diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index 0c1fbd1378..1c2bbe2dae 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -10,10 +10,10 @@ jobs: working-directory: ./backend steps: - uses: actions/checkout@v4 - - name: Set up Python 3.8 + - name: Set up Python 3.10 uses: actions/setup-python@v5 with: - python-version: 3.8 + python-version: '3.10' - name: Install dependencies run: | python -m pip install --upgrade pip diff --git a/.github/workflows/pypi-publish.yml b/.github/workflows/pypi-publish.yml index 8b26ab0afc..4e37362f84 100644 --- a/.github/workflows/pypi-publish.yml +++ b/.github/workflows/pypi-publish.yml @@ -7,7 +7,11 @@ on: jobs: deploy: runs-on: ubuntu-latest - + environment: + name: pypi + url: https://pypi.org/p/doccano + permissions: + id-token: write steps: - uses: actions/checkout@v4 - name: Preparation @@ -27,10 +31,10 @@ jobs: working-directory: ./frontend env: PUBLIC_PATH: '/static/_nuxt/' - - name: Setup Python 3.8 + - name: Setup Python 3.10 uses: actions/setup-python@v5 with: - python-version: 3.8 + python-version: '3.10' - name: Install dependencies run: | python -m pip install --upgrade pip @@ -46,8 +50,7 @@ jobs: sed -e "s/, from = \"..\"//g" backend/pyproject.toml > pyproject.toml poetry build - name: Publish a Python distribution to PyPI - uses: pypa/gh-action-pypi-publish@master + uses: pypa/gh-action-pypi-publish@release/v1 with: - user: ${{ secrets.PYPI_USERNAME }} - password: ${{ secrets.PYPI_PASSWORD }} + password: ${{ secrets.TEST_PYPI_API_TOKEN }} packages_dir: ./dist/ diff --git a/.github/workflows/test-installation.yml b/.github/workflows/test-installation.yml index 48ee51f818..76e36e2335 100644 --- a/.github/workflows/test-installation.yml +++ b/.github/workflows/test-installation.yml @@ -10,7 +10,7 @@ jobs: strategy: matrix: os: [macos-latest, ubuntu-latest, windows-latest] - python-version: ['3.8', '3.9', '3.10'] + python-version: ['3.10', '3.11', '3.12'] steps: - name: Set up Python uses: actions/setup-python@v5 diff --git a/LICENSE b/LICENSE index 12d0eb425b..d9a2c1a8f8 100644 --- a/LICENSE +++ b/LICENSE @@ -1,6 +1,6 @@ MIT License -Copyright (c) 2018 TIS inc. +Copyright (c) 2018 Hiroki Nakayama Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal diff --git a/README.md b/README.md index 6322e31aa1..c3c1250c5c 100644 --- a/README.md +++ b/README.md @@ -226,7 +226,31 @@ Doing this in us-east-1 - Virginia and used the base name `doccano`, so for inst ### Populate Secrets needed by the EC2 - add useful secrets to secrets manager: - quay_io_creds (quay.io login creds) - - doccano_creds (all the information needed in the .env file, mostly doccano and DB credentials) + ``` + { + "user":"", + "password":"" + } + ``` + - doccano_creds + ``` + { + "ADMIN_PASSWORD":"", + "RABBITMQ_DEFAULT_PASS":"", + "POSTGRES_PASSWORD":"", + "FLOWER_BASIC_AUTH":"", + "POSTGRES_HOST":"" + } + ``` + - gearbox_creds + ``` + { + "FENCE_CLIENT_ID":"", + "FENCE_CLIENT_SECRET":"", + "FENCE_TOKEN_URL":"https://gearbox-dev.pedscommons.org/user/oauth2/token?grant_type=client_credentials&scope=openid", + "GEARBOX_RAW_CRITERIA_URL":"https://gearbox-dev.pedscommons.org/gearbox/raw-criteria" + } + ``` ### Create VPC Select the following options: @@ -282,8 +306,9 @@ Select the following options: - click on create ### Add instance/s to the target group -and add the ec2 created previously - - For some reason if the instance is only internal it will now turn healthy in the target group. You can just attach a public IP, wait 2/3 minutes for it to turn healthy and then you can remove the elastic IP. That seems to be solving the issue. (TRY added ALB's security group on port 80 in EC2's security group. By doing this, the issue will be resolved.) +- add the ec2 created previously + - Make sure the ALB's security group is added on port 80 in EC2's security group. +- wait for it to be healthy. ### Update SSL Cert and listeners - get a cert from certificate manager for the ALB @@ -292,7 +317,7 @@ and add the ec2 created previously - add listener to listen to 80 and redirect (redirect to url) 301 to 443 - Redirect to HTTPS://#{host}:443/#{path}?