb") as fh: content = fh.read() diff --git a/tests/python/unit/scripts/test_process.py b/tests/python/unit/scripts/test_process.py index 645e3754..0923c45a 100644 --- a/tests/python/unit/scripts/test_process.py +++ b/tests/python/unit/scripts/test_process.py @@ -151,12 +151,10 @@ def _always_fail(*__, **___): log_files = list((tmp_path / "outputs" / "logs").glob("*")) assert len(log_files) == 1 - assert "Fatal error during processing" in log_files[0].read_text( - encoding="utf-8" - ) - assert "Simulated external error" in log_files[0].read_text( - encoding="utf-8" - ) + + log_text = log_files[0].read_text(encoding="utf-8") + assert "Fatal error during processing" in log_text + assert "Simulated external error" in log_text @pytest.mark.asyncio diff --git a/tests/python/unit/services/test_services_cpu.py b/tests/python/unit/services/test_services_cpu.py index 176bdabf..4dba40f4 100644 --- a/tests/python/unit/services/test_services_cpu.py +++ b/tests/python/unit/services/test_services_cpu.py @@ -1,6 +1,7 @@ """Test COMPASS CPU Services""" import logging +import sys import asyncio from pathlib import Path @@ -16,14 +17,23 @@ def _log_from_process(): """Call logger instance from a process""" - msg = "HELLO WORLD" + msg = "A DEBUG LOG" logger.debug(msg) + msg = "HELLO WORLD" + logger.info(msg) return msg +def _write_to_process_streams(): + """Write to stdout/stderr from a worker process""" + print("PROCESS STDOUT", flush=True) + print("PROCESS STDERR", file=sys.stderr, flush=True) + return "STREAMED" + + @pytest.mark.asyncio async def test_logging_within_service(tmp_path): - """Test that logging within a CPU service doesn't crash the process""" + """Test that child-process logs are forwarded to the listener""" class ProcessLogging(ProcessPoolService): """Subclass for testing""" @@ -38,12 +48,72 @@ async def process(self): log_listener = LogListener(["compass"], level="DEBUG") services = [ProcessLogging()] + captured_records = [] + + class _CaptureHandler(logging.Handler): + def emit(self, record): + captured_records.append(record) async with RunningAsyncServices(services), log_listener as ll: + capture_handler = _CaptureHandler(level=logging.DEBUG) + ll.addHandler(capture_handler) with LocationFileLog(ll, tmp_path, location="test_loc", level="DEBUG"): msg = await ProcessLogging.call() + for _ in range(30): + if captured_records: + break + await asyncio.sleep(0.1) + ll.removeHandler(capture_handler) assert msg == "HELLO WORLD" + assert any(record.message == "HELLO WORLD" for record in captured_records) + assert not any( + record.message == "A DEBUG LOG" for record in captured_records + ) + + +@pytest.mark.asyncio +async def test_process_streams_are_forwarded_to_logs(capfd): + """Test that worker stdout/stderr are logged instead of printed""" + + class ProcessStreamLogging(ProcessPoolService): + """Subclass for testing""" + + @property + def can_process(self): + return True + + async def process(self): + loop = asyncio.get_running_loop() + return await loop.run_in_executor( + self.pool, _write_to_process_streams + ) + + log_listener = LogListener(["compass"], level="DEBUG") + services = [ProcessStreamLogging()] + captured_records = [] + + class _CaptureHandler(logging.Handler): + def emit(self, record): + captured_records.append(record) + + async with RunningAsyncServices(services), log_listener as ll: + capture_handler = _CaptureHandler(level=logging.INFO) + ll.addHandler(capture_handler) + msg = await ProcessStreamLogging.call() + for _ in range(30): + if len(captured_records) >= 2: + break + await asyncio.sleep(0.1) + ll.removeHandler(capture_handler) + + assert msg == "STREAMED" + assert any( + record.message == "PROCESS STDOUT" for record in captured_records + ) + assert any( + record.message == "PROCESS STDERR" for record in captured_records + ) if __name__ == "__main__": diff --git a/tests/python/unit/utilities/test_utilities_io.py b/tests/python/unit/utilities/test_utilities_io.py