From 9349b2692bb6d4bd7e37f2d91e15055fb24b9bc9 Mon Sep 17 00:00:00 2001 From: Nargis Sultani Date: Wed, 10 Jan 2024 00:14:29 -0500 Subject: [PATCH 1/8] Added function to upload to s3, but currently without credential support --- pyproject.toml | 1 + src/services/s3.py | 17 +++++++++++++++++ src/services/submission_processor.py | 5 ++++- tests/test_s3.py | 20 ++++++++++++++++++++ 4 files changed, 42 insertions(+), 1 deletion(-) create mode 100644 src/services/s3.py create mode 100644 tests/test_s3.py diff --git a/pyproject.toml b/pyproject.toml index be323cc1..c6e77e94 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -28,6 +28,7 @@ pytest-alembic = "^0.10.7" ruff = "^0.1.6" black = "^23.11.0" pytest-asyncio = "^0.23.2" +moto = "^4.2.13" [build-system] requires = ["poetry-core"] diff --git a/src/services/s3.py b/src/services/s3.py new file mode 100644 index 00000000..80d2f2b8 --- /dev/null +++ b/src/services/s3.py @@ -0,0 +1,17 @@ +import boto3 +import logging +from botocore.exceptions import ClientError + + +s3_client = boto3.client("s3") + + +def upload(bucket_name: str, filename: str, content: bytes, client: boto3.client = s3_client): + try: + # This is idempotent. It will only create bucket if it does not exist. + client.create_bucket(Bucket=bucket_name) + client.put_object(Bucket=bucket_name, Body=content, Key=filename) + except ClientError as e: + logging.error(e) + return False + return True diff --git a/src/services/submission_processor.py b/src/services/submission_processor.py index d75d8449..72d9178b 100644 --- a/src/services/submission_processor.py +++ b/src/services/submission_processor.py @@ -1,6 +1,9 @@ +from s3 import upload + + async def upload_to_storage(lei: str, submission_id: str, content: bytes): # implement uploading process here - pass + upload(lei, submission_id, content) async def validate_submission(lei: str, submission_id: str, content: bytes): diff --git a/tests/test_s3.py b/tests/test_s3.py new file mode 100644 index 00000000..b42184a6 --- /dev/null +++ b/tests/test_s3.py @@ -0,0 +1,20 @@ +import boto3 +from moto import mock_s3 +from src.services.s3 import upload + + +@mock_s3 +def test_upload_to_storage(): + # creating mock client + s3 = boto3.client("s3") + + # setting variables + lei = "TESTLEI" + submission_id = "test_submission_id" + content = bytes("Test content", "utf-8") + + result = upload(lei, submission_id, content, s3) + # Verify that object was put successfully + assert result is True + object = s3.get_object(Bucket=lei, Key=submission_id) + assert object["Body"].read() == content From 16e81d35311b28d3a98417b222c0360a65593674 Mon Sep 17 00:00:00 2001 From: Nargis Sultani Date: Wed, 10 Jan 2024 02:16:20 -0500 Subject: [PATCH 2/8] Adding updated poetry.lock --- poetry.lock | 1192 ++++++++++++++++++++++++++++++--------------------- 1 file changed, 711 insertions(+), 481 deletions(-) diff --git a/poetry.lock b/poetry.lock index f5143dd2..7ce925bf 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,15 +1,14 @@ -# This file is automatically @generated by Poetry 1.4.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.6.1 and should not be changed by hand. 