#{query} ### Deploy new version -- Update the ec2_user_data.sh file with the new tag +- Update the docker-compose.prod.yml file with the new tag/s and make sure all the changes are on pcdc_dev branch (this is the branch used in the ec2 user data to start the app, we may want to update that to master for stability and use pcdc_dev for testing TODO) - Repeat the step `Create EC2 instance` - Repeat the step `Add instance/s to the target group` - Remove old instance from the target group diff --git a/backend/api/gearbox_client.py b/backend/api/gearbox_client.py new file mode 100644 index 0000000000..adbd0d1fe8 --- /dev/null +++ b/backend/api/gearbox_client.py @@ -0,0 +1,41 @@ +import io +import zipfile +import logging + +import requests +from django.conf import settings + +logger = logging.getLogger(__name__) + + +def get_access_token(): + response = requests.post( + settings.FENCE_TOKEN_URL, + data={"grant_type": "client_credentials", "scope": "openid user"}, + auth=(settings.FENCE_CLIENT_ID, settings.FENCE_CLIENT_SECRET), + timeout=30, + ) + response.raise_for_status() + return response.json()["access_token"] + + +def submit_to_gearbox(jsonl_content: bytes, filename: str = "annotations.jsonl"): + token = get_access_token() + + zip_buffer = io.BytesIO() + with zipfile.ZipFile(zip_buffer, "w", zipfile.ZIP_DEFLATED) as zf: + zf.writestr(filename, jsonl_content) + zip_buffer.seek(0) + + response = requests.post( + settings.GEARBOX_RAW_CRITERIA_URL, + headers={"Authorization": f"Bearer {token}"}, + files={"file": ("annotations.zip", zip_buffer, "application/zip")}, + timeout=30, + ) + try: + response.raise_for_status() + except requests.exceptions.HTTPError as e: + logger.error("Gearbox returned %s: %s", e.response.status_code, e.response.text[:500]) + raise + return response diff --git a/backend/api/urls.py b/backend/api/urls.py index ee260b1b74..ba5595afc3 100644 --- a/backend/api/urls.py +++ b/backend/api/urls.py @@ -3,5 +3,5 @@ from .views import TaskStatus urlpatterns = [ - path(route="tasks/status/", view=TaskStatus.as_view(), name="task_status"), + path(route="tasks/status/", view=TaskStatus.as_view(), name="task_status"), ] diff --git a/backend/config/settings/base.py b/backend/config/settings/base.py index 3048c5528a..b4f887fbbe 100644 --- a/backend/config/settings/base.py +++ b/backend/config/settings/base.py @@ -293,3 +293,8 @@ } SITE_ID = 1 + +FENCE_CLIENT_ID = env("FENCE_CLIENT_ID", "") +FENCE_CLIENT_SECRET = env("FENCE_CLIENT_SECRET", "") +FENCE_TOKEN_URL = env("FENCE_TOKEN_URL", "") +GEARBOX_RAW_CRITERIA_URL = env("GEARBOX_RAW_CRITERIA_URL", "") diff --git a/backend/examples/assignment/strategies.py b/backend/examples/assignment/strategies.py index f1eb85d518..11e76efaa6 100644 --- a/backend/examples/assignment/strategies.py +++ b/backend/examples/assignment/strategies.py @@ -32,8 +32,7 @@ def create_assignment_strategy(strategy_name: StrategyName, dataset_size: int, w class BaseStrategy(abc.ABC): @abc.abstractmethod - def assign(self) -> List[Assignment]: - ... + def assign(self) -> List[Assignment]: ... class WeightedSequentialStrategy(BaseStrategy): diff --git a/backend/examples/celery_tasks.py b/backend/examples/celery_tasks.py new file mode 100644 index 0000000000..2392e22f3e --- /dev/null +++ b/backend/examples/celery_tasks.py @@ -0,0 +1,106 @@ +import json +import tempfile + +import requests +from celery import shared_task +from celery.utils.log import get_task_logger +from django.shortcuts import get_object_or_404 + +from api.gearbox_client import submit_to_gearbox +from data_export.models import ExportedExample +from data_export.pipeline.dataset import Dataset +from data_export.pipeline.factories import ( + create_comment, + create_formatter, + create_labels, + create_writer, +) +from data_export.pipeline.services import ExportApplicationService +from examples.models import Example +from projects.models import Project + +logger = get_task_logger(__name__) + + +def _transform_to_gearbox_format(jsonl_bytes: bytes) -> bytes: + """Convert doccano JSONL export format to gearbox RawCriteriaIn format. + + Doccano exports label as [[start, end, name, meta], ...]