From b4cd434e2305edc6b60a20ddf0a72f029f8bf235 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Tue, 22 Oct 2024 18:21:52 -0400 Subject: [PATCH 01/12] Upgrade fl4heath and made appropriate changes --- florist/api/client.py | 2 +- florist/api/clients/mnist.py | 6 +- florist/api/db/entities.py | 10 +- florist/api/launchers/local.py | 6 +- florist/api/monitoring/metrics.py | 88 +- florist/api/servers/launch.py | 2 +- florist/api/servers/utils.py | 8 +- .../tests/unit/api/monitoring/test_metrics.py | 14 +- florist/tests/unit/api/servers/test_launch.py | 4 +- florist/tests/unit/api/test_client.py | 2 +- poetry.lock | 6627 ++++++++++------- pyproject.toml | 8 +- 12 files changed, 4171 insertions(+), 2606 deletions(-) diff --git a/florist/api/client.py b/florist/api/client.py index 13cb77db..30fcf8fe 100644 --- a/florist/api/client.py +++ b/florist/api/client.py @@ -62,7 +62,7 @@ def start(server_address: str, client: str, data_path: str, redis_host: str, red data_path=Path(data_path), metrics=[], device=device, - metrics_reporter=metrics_reporter, + reporters=[metrics_reporter], ) log_file_name = str(get_client_log_file_path(client_uuid)) diff --git a/florist/api/clients/mnist.py b/florist/api/clients/mnist.py index ca6093f8..03cabc20 100644 --- a/florist/api/clients/mnist.py +++ b/florist/api/clients/mnist.py @@ -4,7 +4,7 @@ import torch from fl4health.clients.basic_client import BasicClient -from fl4health.utils.dataset import MnistDataset +from fl4health.utils.dataset import TensorDataset from fl4health.utils.load_data import load_mnist_data from flwr.common.typing import Config from torch import nn @@ -18,7 +18,7 @@ class MnistClient(BasicClient): # type: ignore[misc] """Implementation of the MNIST client.""" - def get_data_loaders(self, config: Config) -> Tuple[DataLoader[MnistDataset], DataLoader[MnistDataset]]: + def get_data_loaders(self, config: Config) -> Tuple[DataLoader[TensorDataset], DataLoader[TensorDataset]]: """ Return the data loader for MNIST data. @@ -26,7 +26,7 @@ def get_data_loaders(self, config: Config) -> Tuple[DataLoader[MnistDataset], Da :return: (Tuple[DataLoader[MnistDataset], DataLoader[MnistDataset]]) a tuple with the train data loader and validation data loader respectively. """ - train_loader, val_loader, _ = load_mnist_data(self.data_path, batch_size=config["batch_size"]) + train_loader, val_loader, _ = load_mnist_data(self.data_path, batch_size=int(config["batch_size"])) return train_loader, val_loader def get_model(self, config: Config) -> nn.Module: diff --git a/florist/api/db/entities.py b/florist/api/db/entities.py index 55c1fac8..f7872412 100644 --- a/florist/api/db/entities.py +++ b/florist/api/db/entities.py @@ -83,7 +83,7 @@ class Job(BaseModel): clients_info: Optional[Annotated[List[ClientInfo], Field(...)]] @classmethod - async def find_by_id(cls, job_id: str, database: AsyncIOMotorDatabase) -> Optional["Job"]: + async def find_by_id(cls, job_id: str, database: AsyncIOMotorDatabase[Any]) -> Optional["Job"]: """ Find a job in the database by its id. @@ -98,7 +98,7 @@ async def find_by_id(cls, job_id: str, database: AsyncIOMotorDatabase) -> Option return Job(**result) @classmethod - async def find_by_status(cls, status: JobStatus, limit: int, database: AsyncIOMotorDatabase) -> List["Job"]: + async def find_by_status(cls, status: JobStatus, limit: int, database: AsyncIOMotorDatabase[Any]) -> List["Job"]: """ Return all jobs with the given status. @@ -114,7 +114,7 @@ async def find_by_status(cls, status: JobStatus, limit: int, database: AsyncIOMo assert isinstance(result, list) return [Job(**r) for r in result] - async def create(self, database: AsyncIOMotorDatabase) -> str: + async def create(self, database: AsyncIOMotorDatabase[Any]) -> str: """ Save this instance under a new record in the database. @@ -126,7 +126,7 @@ async def create(self, database: AsyncIOMotorDatabase) -> str: assert isinstance(result.inserted_id, str) return result.inserted_id - async def set_uuids(self, server_uuid: str, client_uuids: List[str], database: AsyncIOMotorDatabase) -> None: + async def set_uuids(self, server_uuid: str, client_uuids: List[str], database: AsyncIOMotorDatabase[Any]) -> None: """ Save the server and clients' UUIDs