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"09822b96277a5806128f1ec3ce2f2d24a3951ddf86fccc4d5e7c99495ec89631" +content-hash = "847bcb94f89b8b381f4c27edda70e6b696e4c0da8195e7accc3d26481457d6a5" diff --git a/pyproject.toml b/pyproject.toml index b4fdca28..5ee5b0e4 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -20,6 +20,8 @@ python-multipart = "^0.0.6" boto3 = "^1.33.12" alembic = "^1.12.0" async-lru = "^2.0.4" +fsspec = "^2024.2.0" +s3fs = "^2024.2.0" [tool.poetry.group.dev.dependencies] pytest = "^7.4.3" @@ -69,6 +71,8 @@ env = [ "TOKEN_URL=http://localhost", "CERTS_URL=http://localhost", "AUTH_CLIENT=", + "UPLOAD_FS_PROTOCOL=file", + "UPLOAD_FS_ROOT=../upload", ] testpaths = ["tests"] diff --git a/src/.env.local b/src/.env.local index c20c0244..4c7e5433 100644 --- a/src/.env.local +++ b/src/.env.local @@ -2,4 +2,19 @@ DB_NAME=filing DB_USER=filing_user DB_PWD=filing_user DB_HOST=localhost:5432 -DB_SCHEMA=filing \ No newline at end of file +DB_SCHEMA=filing +KC_URL=http://localhost:8880 +KC_REALM=regtech +KC_ADMIN_CLIENT_ID=admin-cli +KC_ADMIN_CLIENT_SECRET=local_test_only +KC_REALM_URL=${KC_URL}/realms/${KC_REALM} +KC_REALM_ADMIN_URL=${KC_URL}/admin/realms/${KC_REALM} +AUTH_URL=${KC_REALM_URL}/protocol/openid-connect/auth +AUTH_CLIENT=regtech-client +TOKEN_URL=${KC_REALM_URL}/protocol/openid-connect/token +CERTS_URL=${KC_REALM_URL}/protocol/openid-connect/certs +JWT_OPTS_VERIFY_AT_HASH="false" +JWT_OPTS_VERIFY_AUD="false" +JWT_OPTS_VERIFY_ISS="false" +UPLOAD_FS_PROTOCOL=file +UPLOAD_FS_ROOT=../upload \ No newline at end of file diff --git a/src/config.py b/src/config.py index 1bdb9314..504d4520 100644 --- a/src/config.py +++ b/src/config.py @@ -21,6 +21,18 @@ class Settings(BaseSettings): db_host: str db_scheme: str = "postgresql+asyncpg" conn: PostgresDsn | None = None + ''' + upload_fs_protocol: to be used with fsspec, and s3fs + `file` is for local file system + `s3` is for AWS S3 + ''' + upload_fs_protocol: str + ''' + upload_fs_root: root of the upload folder in file system + with `file` protocol, this can be any directory you specific (e.g. `../upload`) + if using `s3` for the protocol, this should be the bucket name (e.g. `my-s3-bucket`) + ''' + upload_fs_root: str def __init__(self, **data): super().__init__(**data) diff --git a/src/routers/filing.py b/src/routers/filing.py index fe7b1c84..98c46d90 100644 --- a/src/routers/filing.py +++ b/src/routers/filing.py @@ -41,7 +41,7 @@ async def upload_file( request: Request, lei: str, submission_id: str, file: UploadFile, background_tasks: BackgroundTasks ): content = await file.read() - await submission_processor.upload_to_storage(lei, submission_id, content) + await submission_processor.upload_to_storage(lei, submission_id, content, file.filename.split(".")[-1]) background_tasks.add_task(submission_processor.validate_submission, lei, submission_id, content) diff --git a/src/services/s3.py b/src/services/s3.py deleted file mode 100644 index 80d2f2b8..00000000 --- a/src/services/s3.py +++ /dev/null @@ -1,17 +0,0 @@ -import boto3 -import logging -from botocore.exceptions import ClientError - - -s3_client = boto3.client("s3") - - -def upload(bucket_name: str, filename: str, content: bytes, client: boto3.client = s3_client): - try: - # This is idempotent. It will only create bucket if it does not exist. - client.create_bucket(Bucket=bucket_name) - client.put_object(Bucket=bucket_name, Body=content, Key=filename) - except ClientError as e: - logging.error(e) - return False - return True diff --git a/src/services/submission_processor.py b/src/services/submission_processor.py index 72d9178b..46e9911c 100644 --- a/src/services/submission_processor.py +++ b/src/services/submission_processor.py @@ -1,9 +1,20 @@ -from s3 import upload +from http import HTTPStatus +from fastapi import HTTPException +import logging +from fsspec import AbstractFileSystem, filesystem +from config import settings +log = logging.getLogger(__name__) -async def upload_to_storage(lei: str, submission_id: str, content: bytes): - # implement uploading process here - upload(lei, submission_id, content) +async def upload_to_storage(lei: str, submission_id: str, content: bytes, extension: str = "csv"): + try: + fs: AbstractFileSystem = filesystem(settings.upload_fs_protocol) + fs.mkdirs(f"{settings.upload_fs_root}/{lei}", exist_ok=True) + with fs.open(f"{settings.upload_fs_root}/{lei}/{submission_id}.