. + Gearbox expects entities as [{"start_offset":..., "end_offset":..., "label":..., "meta":...}] + and pre_annotated as [{"span":[start,end,name], "matched_models":[...], "is_standard_gb_var":...}]. + """ + lines = jsonl_bytes.decode("utf-8").strip().split("\n") + out = [] + for line in lines: + if not line.strip(): + continue + obj = json.loads(line) + raw_labels = obj.pop("label", []) + entities = [] + pre_annotated = [] + for entry in raw_labels: + if len(entry) < 3: + logger.warning("Skipping malformed label entry for example: %s", entry) + continue + start_offset, end_offset, label_name = entry[0], entry[1], entry[2] + meta = entry[3] if len(entry) > 3 else {} + entities.append( + { + "start_offset": start_offset, + "end_offset": end_offset, + "label": label_name, + "meta": meta, + } + ) + pre_annotated.append( + { + "span": [start_offset, end_offset, label_name], + "matched_models": meta.get("matched_models"), + "is_standard_gb_var": meta.get("is_standard_gb_var"), + } + ) + obj["entities"] = entities + obj["pre_annotated"] = pre_annotated + out.append(json.dumps(obj)) + return "\n".join(out).encode("utf-8") + + +@shared_task( + bind=True, + autoretry_for=(requests.exceptions.RequestException,), + retry_backoff=True, + max_retries=5, +) +def submit_example_to_gearbox(self, example_id, project_id): + example = get_object_or_404(Example, pk=example_id) + project = get_object_or_404(Project, pk=project_id) + examples = ExportedExample.objects.filter(pk=example.pk) + labels = create_labels(project, examples) + comments = create_comment(examples) + dataset = Dataset(examples, labels, comments, project.is_text_project) + formatters = create_formatter(project, "JSONL") + writer = create_writer("JSONL") + + service = ExportApplicationService(dataset, formatters, writer) + with tempfile.NamedTemporaryFile(suffix=".jsonl") as tmp: + service.export(tmp.name) + tmp.seek(0) + jsonl_bytes = tmp.read() + + try: + jsonl_bytes = _transform_to_gearbox_format(jsonl_bytes) + submit_to_gearbox(jsonl_bytes, filename=f"example_{example.pk}.jsonl") + except requests.exceptions.RequestException: + if self.request.retries == self.max_retries: + example.gearbox_status = "failed" + example.save(update_fields=["gearbox_status"]) + raise + except Exception: + example.gearbox_status = "failed" + example.save(update_fields=["gearbox_status"]) + logger.exception("Unexpected error submitting example %s to gearbox", example.pk) + raise + + example.gearbox_status = "success" + example.save(update_fields=["gearbox_status"]) + logger.info("Successfully submitted example %s to gearbox", example.pk) diff --git a/backend/examples/migrations/0009_example_gearbox_status.py b/backend/examples/migrations/0009_example_gearbox_status.py new file mode 100644 index 0000000000..03b90ba37f --- /dev/null +++ b/backend/examples/migrations/0009_example_gearbox_status.py @@ -0,0 +1,16 @@ +from django.db import migrations, models + + +class Migration(migrations.Migration): + + dependencies = [ + ("examples", "0008_assignment"), + ] + + operations = [ + migrations.AddField( + model_name="example", + name="gearbox_status", + field=models.CharField(blank=True, max_length=20, null=True), + ), + ] diff --git a/backend/examples/models.py b/backend/examples/models.py index b7fa2e0914..4b3ce48434 100644 --- a/backend/examples/models.py +++ b/backend/examples/models.py @@ -20,6 +20,7 @@ class Example(models.Model): annotations_approved_by = models.ForeignKey(to=User, on_delete=models.SET_NULL, null=True, blank=True) text = models.TextField(null=True, blank=True) score = models.FloatField(default=100) + gearbox_status = models.CharField(max_length=20, null=True, blank=True) created_at = models.DateTimeField(auto_now_add=True, db_index=True) updated_at = models.DateTimeField(auto_now=True) diff --git a/backend/examples/views/example_state.py b/backend/examples/views/example_state.py index 369ae2209d..43448184c4 100644 --- a/backend/examples/views/example_state.py +++ b/backend/examples/views/example_state.py @@ -2,6 +2,7 @@ from rest_framework import generics from rest_framework.permissions import IsAuthenticated +from examples.celery_tasks import submit_example_to_gearbox from examples.models import Example, ExampleState from examples.serializers import ExampleStateSerializer from projects.models import Project @@ -27,6 +28,12 @@ def perform_create(self, serializer): queryset = self.get_queryset() if queryset.exists(): queryset.delete() + example = get_object_or_404(Example, pk=self.kwargs["example_id"]) + example.gearbox_status = None + example.save(update_fields=["gearbox_status"]) else: example = get_object_or_404(Example, pk=self.kwargs["example_id"]) + example.gearbox_status = "pending" + example.save(update_fields=["gearbox_status"]) serializer.save(example=example, confirmed_by=self.request.user) + submit_example_to_gearbox.delay(example.pk, self.kwargs["project_id"]) diff --git a/backend/labels/managers.py b/backend/labels/managers.py index 6d7540c7ae..ac48566d9b 100644 --- a/backend/labels/managers.py +++ b/backend/labels/managers.py @@ -29,7 +29,9 @@ def calc_label_distribution(self, examples, members, labels): username = item["user__username"] label = item[f"{self.label_type_field}__text"] count = item["count"] - distribution[username][label] = count + # Skip users who are no longer members of the project + if username in distribution: + distribution[username][label] = count return distribution def get_labels(self, label, project): diff --git a/backend/metrics/tests.py b/backend/metrics/tests.py index d64777a083..78c0108992 100644 --- a/backend/metrics/tests.py +++ b/backend/metrics/tests.py @@ -5,7 +5,7 @@ from api.tests.utils import CRUDMixin from examples.tests.utils import make_doc from label_types.tests.utils import make_label -from projects.models import ProjectType +from projects.models import Member, ProjectType from projects.tests.utils import prepare_project @@ -78,3 +78,17 @@ def test_fetch_distribution(self): expected = {member.username: {self.label.text: 0} for member in self.project.members} expected[self.project.admin.username][self.label.text] = 1 self.assertEqual(response.data, expected) + + def test_fetch_distribution_with_removed_user(self): + # Create a category by annotator + mommy.make("Category", example=self.example, label=self.label, user=self.project.annotator) + # Remove the annotator from the project + Member.objects.filter(user=self.project.annotator, project=self.project.item).delete() + # Should not raise KeyError + response = self.assert_fetch(self.project.admin, status.HTTP_200_OK) + # The response should only include current members (after removal) + current_members = Member.objects.filter(project=self.project.item).select_related("user") + expected = {member.user.username: {self.label.text: 0} for member in current_members} + expected[self.project.admin.username][self.label.text] = 1 + # The removed user's annotations should not be in the distribution + self.assertEqual(response.data, expected) diff --git a/backend/poetry.lock b/backend/poetry.lock index c915d39737..58bbc38d8b 100644 --- a/backend/poetry.lock +++ b/backend/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. +# This file is automatically @generated by Poetry 2.4.1 and should not be changed by hand. [[package]] name = "amqp" @@ -6,6 +6,7 @@ version = "5.3.1" description = "Low-level AMQP client for Python (fork of amqplib)." optional = false python-versions = ">=3.6" +groups = ["main"] files = [ {file = "amqp-5.3.1-py3-none-any.whl", hash = "sha256:43b3319e1b4e7d1251833a93d672b4af1e40f3d632d479b98661a95f117880a2"}, {file = "amqp-5.3.1.tar.gz", hash = "sha256:cddc00c725449522023bad949f70fff7b48f0b1ade74d170a6f10ab044739432"}, @@ -20,30 +21,29 @@ version = "0.7.0" description = "Reusable constraint types to use with typing.Annotated" optional = false python-versions = ">=3.8" +groups = ["main"] files = [ {file = "annotated_types-0.7.0-py3-none-any.whl", hash = "sha256:1f02e8b43a8fbbc3f3e0d4f0f4bfc8131bcb4eebe8849b8e5c773f3a1c582a53"}, {file = "annotated_types-0.7.0.tar.gz", hash = "sha256:aff07c09a53a08bc8cfccb9c85b05f1aa9a2a6f23728d790723543408344ce89"}, ] -[package.dependencies] -typing-extensions = {version = ">=4.0.0", markers = "python_version < \"3.9\""} - [[package]] name = "asgiref" -version = "3.8.1" +version = "3.11.1" description = "ASGI specs, helper code, and adapters" optional = false -python-versions = ">=3.8" +python-versions = ">=3.9" +groups = ["main", "dev"] files = [ - {file = "asgiref-3.8.1-py3-none-any.whl", hash = "sha256:3e1e3ecc849832fe52ccf2cb6686b7a55f82bb1d6aee72a58826471390335e47"}, - {file = "asgiref-3.8.1.tar.gz", hash = "sha256:c343bd80a0bec947a9860adb4c432ffa7db769836c64238fc34bdc3fec84d590"}, + {file = "asgiref-3.11.1-py3-none-any.whl", hash = "sha256:e8667a091e69529631969fd45dc268fa79b99c92c5fcdda727757e52146ec133"}, + {file = "asgiref-3.11.1.tar.gz", hash = "sha256:5f184dc43b7e763efe848065441eac62229c9f7b0475f41f80e207a114eda4ce"}, ] [package.dependencies] -typing-extensions = {version = ">=4", markers = "python_version < \"3.11\""} +typing_extensions = {version = ">=4", markers = "python_version < \"3.11\""} [package.extras] -tests = ["mypy (>=0.800)", "pytest", "pytest-asyncio"] +tests = ["mypy (>=1.14.0)", "pytest", "pytest-asyncio"] [[package]] name = "auto-labeling-pipeline" @@ -51,6 +51,7 @@ version = "0.1.23" description = "Auto labeling pipeline for doccano" optional = false python-versions = "*" +groups = ["main"] files = [ {file = "auto-labeling-pipeline-0.1.23.tar.gz", hash = "sha256:8a0f15e275bda0c1f5cadd24bb58ba447f5593b38eb4eee6d18d420eca2c944c"}, {file = "auto_labeling_pipeline-0.1.23-py3-none-any.whl", hash = "sha256:5760be304c87440f62ef73e3420a8b3ac4cae6e07a63230115c7b90408ec3104"}, @@ -68,6 +69,7 @@ version = "1.6.0" description = "A tool that automatically formats Python code to conform to the PEP 8 style guide" optional = false python-versions = "*" +groups = ["dev"] files = [ {file = "autopep8-1.6.0-py2.py3-none-any.whl", hash = "sha256:ed77137193bbac52d029a52c59bec1b0629b5a186c495f1eb21b126ac466083f"}, {file = "autopep8-1.6.0.tar.gz", hash = "sha256:44f0932855039d2c15c4510d6df665e4730f2b8582704fa48f9c55bd3e17d979"}, @@ -78,280 +80,336 @@ pycodestyle = ">=2.8.0" toml = "*" 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"pytest", "pytest-cov"] [[package]] name = "watchdog" @@ -3015,6 +3968,7 @@ version = "2.3.1" description = "Filesystem events monitoring" optional = false python-versions = ">=3.6" +groups = ["dev"] files = [ {file = "watchdog-2.3.1-cp310-cp310-macosx_10_9_universal2.whl", hash = "sha256:d1f1200d4ec53b88bf04ab636f9133cb703eb19768a39351cee649de21a33697"}, {file = "watchdog-2.3.1-cp310-cp310-macosx_10_9_x86_64.whl", hash = "sha256:564e7739abd4bd348aeafbf71cc006b6c0ccda3160c7053c4a53b67d14091d42"}, @@ -3051,24 +4005,26 @@ watchmedo = ["PyYAML (>=3.10)"] [[package]] name = "wcwidth" -version = "0.2.13" +version = "0.8.2" description = "Measures the displayed width of unicode strings in a terminal" optional = false -python-versions = "*" +python-versions = ">=3.8" +groups = ["main"] files = [ - {file = "wcwidth-0.2.13-py2.py3-none-any.whl", hash = "sha256:3da69048e4540d84af32131829ff948f1e022c1c6bdb8d6102117aac784f6859"}, - {file = "wcwidth-0.2.13.tar.gz", hash = "sha256:72ea0c06399eb286d978fdedb6923a9eb47e1c486ce63e9b4e64fc18303972b5"}, + {file = "wcwidth-0.8.2-py3-none-any.whl", hash = "sha256:d63947694a0539a1d51e01eda7caf800c291020e6cdd7e28ad7b14dd33ad4f85"}, + {file = "wcwidth-0.8.2.tar.gz", hash = "sha256:91fbef97204b96a3d4d421609b80340b760cf33e26da123ff243d76b1fda8dda"}, ] [[package]] name = "whitenoise" -version = "6.7.0" +version = "6.12.0" description = "Radically simplified static file serving for WSGI applications" optional = false -python-versions = ">=3.8" +python-versions = ">=3.10" +groups = ["main"] files = [ - {file = "whitenoise-6.7.0-py3-none-any.whl", hash = "sha256:a1ae85e01fdc9815d12fa33f17765bc132ed2c54fa76daf9e39e879dd93566f6"}, - {file = "whitenoise-6.7.0.tar.gz", hash = "sha256:58c7a6cd811e275a6c91af22e96e87da0b1109e9a53bb7464116ef4c963bf636"}, + {file = "whitenoise-6.12.0-py3-none-any.whl", hash = "sha256:fc5e8c572e33ebf24795b47b6a7da8da3c00cff2349f5b04c02f28d0cc5a3cc2"}, + {file = "whitenoise-6.12.0.tar.gz", hash = "sha256:f723ebb76a112e98816ff80fcea0a6c9b8ecde835f8ddda25df7a30a3c2db6ad"}, ] [package.extras] @@ -3079,6 +4035,6 @@ mssql = [] postgresql = [] [metadata] -lock-version = "2.0" -python-versions = "^3.8" -content-hash = "1084038a5fe57560e60f37e8e42cecdfba57f915648299ade1187b61e67a4efa" +lock-version = "2.1" +python-versions = ">=3.10,<4.0" +content-hash = "7b08065e6e273f294b180d8512165416966ca8d92a294bf01b6aeccfef02c288" diff --git a/backend/pyproject.toml b/backend/pyproject.toml index e872abaf27..590e6fd233 100644 --- a/backend/pyproject.toml +++ b/backend/pyproject.toml @@ -1,6 +1,6 @@ [tool.poetry] name = "doccano" -version = "1.8.4" +version = "1.8.5" description = "doccano, text annotation tool for machine learning practitioners" authors = ["Hironsan "] license = "MIT" @@ -10,9 +10,9 @@ repository = "https://github.com/doccano/doccano" documentation = "https://doccano.github.io/doccano/" classifiers = [ "Programming Language :: Python", - "Programming Language :: Python :: 3.8", - "Programming Language :: Python :: 3.9", "Programming Language :: Python :: 3.10", + "Programming Language :: Python :: 3.11", + "Programming Language :: Python :: 3.12", ] packages = [ { include = "backend", from = ".." }, @@ -36,15 +36,12 @@ postgresql = ["psycopg2-binary"] doccano = 'backend.cli:main' [tool.poetry.dependencies] -python = "^3.8" +python = ">=3.10,<4.0" Django = "^4.1.7" -environs = "^9.5.0" furl = "^2.1.3" djangorestframework = "^3.14.0" django-filter = "^22.1" -django-polymorphic = "^3.1.0" django-cors-headers = "^3.13.0" -drf-yasg = "^1.21.7" django-rest-polymorphic = "^0.1.9" chardet = "^4.0.0" pyexcel = "^0.7.0" @@ -59,17 +56,19 @@ django-drf-filepond = "^0.5.0" celery = "^5.2.3" django-celery-results = "2.4.0" SQLAlchemy = "^1.4.31" -waitress = "^2.0.0" django-health-check = "^3.16.5" djangorestframework-xml = "^2.0.0" django-storages = {extras = ["google"], version = "^1.13.1"} django-cleanup = "^6.0.0" filetype = "^1.0.10" -pandas = "^1.4.2" flower = "^1.2.0" django-allauth = "^0.52.0" pydantic = "^2.0.3" -urllib3 = "<1.27" +environs = "^14.5.0" +django-polymorphic = "^4.9.0" +drf-yasg = "^1.21.11" +pandas = "^2.3.3" +waitress = "^3.0.2" [tool.poetry.dev-dependencies] model-mommy = "^2.0.0" @@ -79,7 +78,6 @@ isort = {extras = ["pyproject"], version = "^5.10.1"} autopep8 = "^1.6.0" mypy = "^1.4.1" watchdog = "^2.1.6" -black = "^22.1.0" pyproject-flake8 = "^0.0.1-alpha.2" types-chardet = "^4.0.3" types-requests = "^2.27.10" @@ -87,6 +85,9 @@ types-waitress = "^2.0.6" taskipy = "^1.10.1" unittest-xml-reporting = "^3.2.0" +[tool.poetry.group.dev.dependencies] +black = "^25.12.0" + [build-system] requires = ["poetry-core>=1.0.0"] build-backend = "poetry.core.masonry.api" @@ -96,17 +97,17 @@ enable = false [tool.black] line-length = 120 -target-version = ['py37', 'py38'] +target-version = ['py310'] include = '\.pyi?