in the database under the current job's id. @@ -152,7 +152,7 @@ async def set_uuids(self, server_uuid: str, client_uuids: List[str], database: A ) assert_updated_successfully(update_result) - async def set_status(self, status: JobStatus, database: AsyncIOMotorDatabase) -> None: + async def set_status(self, status: JobStatus, database: AsyncIOMotorDatabase[Any]) -> None: """ Save the status in the database under the current job's id. diff --git a/florist/api/launchers/local.py b/florist/api/launchers/local.py index a085e719..f945dbbb 100644 --- a/florist/api/launchers/local.py +++ b/florist/api/launchers/local.py @@ -9,10 +9,12 @@ import flwr as fl from fl4health.clients.basic_client import BasicClient from fl4health.server.base_server import FlServer -from flwr.common.logger import DEFAULT_FORMATTER from flwr.server import ServerConfig +DEFAULT_FORMATTER = logging.Formatter("%(levelname)s %(name)s %(asctime)s | %(filename)s:%(lineno)d | %(message)s") + + def redirect_logging_from_console_to_file(log_file_path: str) -> None: """ Redirect loggers outputting to console to specified file. @@ -60,7 +62,6 @@ def start_server( config=ServerConfig(num_rounds=n_server_rounds), ) server.shutdown() - server.metrics_reporter.dump() def start_client(client: BasicClient, server_address: str, client_log_file_name: str) -> None: @@ -79,7 +80,6 @@ def start_client(client: BasicClient, server_address: str, client_log_file_name: sys.stderr = log_file fl.client.start_numpy_client(server_address=server_address, client=client) client.shutdown() - client.metrics_reporter.dump() def launch_server( diff --git a/florist/api/monitoring/metrics.py b/florist/api/monitoring/metrics.py index 9a523b10..7bf34208 100644 --- a/florist/api/monitoring/metrics.py +++ b/florist/api/monitoring/metrics.py @@ -1,17 +1,33 @@ """Classes for the instrumentation of metrics reporting from clients and servers.""" +import datetime import json import time +import uuid from logging import DEBUG, Logger from typing import Any, Dict, Optional import redis -from fl4health.reporting.metrics import DateTimeEncoder, MetricsReporter +from fl4health.reporting.base_reporter import BaseReporter from flwr.common.logger import log from redis.client import PubSub -class RedisMetricsReporter(MetricsReporter): # type: ignore +class DateTimeEncoder(json.JSONEncoder): + """Converts a datetime object to string in order to make json encoding easier.""" + + def default(self, o: Any) -> Any: + """ + Return string of datetime if datetime object is passed else return result of the default encoder method. + + :param o: Object to encode. + """ + if isinstance(o, datetime.datetime): + return str(o) + return json.JSONEncoder.default(self, o) + + +class RedisMetricsReporter(BaseReporter): # type: ignore """ Save the metrics to a Redis instance while it records them. @@ -27,32 +43,66 @@ def __init__(self, host: str, port: str, run_id: Optional[str] = None): :param run_id: (Optional[str]) the identifier for the run which these metrics are from. It will be used as the name of the object in Redis. Optional, default is a random UUID. """ - super().__init__(run_id) self.host = host self.port = port + self.run_id = run_id + self.initialized = False + self.redis_connection: Optional[redis.Redis] = None + self.metrics: Dict[str, Any] = {} - def add_to_metrics(self, data: Dict[str, Any]) -> None: + def initialize(self, **kwargs: Any) -> None: """ - Add a dictionary of data into the main metrics dictionary. + Initialize RedisMetricReporter with run_id and set initialized to True. - At the end, dumps the current state of the metrics to Redis. - - :param data: (Dict[str, Any]) Data to be added to the metrics dictionary via .update(). + :param kwargs: (Any) The keyword arguments required to initialize the Reporter. """ - super().add_to_metrics(data) - self.dump() - - def add_to_metrics_at_round(self, fl_round: int, data: Dict[str, Any]) -> None: + # If run_id was not specified on init try first to initialize with client name + if self.run_id is None: + self.run_id = kwargs.get("id") + # If client name was not provided, init run id manually + if self.run_id is None: + self.run_id = str(uuid.uuid4()) + + self.initialized = True + + def report( + self, + data: dict[str, Any], + round: int | None = None, # noqa: A002 + epoch: int | None = None, + step: int | None = None, + ) -> None: + """Send data to the reporter. + + The report method is called by the client/server at frequent intervals (ie step, epoch, round) and sometimes + outside of a FL round (for high level summary data). The json reporter is hardcoded to report at the 'round' + level and therefore ignores calls to the report method made every epoch or every step. + + Args: + data (dict): The data to maybe report from the server or client. + round (int | None, optional): The current FL round. If None, this indicates that the method was called + outside of a round (e.g. for summary information). Defaults to None. + epoch (int | None, optional): The current epoch. If None then this method was not called within the scope + of an epoch. Defaults to None. + step (int | None, optional): The current step (total). If None then this method was called outside the + scope of a training or evaluation step (eg. at the end of an epoch or round) Defaults to None. """ - Add a dictionary of data into the metrics dictionary for a specific FL round. + if not self.initialized: + kwargs = {"run_id": self.run_id} if self.run_id is not None else {} + self.initialize(**kwargs) - At the end, dumps the current state of the metrics to Redis. + if round is None: # Reports outside of a fit round + self.metrics.update(data) + # Ensure we don't report for each epoch or step + elif epoch is None and step is None: + if "rounds" not in self.metrics: + self.metrics["rounds"] = {} + if round not in self.metrics["rounds"]: + self.metrics["rounds"][round] = {} + + self.metrics["rounds"][round].update(data) - :param fl_round: (int) the FL round these metrics are from. - :param data: (Dict[str, Any]) Data to be added to the round's metrics dictionary via .update(). - """ - super().add_to_metrics_at_round(fl_round, data) self.dump() def dump(self) -> None: @@ -64,6 +114,8 @@ def dump(self) -> None: if self.redis_connection is None: self.redis_connection = redis.Redis(host=self.host, port=self.port) + assert self.run_id is not None, "Run ID is None, ensure reporter is initialized prior to dumping metrics." + encoded_metrics = json.dumps(self.metrics, cls=DateTimeEncoder) log(DEBUG, f"Dumping metrics to redis at key '{self.run_id}': {encoded_metrics}") self.redis_connection.set(self.run_id, encoded_metrics) diff --git a/florist/api/servers/launch.py b/florist/api/servers/launch.py index 7122d5c5..298993cc 100644 --- a/florist/api/servers/launch.py +++ b/florist/api/servers/launch.py @@ -42,11 +42,11 @@ def launch_local_server( metrics_reporter = RedisMetricsReporter(host=redis_host, port=redis_port, run_id=server_uuid) server_constructor = partial( get_server, + reporters=[metrics_reporter], model=model, n_clients=n_clients, batch_size=batch_size, local_epochs=local_epochs, - metrics_reporter=metrics_reporter, ) log_file_name = str(get_server_log_file_path(server_uuid)) diff --git a/florist/api/servers/utils.py b/florist/api/servers/utils.py index 4470ecd7..ffe4e9c6 100644 --- a/florist/api/servers/utils.py +++ b/florist/api/servers/utils.py @@ -4,7 +4,7 @@ from typing import Callable, Dict, Union from fl4health.client_managers.base_sampling_manager import SimpleClientManager -from fl4health.reporting.metrics import MetricsReporter +from fl4health.reporting.base_reporter import BaseReporter from fl4health.server.base_server import FlServer from fl4health.utils.metric_aggregation import evaluate_metrics_aggregation_fn, fit_metrics_aggregation_fn from flwr.common.parameter import ndarrays_to_parameters @@ -33,11 +33,11 @@ def fit_config(batch_size: int, local_epochs: int, current_server_round: int) -> def get_server( model: nn.Module, + reporters: list[BaseReporter], fit_config: Callable[[int, int, int], Dict[str, int]] = fit_config, n_clients: int = 2, batch_size: int = 8, local_epochs: int = 1, - metrics_reporter: MetricsReporter = None, ) -> FlServer: """ Return a server instance with FedAvg aggregation strategy. @@ -47,7 +47,7 @@ def get_server( :param n_clients: (int) the number of clients that will participate on training. Optional, default is 2. :param