{extension}", "wb") as f: + f.write(content) + except Exception as e: + log.error("Failed to upload file", e, exc_info=True, stack_info=True) + raise HTTPException(status_code=HTTPStatus.INTERNAL_SERVER_ERROR, detail="Failed to upload file") async def validate_submission(lei: str, submission_id: str, content: bytes): diff --git a/tests/services/test_submission_processor.py b/tests/services/test_submission_processor.py new file mode 100644 index 00000000..c8a5602b --- /dev/null +++ b/tests/services/test_submission_processor.py @@ -0,0 +1,33 @@ +from fastapi import HTTPException +import pytest +from unittest.mock import Mock, ANY +from pytest_mock import MockerFixture +from services.submission_processor import upload_to_storage + +@pytest.fixture +def mock_fs(mocker: MockerFixture) -> Mock: + fs_mock_patch = mocker.patch("services.submission_processor.AbstractFileSystem") + return fs_mock_patch.return_value + +@pytest.fixture +def mock_fs_func(mocker: MockerFixture, mock_fs: Mock) -> Mock: + fs_func_mock = mocker.patch("services.submission_processor.filesystem") + fs_func_mock.return_value = mock_fs + return fs_func_mock + +async def test_upload(mocker: MockerFixture, mock_fs_func: Mock, mock_fs: Mock): + with mocker.mock_open(mock_fs.open): + await upload_to_storage("test", "test", b"test content") + mock_fs_func.assert_called() + mock_fs.mkdirs.assert_called() + mock_fs.open.assert_called_with(ANY, "wb") + file_handle = mock_fs.open() + file_handle.write.assert_called_with(b"test content") + +async def test_upload_failure(mocker: MockerFixture, mock_fs_func: Mock, mock_fs: Mock): + log_mock = mocker.patch("services.submission_processor.log") + mock_fs.mkdirs.side_effect = IOError("test") + with pytest.raises(Exception) as e: + await upload_to_storage("test", "test", b"test content") + log_mock.error.assert_called_with("Failed to upload file", ANY, exc_info=True, stack_info=True) + assert isinstance(e.value, HTTPException) \ No newline at end of file diff --git a/tests/test_s3.py b/tests/test_s3.py deleted file mode 100644 index b42184a6..00000000 --- a/tests/test_s3.py +++ /dev/null @@ -1,20 +0,0 @@ -import boto3 -from moto import mock_s3 -from src.services.s3 import upload - - -@mock_s3 -def test_upload_to_storage(): - # creating mock client - s3 = boto3.client("s3") - - # setting variables - lei = "TESTLEI" - submission_id = "test_submission_id" - content = bytes("Test content", "utf-8") - - result = upload(lei, submission_id, content, s3) - # Verify that object was put successfully - assert result is True - object = s3.get_object(Bucket=lei, Key=submission_id) - assert object["Body"].read() == content diff --git a/tests/test_test.py b/tests/test_test.py deleted file mode 100644 index 665a9510..00000000 --- a/tests/test_test.py +++ /dev/null @@ -1,3 +0,0 @@ -# remove file once real code and tests are written -def test_test(): - assert True From 8a3ad97f3985b50c9a51402f3c2db35af7bc2cc6 Mon Sep 17 00:00:00 2001 From: lchen-2101 <73617864+lchen-2101@users.noreply.github.com> Date: Mon, 26 Feb 2024 15:04:17 -0500 Subject: [PATCH 5/8] fix: linters --- src/config.py | 8 ++--- src/services/submission_processor.py | 1 + tests/services/test_submission_processor.py | 40 +++++++++++---------- 3 files changed, 27 insertions(+), 22 deletions(-) diff --git a/src/config.py b/src/config.py