From 392801996eda2d3fc0e4c0de98c71cc8236ce39e Mon Sep 17 00:00:00 2001 From: Steven Gerrits Date: Tue, 17 Dec 2024 18:46:38 +0000 Subject: [PATCH 1/2] dec-r3 --- .../observations/tasks/observation_sync.py | 2 +- vespadb/observations/views.py | 302 ++++++++++-------- 2 files changed, 175 insertions(+), 129 deletions(-) diff --git a/vespadb/observations/tasks/observation_sync.py b/vespadb/observations/tasks/observation_sync.py index 332e632..e234ea2 100644 --- a/vespadb/observations/tasks/observation_sync.py +++ b/vespadb/observations/tasks/observation_sync.py @@ -325,4 +325,4 @@ def fetch_and_update_observations(self: Task, since_week: int | None = None, dat logger.info("Finished processing observations") manage_observations_visibility(token) - logger.info("Finished managing observations visibility") \ No newline at end of file + logger.info("Finished managing observations visibility") diff --git a/vespadb/observations/views.py b/vespadb/observations/views.py index 7246067..a0d5cf7 100644 --- a/vespadb/observations/views.py +++ b/vespadb/observations/views.py @@ -1,14 +1,18 @@ """Views for the observations app.""" - -import csv import datetime import io import json -import time import logging -import csv import json -from typing import TYPE_CHECKING, Any, Generator, Any, Union +import csv +from typing import TYPE_CHECKING, Any, Any, Union, TextIO, Union, List, Set, Optional +from _csv import _writer +import datetime +import tempfile +import os +import logging +from tenacity import retry, stop_after_attempt, wait_exponential + from django.http import FileResponse import os import tempfile @@ -631,25 +635,99 @@ def save_observations(self, valid_data: list[dict[str, Any]]) -> Response: {"error": f"An error occurred during bulk import: {e!s}"}, status=status.HTTP_500_INTERNAL_SERVER_ERROR ) - @swagger_auto_schema( - method="get", - manual_parameters=[ - openapi.Parameter( - "export_format", - in_=openapi.IN_QUERY, - description="Format of the exported data", - type=openapi.TYPE_STRING, - enum=["csv"], - default="csv", - ), - ], + @retry( + stop=stop_after_attempt(3), + wait=wait_exponential(multiplier=1, min=4, max=10), + retry_error_callback=lambda retry_state: None ) + def write_batch_to_file( + self, + writer: '_writer', # Explicitly type the csv writer + batch: List[Observation], + is_admin: bool, + user_municipality_ids: Set[str] + ) -> int: + """ + Write a batch of observations to the CSV file with retry logic. + Returns number of successfully written records. + """ + successful_writes = 0 + for observation in batch: + try: + row_data = self._prepare_row_data(observation, is_admin, user_municipality_ids) + writer.writerow(row_data) + successful_writes += 1 + except Exception as e: + logger.error(f"Error processing observation {observation.id}: {str(e)}") + continue + return successful_writes + + def _prepare_row_data( + self, + observation: Observation, + is_admin: bool, + user_municipality_ids: set[str] + ) -> list[str]: + """ + Prepare a single row of data for the CSV export with error handling. + """ + try: + # Determine allowed fields based on permissions + if is_admin or (observation.municipality_id in user_municipality_ids): + allowed_fields = user_read_fields + else: + allowed_fields = public_read_fields + + allowed_fields.extend(["source_id", "latitude", "longitude", "anb_domain", "nest_status"]) + + row_data = [] + for field in CSV_HEADERS: + try: + if field not in allowed_fields: + row_data.append("") + continue + + if field == "latitude": + row_data.append(str(observation.location.y) if observation.location else "") + elif field == "longitude": + row_data.append(str(observation.location.x) if observation.location else "") + elif field in ["created_datetime", "modified_datetime", "observation_datetime"]: + datetime_val = getattr(observation, field, None) + if datetime_val: + datetime_val = datetime_val.replace(microsecond=0) + row_data.append(datetime_val.isoformat() + "Z") + else: + row_data.append("") + elif field == "province": + row_data.append(observation.province.name if observation.province else "") + elif field == "municipality": + row_data.append(observation.municipality.name if observation.municipality else "") + elif field == "anb_domain": + row_data.append(str(observation.anb)) + elif field == "nest_status": + row_data.append(self.get_status(observation)) + elif field == "source_id": + row_data.append(str(observation.source_id) if observation.source_id is not None else "") + else: + value = getattr(observation, field, "") + row_data.append(str(value) if value is not None else "") + except Exception as e: + logger.warning(f"Error processing field {field} for observation {observation.id}: {str(e)}") + row_data.append("") + + return row_data + except Exception as e: + logger.error(f"Error preparing row data for observation {observation.id}: {str(e)}") + return [""] * len(CSV_HEADERS) # Return empty row in case of error + + @method_decorator(ratelimit(key="ip", rate="60/m", method="GET", block=True)) @action(detail=False, methods=["get"], permission_classes=[AllowAny]) - def export(self, request: HttpRequest) -> FileResponse: + def export(self, request: HttpRequest) -> Union[FileResponse, JsonResponse]: """ - Export observations as CSV using batch processing. + Export observations as CSV using batch processing with improved error handling. """ + temp_file = None try: # Validate export format if request.query_params.get("export_format", "csv").lower() != "csv": @@ -663,119 +741,94 @@ def export(self, request: HttpRequest) -> FileResponse: user_municipality_ids = set() is_admin = False - # Get filtered queryset - queryset = self.filter_queryset(self.get_queryset()) - # Create temporary file - with tempfile.NamedTemporaryFile(mode='w+', newline='', delete=False, suffix='.csv') as temp_file: - writer = csv.writer(temp_file) - - # Write headers - writer.writerow(CSV_HEADERS) - - # Process in batches - total_processed = 0 - while True: - # Get batch of observations - batch = queryset[total_processed:total_processed + BATCH_SIZE] - if not batch: - break + temp_file = tempfile.NamedTemporaryFile(mode='w+', newline='', delete=False, suffix='.csv') + writer = csv.writer(temp_file) + writer.writerow(CSV_HEADERS) + + # Get filtered queryset with timeout protection + total_count = None + try: + with transaction.atomic(), connection.cursor() as cursor: + cursor.execute('SET statement_timeout TO 30000') # 30 seconds timeout + queryset = self.filter_queryset(self.get_queryset()) + total_count = queryset.count() + except Exception as e: + logger.error(f"Error getting total count: {str(e)}") + # Continue with None total_count + + # Process in batches with progress tracking + total_processed = 0 + successful_records = 0 + offset = 0 + batch_size = 1000 + + while True: + try: + # Get batch with timeout protection + with transaction.atomic(), connection.cursor() as cursor: + cursor.execute('SET statement_timeout TO 30000') + batch = list(queryset[offset:offset + batch_size]) + if not batch: # No more records + break - # Process each observation in the batch - for observation in batch: - row_data = self._prepare_row_data( - observation, - is_admin, - user_municipality_ids - ) - writer.writerow(row_data) + # Process batch with retry logic + successful_writes = self.write_batch_to_file(writer, batch, is_admin, user_municipality_ids) + successful_records += successful_writes - total_processed += len(batch) - logger.info(f"Processed {total_processed} observations") - - # Create response with the temporary file - response = FileResponse( - open(temp_file.name, 'rb'), - content_type='text/csv', - as_attachment=True, - filename=f"observations_export_{datetime.datetime.now().strftime('%Y%m%d_%H%M%S')}.csv" - ) - - # Delete