batch_size: (int) the size of the batch of samples. Optional, default is 8. :param local_epochs: (int) the number of local epochs the clients will run. Optional, default is 1. - :param metrics_reporter: (fl4health.reporting.metrics.MetricsReporter) An optional metrics reporter instance. + :param metrics_reporter: (fl4health.reporting.base_reporter.BaseReporter) An optional metrics reporter instance. Default is None. :return: (fl4health.server.base_server.FlServer) An instance of FlServer with FedAvg as strategy. """ @@ -64,4 +64,4 @@ def get_server( initial_parameters=initial_model_parameters, ) client_manager = SimpleClientManager() - return FlServer(strategy=strategy, client_manager=client_manager, metrics_reporter=metrics_reporter) + return FlServer(strategy=strategy, client_manager=client_manager, reporters=reporters) diff --git a/florist/tests/unit/api/monitoring/test_metrics.py b/florist/tests/unit/api/monitoring/test_metrics.py index f1142a68..7163438a 100644 --- a/florist/tests/unit/api/monitoring/test_metrics.py +++ b/florist/tests/unit/api/monitoring/test_metrics.py @@ -4,7 +4,7 @@ from pytest import raises from unittest.mock import Mock, call, patch -from fl4health.reporting.metrics import DateTimeEncoder +from florist.api.monitoring.metrics import DateTimeEncoder from freezegun import freeze_time from florist.api.monitoring.metrics import RedisMetricsReporter, wait_for_metric, get_subscriber, get_from_redis @@ -12,7 +12,7 @@ @freeze_time("2012-12-11 10:09:08") @patch("florist.api.monitoring.metrics.redis.Redis") -def test_add_to_metrics(mock_redis: Mock) -> None: +def test_report(mock_redis: Mock) -> None: mock_redis_connection = Mock() mock_redis.return_value = mock_redis_connection @@ -22,7 +22,7 @@ def test_add_to_metrics(mock_redis: Mock) -> None: test_data = {"test": "data", "date": datetime.datetime.now()} redis_metric_reporter = RedisMetricsReporter(test_host, test_port, test_run_id) - redis_metric_reporter.add_to_metrics(test_data) + redis_metric_reporter.report(test_data) mock_redis.assert_called_once_with(host=test_host, port=test_port) mock_redis_connection.set.assert_called_once_with(test_run_id, json.dumps(test_data, cls=DateTimeEncoder)) @@ -30,7 +30,7 @@ def test_add_to_metrics(mock_redis: Mock) -> None: @freeze_time("2012-12-11 10:09:08") @patch("florist.api.monitoring.metrics.redis.Redis") -def test_add_to_metrics_at_round(mock_redis: Mock) -> None: +def test_report_at_round(mock_redis: Mock) -> None: mock_redis_connection = Mock() mock_redis.return_value = mock_redis_connection @@ -41,7 +41,7 @@ def test_add_to_metrics_at_round(mock_redis: Mock) -> None: test_round = 2 redis_metric_reporter = RedisMetricsReporter(test_host, test_port, test_run_id) - redis_metric_reporter.add_to_metrics_at_round(test_round, test_data) + redis_metric_reporter.report(test_data, test_round) mock_redis.assert_called_once_with(host=test_host, port=test_port) expected_data = { @@ -65,8 +65,8 @@ def test_dump_without_existing_connection(mock_redis: Mock) -> None: test_round = 2 redis_metric_reporter = RedisMetricsReporter(test_host, test_port, test_run_id) - redis_metric_reporter.add_to_metrics(test_data) - redis_metric_reporter.add_to_metrics_at_round(test_round, test_data) + redis_metric_reporter.report(test_data) + redis_metric_reporter.report(test_data, test_round) redis_metric_reporter.dump() mock_redis.assert_called_once_with(host=test_host, port=test_port) diff --git a/florist/tests/unit/api/servers/test_launch.py b/florist/tests/unit/api/servers/test_launch.py index 17b5a3f5..06e818a8 100644 --- a/florist/tests/unit/api/servers/test_launch.py +++ b/florist/tests/unit/api/servers/test_launch.py @@ -50,10 +50,10 @@ def test_launch_local_server(mock_launch_server: Mock) -> None: "n_clients": test_n_clients, "batch_size": test_batch_size, "local_epochs": test_local_epochs, - "metrics_reporter": ANY, + "reporters": ANY, } - metrics_reporter = call_args[0].keywords["metrics_reporter"] + metrics_reporter = call_args[0].keywords["reporters"][0] assert isinstance(metrics_reporter, RedisMetricsReporter) assert metrics_reporter.host == test_redis_host assert metrics_reporter.port == test_redis_port diff --git a/florist/tests/unit/api/test_client.py