$' [tool.flake8] max-line-length = 120 max-complexity = 18 -ignore = "E203,E266,W503," +ignore = "E203,E266,W503,E704" filename = "*.py" [tool.mypy] -python_version = "3.8" +python_version = "3.10" ignore_missing_imports = true show_error_codes = true exclude = [ diff --git a/docker/Dockerfile b/docker/Dockerfile index 7af6a40455..5aa5519406 100644 --- a/docker/Dockerfile +++ b/docker/Dockerfile @@ -1,4 +1,4 @@ -ARG PYTHON_VERSION="3.8.13-slim-bullseye" +ARG PYTHON_VERSION="3.10.19-slim-trixie" ARG NODE_VERSION="18.20-bullseye-slim" FROM node:${NODE_VERSION} AS frontend-builder @@ -19,12 +19,11 @@ FROM python:${PYTHON_VERSION} AS backend-builder # hadolint ignore=DL3008 RUN apt-get update \ && apt-get install -y --no-install-recommends \ - netcat=1.* \ - libpq-dev=13.* \ + libpq-dev=17.* \ unixodbc-dev=2.* \ g++=4:* \ - libssl-dev=1.* \ - curl \ + libssl-dev=3.* \ + curl=8.* \ && apt-get clean \ && rm -rf /var/lib/apt/lists/* @@ -32,8 +31,8 @@ WORKDIR /tmp COPY backend/pyproject.toml backend/poetry.lock /tmp/ SHELL ["/bin/bash", "-o", "pipefail", "-c"] -RUN pip install -U --no-cache-dir pip==22.2.2 \ - && curl -sSL https://install.python-poetry.org | python - \ +RUN pip install -U --no-cache-dir pip==25.3 \ + && curl -sSL https://install.python-poetry.org | POETRY_VERSION=1.5.1 python - \ && export PATH="/root/.local/bin:$PATH" \ && poetry export --without-hashes -o /requirements.txt \ && echo "psycopg2-binary==2.8.6" >> /requirements.txt \ @@ -44,9 +43,9 @@ FROM python:${PYTHON_VERSION} AS runtime RUN apt-get update \ && apt-get install -y --no-install-recommends \ - libpq-dev=13.* \ + libpq-dev=17.* \ unixodbc-dev=2.* \ - libssl-dev=1.* \ + libssl-dev=3.* \ && apt-get clean \ && rm -rf /var/lib/apt/lists/* @@ -54,7 +53,7 @@ RUN useradd -ms /bin/sh doccano RUN mkdir /data \ && chown doccano:doccano /data -COPY --from=backend-builder /usr/local/lib/python3.8/site-packages /usr/local/lib/python3.8/site-packages +COPY --from=backend-builder /usr/local/lib/python3.10/site-packages /usr/local/lib/python3.10/site-packages COPY --from=backend-builder /usr/local/bin/celery /usr/local/bin/celery COPY --from=backend-builder /usr/local/bin/gunicorn /usr/local/bin/gunicorn diff --git a/docker/Dockerfile.prod b/docker/Dockerfile.prod index 3b0ecaffb4..e4d72555c4 100644 --- a/docker/Dockerfile.prod +++ b/docker/Dockerfile.prod @@ -1,15 +1,14 @@ -ARG PYTHON_VERSION="3.8.13-slim-bullseye" +ARG PYTHON_VERSION="3.10.19-slim-trixie" FROM python:${PYTHON_VERSION} AS backend-builder # hadolint ignore=DL3008 RUN apt-get update \ && apt-get install -y --no-install-recommends \ - netcat=1.* \ - libpq-dev=13.* \ + libpq-dev=17.* \ unixodbc-dev=2.* \ g++=4:* \ - libssl-dev=1.* \ - curl \ + libssl-dev=3.* \ + curl=8.* \ && apt-get clean \ && rm -rf /var/lib/apt/lists/* @@ -17,14 +16,12 @@ WORKDIR /tmp COPY backend/pyproject.toml backend/poetry.lock /tmp/ SHELL ["/bin/bash", "-o", "pipefail", "-c"] -ENV POETRY_VERSION=1.8.4 -RUN pip install -U --no-cache-dir pip==22.2.2 -RUN curl -sSL https://install.python-poetry.org | python - || (echo "Poetry install failed" && find /tmp -name 'poetry-installer-error-*.log' -exec cat {} \;) -ENV PATH="/root/.local/bin:$PATH" -# RUN poetry self add poetry-plugin-export -RUN poetry export --without-hashes -o /requirements.txt -RUN echo "psycopg2-binary==2.8.6" >> /requirements.txt -RUN pip install --no-cache-dir -r /requirements.txt +RUN pip install -U --no-cache-dir pip==25.3 \ + && curl -sSL https://install.python-poetry.org | POETRY_VERSION=1.5.1 python - \ + && export PATH="/root/.local/bin:$PATH" \ + && poetry export --without-hashes -o /requirements.txt \ + && echo "psycopg2-binary==2.8.6" >> /requirements.txt \ + && pip install --no-cache-dir -r /requirements.txt FROM python:${PYTHON_VERSION} AS runtime @@ -32,16 +29,16 @@ WORKDIR /backend RUN apt-get update \ && apt-get install -y --no-install-recommends \ - libpq-dev=13.* \ + libpq-dev=17.* \ unixodbc-dev=2.* \ - libssl-dev=1.* \ + libssl-dev=3.