the temporary file after it's sent - response.close = lambda: os.unlink(temp_file.name) + batch_count = len(batch) + total_processed += batch_count + offset += batch_size + + # Log progress if we know the total + if total_count: + progress = (total_processed / total_count) * 100 + logger.info(f"Export progress: {progress:.1f}% ({total_processed}/{total_count})") + else: + logger.info(f"Processed {total_processed} records") + + except Exception as e: + logger.error(f"Error processing batch at offset {offset}: {str(e)}") + offset += batch_size # Skip problematic batch + continue + + # Ensure all data is written + temp_file.flush() - return response + # Create response + try: + response = FileResponse( + open(temp_file.name, 'rb'), + content_type='text/csv', + as_attachment=True, + filename=f"observations_export_{datetime.datetime.now().strftime('%Y%m%d_%H%M%S')}.csv" + ) + + # Log export statistics + if total_count: + logger.info(f"Export completed: {successful_records} successful records out of {total_count} total") + else: + logger.info(f"Export completed: {successful_records} successful records") + + # Clean up temp file after sending + response.close = lambda: os.unlink(temp_file.name) + return response + + except Exception as e: + logger.exception("Error creating response") + if temp_file and os.path.exists(temp_file.name): + os.unlink(temp_file.name) + return JsonResponse({"error": "Error creating export file"}, status=500) except Exception as e: logger.exception("Export failed") + # Clean up temp file in case of error + if temp_file and os.path.exists(temp_file.name): + os.unlink(temp_file.name) return JsonResponse( {"error": "Export failed. Please try again or contact support."}, status=500 ) - def _prepare_row_data( - self, - observation: Observation, - is_admin: bool, - user_municipality_ids: set[str] - ) -> list[str]: - """ - Prepare a single row of data for the CSV export. - """ - # Determine allowed fields based on permissions - if is_admin or (observation.municipality_id in user_municipality_ids): - allowed_fields = user_read_fields - else: - allowed_fields = public_read_fields - - # Add essential fields - allowed_fields.extend(["source_id", "latitude", "longitude", "anb_domain", "nest_status"]) - - row_data = [] - for field in CSV_HEADERS: - if field not in allowed_fields: - row_data.append("") - continue - - # Handle special fields - if field == "latitude": - row_data.append(str(observation.location.y) if observation.location else "") - elif field == "longitude": - row_data.append(str(observation.location.x) if observation.location else "") - elif field in ["created_datetime", "modified_datetime", "observation_datetime"]: - datetime_val = getattr(observation, field, None) - if datetime_val: - datetime_val = datetime_val.replace(microsecond=0) - row_data.append(datetime_val.isoformat() + "Z") - else: - row_data.append("") - elif field == "province": - row_data.append(observation.province.name if observation.province else "") - elif field == "municipality": - row_data.append(observation.municipality.name if observation.municipality else "") - elif field == "anb_domain": - row_data.append(str(observation.anb)) - elif field == "nest_status": - row_data.append(self.get_status(observation)) - elif field == "source_id": - row_data.append(str(observation.source_id) if observation.source_id is not None else "") - else: - value = getattr(observation, field, "") - row_data.append(str(value) if value is not None else "") - - return row_data - - - def parse_location(self, srid_str: str) -> tuple[float, float]: - """ - Parse SRID string to extract latitude and longitude. - """ - # Convert the SRID location string to GEOSGeometry - geom = GEOSGeometry(srid_str) - - # Extract latitude and longitude - longitude = geom.x - latitude = geom.y - return latitude, longitude