index 504d4520..9ff80a2e 100644 --- a/src/config.py +++ b/src/config.py @@ -21,17 +21,17 @@ class Settings(BaseSettings): db_host: str db_scheme: str = "postgresql+asyncpg" conn: PostgresDsn | None = None - ''' + """ upload_fs_protocol: to be used with fsspec, and s3fs `file` is for local file system `s3` is for AWS S3 - ''' + """ upload_fs_protocol: str - ''' + """ upload_fs_root: root of the upload folder in file system with `file` protocol, this can be any directory you specific (e.g. `../upload`) if using `s3` for the protocol, this should be the bucket name (e.g. `my-s3-bucket`) - ''' + """ upload_fs_root: str def __init__(self, **data): diff --git a/src/services/submission_processor.py b/src/services/submission_processor.py index 46e9911c..db8899ad 100644 --- a/src/services/submission_processor.py +++ b/src/services/submission_processor.py @@ -6,6 +6,7 @@ log = logging.getLogger(__name__) + async def upload_to_storage(lei: str, submission_id: str, content: bytes, extension: str = "csv"): try: fs: AbstractFileSystem = filesystem(settings.upload_fs_protocol) diff --git a/tests/services/test_submission_processor.py b/tests/services/test_submission_processor.py index c8a5602b..f6e0d748 100644 --- a/tests/services/test_submission_processor.py +++ b/tests/services/test_submission_processor.py @@ -4,30 +4,34 @@ from pytest_mock import MockerFixture from services.submission_processor import upload_to_storage + @pytest.fixture def mock_fs(mocker: MockerFixture) -> Mock: - fs_mock_patch = mocker.patch("services.submission_processor.AbstractFileSystem") - return fs_mock_patch.return_value + fs_mock_patch = mocker.patch("services.submission_processor.AbstractFileSystem") + return fs_mock_patch.return_value + @pytest.fixture def mock_fs_func(mocker: MockerFixture, mock_fs: Mock) -> Mock: - fs_func_mock = mocker.patch("services.submission_processor.filesystem") - fs_func_mock.return_value = mock_fs - return fs_func_mock + fs_func_mock = mocker.patch("services.submission_processor.filesystem") + fs_func_mock.return_value = mock_fs + return fs_func_mock + async def test_upload(mocker: MockerFixture, mock_fs_func: Mock, mock_fs: Mock): - with mocker.mock_open(mock_fs.open): - await upload_to_storage("test", "test", b"test content") - mock_fs_func.assert_called() - mock_fs.mkdirs.assert_called() - mock_fs.open.assert_called_with(ANY, "wb") - file_handle = mock_fs.open() - file_handle.write.assert_called_with(b"test content") + with mocker.mock_open(mock_fs.open): + await upload_to_storage("test", "test", b"test content") + mock_fs_func.assert_called() + mock_fs.mkdirs.assert_called() + mock_fs.open.assert_called_with(ANY, "wb") + file_handle = mock_fs.open() + file_handle.write.assert_called_with(b"test content") + async def test_upload_failure(mocker: MockerFixture, mock_fs_func: Mock, mock_fs: Mock): - log_mock = mocker.patch("services.submission_processor.log") - mock_fs.mkdirs.side_effect = IOError("test") - with pytest.raises(Exception) as e: - await upload_to_storage("test", "test", b"test content") - log_mock.error.assert_called_with("Failed to upload file", ANY, exc_info=True, stack_info=True) - assert isinstance(e.value, HTTPException) \ No newline at end of file + log_mock = mocker.patch("services.submission_processor.log") + mock_fs.mkdirs.side_effect = IOError("test") + with pytest.raises(Exception) as e: + await upload_to_storage("test", "test", b"test content") + log_mock.error.assert_called_with("Failed to upload file", ANY, exc_info=True, stack_info=True) + assert isinstance(e.value, HTTPException) From 808ab748325d6d883a5fb031e30514bd327bf66c Mon Sep 17 