index 65683f9e..cec6d3c5 100644 --- a/tests/python/unit/utilities/test_utilities_io.py +++ b/tests/python/unit/utilities/test_utilities_io.py @@ -5,15 +5,12 @@ from pathlib import Path import pytest +from elm.web.search.run import load_docs +from elm.web.file_loader import AsyncLocalFileLoader -from compass.utilities.io import ( - load_config, - ConfigType, - resolve_all_paths, - load_local_docs, -) +from compass.utilities.io import load_config, ConfigType, resolve_all_paths from compass.services.cpu import ( - PDFLoader, + FileLoader, OCRPDFLoader, read_pdf_file, read_pdf_file_ocr, @@ -26,6 +23,48 @@ PYT_CMD = os.getenv("TESSERACT_CMD") +def test_file_loader_sets_default_omp_num_threads(monkeypatch): + """Test process pool defaults OMP_NUM_THREADS to 1""" + + class DummyPool: + def __init__(self, *__, **___): + pass + + def shutdown(self, wait=True, cancel_futures=True): + return None + + monkeypatch.delenv("OMP_NUM_THREADS", raising=False) + monkeypatch.setattr("compass.services.cpu.ProcessPoolExecutor", DummyPool) + + service = FileLoader() + service.acquire_resources() + + assert os.environ["OMP_NUM_THREADS"] == "1" + + service.release_resources() + + +def test_file_loader_preserves_existing_omp_num_threads(monkeypatch): + """Test process pool preserves user OMP_NUM_THREADS override""" + + class DummyPool: + def __init__(self, *__, **___): + pass + + def shutdown(self, wait=True, cancel_futures=True): + return None + + monkeypatch.setenv("OMP_NUM_THREADS", "4") + monkeypatch.setattr("compass.services.cpu.ProcessPoolExecutor", DummyPool) + + service = FileLoader() + service.acquire_resources() + + assert os.environ["OMP_NUM_THREADS"] == "4" + + service.release_resources() + + def test_resolve_all_paths(): """Test resolving all paths""" @@ -229,7 +268,8 @@ async def test_basic_load_pdf(test_data_files_dir): """Test basic loading of local PDF document""" test_fp = test_data_files_dir / "Caneadea New York.pdf" - docs = await load_local_docs([test_fp]) + fl = AsyncLocalFileLoader() + docs = await load_docs([test_fp], fl) assert len(docs) == 1 doc = docs[0] assert not doc.empty @@ -242,7 +282,8 @@ async def test_basic_load_html(test_data_files_dir): """Test basic loading of local HTML document""" test_fp = test_data_files_dir / "Whatcom.txt" - docs = await load_local_docs([test_fp]) + fl = AsyncLocalFileLoader() + docs = await load_docs([test_fp], fl) assert len(docs) == 1 doc = docs[0] assert not doc.empty @@ -257,15 +298,14 @@ async def test_basic_load_pdf_with_service(test_data_files_dir): with pytest.raises( COMPASSNotInitializedError, - match=r"Must initialize the queue for 'PDFLoader'.", + match=r"Must initialize the queue for 'FileLoader'.", ): await read_pdf_file(test_fp) - async with RunningAsyncServices([PDFLoader()]): + fl = AsyncLocalFileLoader(pdf_read_coroutine=read_pdf_file) + async with RunningAsyncServices([FileLoader()]): doc, __ = await read_pdf_file(test_fp) - doc_2 = await load_local_docs( - [test_fp], pdf_read_coroutine=read_pdf_file - ) + doc_2 = await load_docs([test_fp], fl) assert not doc.empty assert not doc_2[0].empty @@ -290,11 +330,10 @@ async def test_basic_load_ocr_pdf_with_service(test_data_files_dir): ): await read_pdf_file_ocr(test_fp) + fl = AsyncLocalFileLoader(pdf_ocr_read_coroutine=read_pdf_file_ocr) async with RunningAsyncServices([OCRPDFLoader()]): doc, __ = await read_pdf_file_ocr(test_fp) - doc_2 = await load_local_docs( - [test_fp], pdf_ocr_read_coroutine=read_pdf_file_ocr - ) + doc_2 = await load_docs([test_fp], fl) assert not doc.empty assert not doc_2[0].empty @@ -312,11 +351,10 @@ async def test_basic_load_html_with_service(test_data_files_dir): ): await read_html_file(test_fp) + fl = AsyncLocalFileLoader(html_read_coroutine=read_html_file) async with RunningAsyncServices([HTMLFileLoader()]): doc, __ = await read_html_file(test_fp) - doc_2 = await load_local_docs( - [test_fp], html_read_coroutine=read_html_file - ) + doc_2 = await load_docs([test_fp], fl) assert not doc.empty assert not doc_2[0].empty diff --git a/tests/python/unit/utilities/test_utilities_logs.py b/tests/python/unit/utilities/test_utilities_logs.py index d26ca56a..e1cd210c 100644 --- a/tests/python/unit/utilities/test_utilities_logs.py +++ b/tests/python/unit/utilities/test_utilities_logs.py @@ -5,6 +5,7 @@ import logging import asyncio from pathlib import Path +from queue import Empty import pytest @@ -22,7 +23,7 @@ _JsonFormatter, _LocalProcessQueueHandler, _get_version, - LOGGING_QUEUE, + LQ, ) @@ -616,10 +617,13 @@ def test_setup_logging_levels(): def test_local_process_queue_handler_emit(): """Test _LocalProcessQueueHandler correctly enqueues records""" - handler = _LocalProcessQueueHandler(LOGGING_QUEUE) + handler = _LocalProcessQueueHandler(LQ.QUEUE) - while not LOGGING_QUEUE.empty(): - LOGGING_QUEUE.get() + while True: + try: + LQ.QUEUE.get_nowait() + except Empty: + break record = _sample_log_record( pathname="test.py", @@ -630,11 +634,38 @@ def test_local_process_queue_handler_emit(): handler.emit(record) - assert not LOGGING_QUEUE.empty() - queued_record = LOGGING_QUEUE.get() + queued_record = LQ.QUEUE.get(timeout=1) assert queued_record.msg == "test message" +def test_local_process_queue_handler_emit_exception_record(): + """Test queued exception records remain picklable and informative""" + handler = _LocalProcessQueueHandler(LQ.QUEUE) + + while True: + try: + LQ.QUEUE.get_nowait() + except Empty: + break + + record = _sample_log_record( + pathname="test.py", + lineno=42, + msg="failure happened", + func="test_func", + ) + _attach_value_error_exc_info(record, "queued exception") + + handler.emit(record) + + queued_record = LQ.QUEUE.get(timeout=1) + assert queued_record.msg == "failure happened" + assert queued_record.exc_info is None + assert queued_record.exc_type == "ValueError" + assert queued_record.exc_message == "queued exception" + assert "ValueError: queued exception" in queued_record.exc_text + + def test_log_versions_logs_expected_packages( compass_logger, assert_message_was_logged ): diff --git a/tests/python/unit/web/test_web_crawl.py b/tests/python/unit/web/test_web_crawl.py index 4e99a68f..128ad674 100644 --- a/tests/python/unit/web/test_web_crawl.py +++ b/tests/python/unit/web/test_web_crawl.py @@ -130,7 +130,7 @@ async def fetch(self, url): monkeypatch.setattr(website_crawl, "PDFDocument", DummyPDFDocument) monkeypatch.setattr(website_crawl, "HTMLDocument", DummyHTMLDocument) - monkeypatch.setattr(website_crawl, "AsyncWebFileLoader", DummyLoader) + monkeypatch.setattr(website_crawl, "COMPASSWebFileLoader", DummyLoader) async def validator(doc): await asyncio.sleep(0) diff --git a/tox.ini b/tox.ini index b6e74117..20ff7fb9 100644 --- a/tox.ini +++ b/tox.ini @@ -1,7 +1,7 @@ [tox] min_version = 4.26 envlist = - py{312,313,314}-cl{817}-lts{1}-nx{342}-nltk{391}-np{224}-oai{110}-pd{223}-pw{149}-pj{5168}-rich{1394} + py{312,313,314}-cl{817}-docl{290}-lts{1}-nx{342}-nltk{391}-np{224}-oai{234}-pd{223}-pw{149}-pj{5168}-rich{1394}-toml{0102} [gh-actions] python = @@ -14,15 +14,18 @@ usedevelop = True commands = pytest tests --dist loadscope {posargs} deps = cl817: click>=8.1.7,<9 + c4ai063: crawl4ai>=0.6.3,<0.7 + docl290: docling>=2.90.0,<3 lts1: langchain-text-splitters>=1.0.0,<2 nx342: networkx>=3.4.2,<4 nltk391: nltk>=3.9.1,<4 np224: numpy>=2.2.4 - oai110: openai>=1.1.0 + oai234: openai>=2.34.0 pd223: pandas>=2.2.3,<3 pw149: playwright>=1.49.0,<1.52 pj5168: pyjson5>=1.6.8,<2 rich1394: rich>=13.9.4,<14 + toml0102: toml>=0.10.2,<0.11 pytest>=8.0 extras = test @@ -32,15 +35,18 @@ usedevelop = True description = minimum supported versions deps= click~=8.1.7 + crawl4ai~=0.6.3 + docling~=2.90.0 langchain-text-splitters~=1.0.0 networkx~=3.4.2 nltk~=3.9.1 numpy>=2.2.4 - openai~=1.1.0 + openai~=2.34.0 pandas~=2.2.3 playwright~=1.49.0 pyjson5~=1.6.8 rich~=13.9.4 + toml~=0.10.2 pytest>=8.0 [testenv:latest]