* \ && apt-get clean \ && rm -rf /var/lib/apt/lists/* RUN groupadd -g 61000 doccano \ && useradd -g 61000 -l -M -s /bin/false -u 61000 doccano -COPY --from=backend-builder /usr/local/lib/python3.8/site-packages /usr/local/lib/python3.8/site-packages +COPY --from=backend-builder /usr/local/lib/python3.10/site-packages /usr/local/lib/python3.10/site-packages COPY --from=backend-builder /usr/local/bin/celery /usr/local/bin/celery COPY --from=backend-builder /usr/local/bin/gunicorn /usr/local/bin/gunicorn COPY --chown=doccano:doccano tools/ /opt/bin/ diff --git a/docker/docker-compose.prod.yml b/docker/docker-compose.prod.yml index 4891760d1c..95d152488a 100644 --- a/docker/docker-compose.prod.yml +++ b/docker/docker-compose.prod.yml @@ -2,7 +2,7 @@ version: "3.7" services: backend: - image: quay.io/pcdc/doccano:be_20250618 + image: quay.io/pcdc/doccano:be_20260701 volumes: - static_volume:/backend/staticfiles - media:/backend/media @@ -16,6 +16,10 @@ services: ALLOW_SIGNUP: "False" DEBUG: "False" DJANGO_SETTINGS_MODULE: "config.settings.production" + FENCE_CLIENT_ID: "${FENCE_CLIENT_ID}" + FENCE_CLIENT_SECRET: "${FENCE_CLIENT_SECRET}" + FENCE_TOKEN_URL: "${FENCE_TOKEN_URL}" + GEARBOX_RAW_CRITERIA_URL: "${GEARBOX_RAW_CRITERIA_URL}" depends_on: - postgres networks: @@ -23,7 +27,7 @@ services: - network-frontend celery: - image: quay.io/pcdc/doccano:be_20250618 + image: quay.io/pcdc/doccano:be_20260701 volumes: - media:/backend/media - tmp_file:/backend/filepond-temp-uploads @@ -33,6 +37,10 @@ services: CELERY_BROKER_URL: "amqp://${RABBITMQ_DEFAULT_USER}:${RABBITMQ_DEFAULT_PASS}@rabbitmq" DATABASE_URL: "postgres://${POSTGRES_USER}:${POSTGRES_PASSWORD}@${POSTGRES_HOST}:5432/${POSTGRES_DB}?sslmode=require" DJANGO_SETTINGS_MODULE: "config.settings.production" + FENCE_CLIENT_ID: "${FENCE_CLIENT_ID}" + FENCE_CLIENT_SECRET: "${FENCE_CLIENT_SECRET}" + FENCE_TOKEN_URL: "${FENCE_TOKEN_URL}" + GEARBOX_RAW_CRITERIA_URL: "${GEARBOX_RAW_CRITERIA_URL}" depends_on: - postgres - rabbitmq @@ -40,7 +48,7 @@ services: - network-backend flower: - image: quay.io/pcdc/doccano:be_20250618 + image: quay.io/pcdc/doccano:be_20260701 entrypoint: ["/opt/bin/prod-flower.sh"] environment: PYTHONUNBUFFERED: "1" @@ -67,7 +75,7 @@ services: - network-backend nginx: - image: quay.io/pcdc/doccano:fe_20250618 + image: quay.io/pcdc/doccano:fe_20260701 command: > /bin/sh -c "envsubst ' diff --git a/ec2_user_data.sh b/ec2_user_data.sh index 1416cdb3ae..73087a77cb 100644 --- a/ec2_user_data.sh +++ b/ec2_user_data.sh @@ -25,6 +25,14 @@ POSTGRES_HOST="$(echo $doccano_secrets | jq -r '.POSTGRES_HOST')" ENCODED_POSTGRES_PASSWORD=$(jq -rn --arg pwd $POSTGRES_PASSWORD '$pwd|@uri') +gearbox_secrets_str=$(aws secretsmanager get-secret-value --secret-id gearbox_creds) +gearbox_secrets="$(echo $gearbox_secrets_str | jq '.SecretString' | jq '. | fromjson')" +FENCE_CLIENT_ID="$(echo $gearbox_secrets | jq -r '.FENCE_CLIENT_ID')" +FENCE_CLIENT_SECRET="$(echo $gearbox_secrets | jq -r '.FENCE_CLIENT_SECRET')" +FENCE_TOKEN_URL="$(echo $gearbox_secrets | jq -r '.FENCE_TOKEN_URL')" +GEARBOX_RAW_CRITERIA_URL="$(echo $gearbox_secrets | jq -r '.GEARBOX_RAW_CRITERIA_URL')" + + #define the template. env_file=$(cat << EOF # platform settings @@ -44,6 +52,12 @@ POSTGRES_DB=postgres # Flower settings FLOWER_BASIC_AUTH='$FLOWER_BASIC_AUTH' + +# GEARBOx settings +FENCE_CLIENT_ID='$FENCE_CLIENT_ID' +FENCE_CLIENT_SECRET='$FENCE_CLIENT_SECRET' +FENCE_TOKEN_URL='$FENCE_TOKEN_URL' +GEARBOX_RAW_CRITERIA_URL='$GEARBOX_RAW_CRITERIA_URL' EOF ) echo "$env_file" > ./.env @@ -54,13 +68,3 @@ docker login quay.io -p "$(echo $quay_secrets | jq '.SecretString' | jq '. | fro sudo docker-compose -f docker/docker-compose.prod.yml --env-file .env up -d - -#old command -# sed -i s/password/D4cGTech/g .env -# sed -i s/admin/admin/g .env -# sed -i s/FLOWER_BASIC_AUTH=""/FLOWER_BASIC_AUTH="admin:D4cGTech"/g .env -# sed -i s/FLOWER_BASIC_AUTH=""/FLOWER_BASIC_AUTH=\"admin:D4cGTech\"/g .env -# sed -i s/FLOWER_BASIC_AUTH=\"\"/FLOWER_BASIC_AUTH=\"admin:D4cGTech\"/g .env - - -