00:00:00 2001 From: lchen-2101 <73617864+lchen-2101@users.noreply.github.com> Date: Mon, 26 Feb 2024 17:18:15 -0500 Subject: [PATCH 6/8] feat: added enum for fs protocol --- src/.env.template | 14 +++++++++++++- src/config.py | 7 ++++++- src/services/submission_processor.py | 2 +- 3 files changed, 20 insertions(+), 3 deletions(-) diff --git a/src/.env.template b/src/.env.template index 96b94380..ae87cd56 100644 --- a/src/.env.template +++ b/src/.env.template @@ -3,4 +3,16 @@ DB_USER= DB_PWD= DB_HOST= DB_SCHEMA= -# DB_SCHEME= can be used to override postgresql+asyncpg if needed \ No newline at end of file +# DB_SCHEME= can be used to override postgresql+asyncpg if needed +KC_URL= +KC_REALM= +KC_ADMIN_CLIENT_ID= +KC_ADMIN_CLIENT_SECRET= +KC_REALM_URL=${KC_URL}/realms/${KC_REALM} +KC_REALM_ADMIN_URL=${KC_URL}/admin/realms/${KC_REALM} +AUTH_URL=${KC_REALM_URL}/protocol/openid-connect/auth +AUTH_CLIENT= +TOKEN_URL=${KC_REALM_URL}/protocol/openid-connect/token +CERTS_URL=${KC_REALM_URL}/protocol/openid-connect/certs +UPLOAD_FS_PROTOCOL=file +UPLOAD_FS_ROOT=../upload \ No newline at end of file diff --git a/src/config.py b/src/config.py index 9ff80a2e..8de2e99e 100644 --- a/src/config.py +++ b/src/config.py @@ -1,3 +1,4 @@ +from enum import Enum import os from urllib import parse from typing import Any @@ -13,6 +14,10 @@ env_files_to_load.append(".env.local") +class FsProtocol(Enum): + FILE = "file" + S3 = "s3" + class Settings(BaseSettings): db_schema: str = "public" db_name: str @@ -26,7 +31,7 @@ class Settings(BaseSettings): `file` is for local file system `s3` is for AWS S3 """ - upload_fs_protocol: str + upload_fs_protocol: FsProtocol = FsProtocol.FILE """ upload_fs_root: root of the upload folder in file system with `file` protocol, this can be any directory you specific (e.g. `../upload`) diff --git a/src/services/submission_processor.py b/src/services/submission_processor.py index db8899ad..353a2011 100644 --- a/src/services/submission_processor.py +++ b/src/services/submission_processor.py @@ -9,7 +9,7 @@ async def upload_to_storage(lei: str, submission_id: str, content: bytes, extension: str = "csv"): try: - fs: AbstractFileSystem = filesystem(settings.upload_fs_protocol) + fs: AbstractFileSystem = filesystem(settings.upload_fs_protocol.value) fs.mkdirs(f"{settings.upload_fs_root}/{lei}", exist_ok=True) with fs.open(f"{settings.upload_fs_root}/{lei}/{submission_id}.{extension}", "wb") as f: f.write(content) From a3ed27b5f2abfff83a6fc1102134e13fe7a58313 Mon Sep 17 00:00:00 2001 From: lchen-2101 <73617864+lchen-2101@users.noreply.github.com> Date: Mon, 26 Feb 2024 17:18:42 -0500 Subject: [PATCH 7/8] fix: linter --- src/config.py | 1 + 1 file changed, 1 insertion(+) diff --git a/src/config.py b/src/config.py index 8de2e99e..7affe952 100644 --- a/src/config.py +++ b/src/config.py @@ -18,6 +18,7 @@ class FsProtocol(Enum): FILE = "file" S3 = "s3" + class Settings(BaseSettings): db_schema: str = "public" db_name: str From e5d10b01ff9099f05ea9905fe749747316e01774 Mon Sep 17 00:00:00 2001 From: lchen-2101 <73617864+lchen-2101@users.noreply.github.com> Date: Mon, 26 Feb 2024 17:28:34 -0500 Subject: [PATCH 8/8] feat: switch to str enum instead of just enum --- src/config.py | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/config.py b/src/config.py index 7affe952..f7969026 100644 --- a/src/config.py +++ b/src/config.py @@ -1,4 +1,4 @@ -from enum import Enum +from enum import StrEnum import os from urllib import parse from typing import Any @@ -14,7 +14,7 @@ env_files_to_load.append(".env.local") -class FsProtocol(Enum): +class FsProtocol(StrEnum): FILE = "file" S3 = "s3"