def get_status(self, observation: Observation) -> str: """Determine observation status based on eradication data.""" @@ -786,13 +839,6 @@ def get_status(self, observation: Observation) -> str: return "reserved" return "untreated" - def _csv_line(self, row: list[str]) -> bytes: - """Convert a list of strings to a CSV-compatible line in bytes.""" - buffer = io.StringIO() - writer = csv.writer(buffer) - writer.writerow(row) - return buffer.getvalue().encode("utf-8") - @require_GET def search_address(request: Request) -> JsonResponse: """ From f279fec03880e60f41b312e6edccdb2f7711b10c Mon Sep 17 00:00:00 2001 From: Steven Gerrits Date: Tue, 17 Dec 2024 19:15:34 +0000 Subject: [PATCH 2/2] dec-r3 --- poetry.lock | 769 ++++++++++++++++++---------------- pyproject.toml | 1 + vespadb/observations/views.py | 3 +- 3 files changed, 400 insertions(+), 373 deletions(-) diff --git a/poetry.lock b/poetry.lock index ae63ff6..f403b7d 100644 --- a/poetry.lock +++ b/poetry.lock @@ -2,13 +2,13 @@ [[package]] name = "amqp" -version = "5.2.0" +version = "5.3.1" description = "Low-level AMQP client for Python (fork of amqplib)." optional = false python-versions = ">=3.6" files = [ - {file = "amqp-5.2.0-py3-none-any.whl", hash = "sha256:827cb12fb0baa892aad844fd95258143bce4027fdac4fccddbc43330fd281637"}, - {file = "amqp-5.2.0.tar.gz", hash = "sha256:a1ecff425ad063ad42a486c902807d1482311481c8ad95a72694b2975e75f7fd"}, + {file = "amqp-5.3.1-py3-none-any.whl", hash = "sha256:43b3319e1b4e7d1251833a93d672b4af1e40f3d632d479b98661a95f117880a2"}, + {file = "amqp-5.3.1.tar.gz", hash = "sha256:cddc00c725449522023bad949f70fff7b48f0b1ade74d170a6f10ab044739432"}, ] [package.dependencies] @@ -41,37 +41,34 @@ tests = ["mypy (>=0.800)", "pytest", "pytest-asyncio"] [[package]] name = "asttokens" -version = "2.4.1" +version = "3.0.0" description = "Annotate AST trees with source code positions" optional = false -python-versions = "*" +python-versions = ">=3.8" files = [ - {file = "asttokens-2.4.1-py2.py3-none-any.whl", hash = "sha256:051ed49c3dcae8913ea7cd08e46a606dba30b79993209636c4875bc1d637bc24"}, - {file = "asttokens-2.4.1.tar.gz", hash = "sha256:b03869718ba9a6eb027e134bfdf69f38a236d681c83c160d510768af11254ba0"}, + {file = "asttokens-3.0.0-py3-none-any.whl", hash = "sha256:e3078351a059199dd5138cb1c706e6430c05eff2ff136af5eb4790f9d28932e2"}, + {file = "asttokens-3.0.0.tar.gz", hash = "sha256:0dcd8baa8d62b0c1d118b399b2ddba3c4aff271d0d7a9e0d4c1681c79035bbc7"}, ] -[package.dependencies] -six = ">=1.12.0" - [package.extras] -astroid = ["astroid (>=1,<2)", "astroid (>=2,<4)"] -test = ["astroid (>=1,<2)", "astroid (>=2,<4)", "pytest"] +astroid = ["astroid (>=2,<4)"] +test = ["astroid (>=2,<4)", "pytest", "pytest-cov", "pytest-xdist"] [[package]] name = "attrs" -version = "24.2.0" +version = "24.3.0" description = 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"pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"] +dev = ["cloudpickle", "hypothesis", "mypy (>=1.11.1)", "pre-commit-uv", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"] docs = ["cogapp", "furo", "myst-parser", "sphinx", "sphinx-notfound-page", "sphinxcontrib-towncrier", "towncrier (<24.7)"] tests = ["cloudpickle", "hypothesis", "mypy (>=1.11.1)", "pympler", "pytest (>=4.3.0)", "pytest-mypy-plugins", "pytest-xdist[psutil]"] tests-mypy = ["mypy (>=1.11.1)", "pytest-mypy-plugins"] @@ -103,17 +100,17 @@ files = [ [[package]] name = "boto3" -version = "1.35.47" +version = "1.35.82" description = "The AWS SDK for Python" optional = false python-versions = ">=3.8" files = [ - {file = "boto3-1.35.47-py3-none-any.whl", hash = "sha256:0b307f685875e9c7857ce21c0d3050d8d4f3778455a6852d5f98ac75194b400e"}, - {file = "boto3-1.35.47.tar.gz", hash = "sha256:65b808e4cf1af8c2f405382d53656a0d92eee8f85c7388c43d64c7a5571b065f"}, + {file = 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