b/florist/tests/unit/api/test_client.py index a8e54662..6b497bf0 100644 --- a/florist/tests/unit/api/test_client.py +++ b/florist/tests/unit/api/test_client.py @@ -38,7 +38,7 @@ def test_start_success(mock_launch_client: Mock) -> None: assert isinstance(client_obj, MnistClient) assert str(client_obj.data_path) == test_data_path - metrics_reporter = client_obj.metrics_reporter + metrics_reporter = client_obj.reports_manager.reporters[0] assert isinstance(metrics_reporter, RedisMetricsReporter) assert metrics_reporter.host == test_redis_host assert metrics_reporter.port == test_redis_port diff --git a/poetry.lock b/poetry.lock index b9764170..efb6d3ab 100644 --- a/poetry.lock +++ b/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 1.8.4 and should not be changed by hand. 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+fl4health = "^0.2.1" fastapi = "^0.115.2" uvicorn = {version = "^0.23.2", extras = ["standard"]} -fl4health = "^0.1.15" -wandb = "^0.16.3" -torchvision = "^0.16.0" +wandb = "^0.18.0" +torchvision = "^0.18.0" redis = "^5.0.1" python-multipart = "^0.0.9" pydantic = "^1.10.15" From a1d4a43569b7c737cddccc94dabeb9e93faf01a6 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Tue, 22 Oct 2024 18:36:17 -0400 Subject: [PATCH 02/12] Update documentation --- florist/api/servers/utils.py | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/florist/api/servers/utils.py b/florist/api/servers/utils.py index ffe4e9c6..d4830021 100644 --- a/florist/api/servers/utils.py +++ b/florist/api/servers/utils.py @@ -47,7 +47,7 @@ def get_server( :param n_clients: (int) the number of clients that will participate on training. Optional, default is 2. :param batch_size: (int) the size of the batch of samples. Optional, default is 8. :param local_epochs: (int) the number of local epochs the clients will run. Optional, default is 1. - :param metrics_reporter: (fl4health.reporting.base_reporter.BaseReporter) An optional metrics reporter instance. + :param reporters: (list[fl4health.reporting.base_reporter.BaseReporter]) An optional metrics reporter instance. Default is None. :return: (fl4health.server.base_server.FlServer) An instance of FlServer with FedAvg as strategy. """ From bb11590f243a114b6a9ba67e1185a6f6621a71f3 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Tue, 22 Oct 2024 18:39:26 -0400 Subject: [PATCH 03/12] Upgrade python version to 3.10 in workflow files --- .github/workflows/docs_build.yml | 4 ++-- .github/workflows/docs_deploy.yml | 4 ++-- .github/workflows/integration_tests.yaml | 2 +- .github/workflows/publish.yml | 2 +- .github/workflows/static_code_checks.yaml | 2 +- .github/workflows/unit_tests.yaml | 4 ++-- 6 files changed, 9 insertions(+), 9 deletions(-) diff --git a/.github/workflows/docs_build.yml b/.github/workflows/docs_build.yml index d4e61a82..36eef4a1 100644 --- a/.github/workflows/docs_build.yml +++ b/.github/workflows/docs_build.yml @@ -26,11 +26,11 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' cache: 'poetry' - run: | python3 -m pip install --upgrade pip && python3 -m pip install poetry - poetry env use '3.9' + poetry env use '3.10' source .venv/bin/activate poetry install --with docs,test cd docs && rm -rf source/reference/api/_autosummary && make html diff --git a/.github/workflows/docs_deploy.yml b/.github/workflows/docs_deploy.yml index 28487937..dfc5d3a6 100644 --- a/.github/workflows/docs_deploy.yml +++ b/.github/workflows/docs_deploy.yml @@ -31,11 +31,11 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' cache: 'poetry' - run: | python3 -m pip install --upgrade pip && python3 -m pip install poetry - poetry env use '3.9' + poetry env use '3.10' source $(poetry env info --path)/bin/activate poetry install --with docs,test cd docs && rm -rf source/reference/api/_autosummary && make html diff --git a/.github/workflows/integration_tests.yaml b/.github/workflows/integration_tests.yaml index 76c254fb..42d48a13 100644 --- a/.github/workflows/integration_tests.yaml +++ b/.github/workflows/integration_tests.yaml @@ -44,7 +44,7 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' - name: Setup redis uses: supercharge/redis-github-action@1.8.0 with: diff --git a/.github/workflows/publish.yml b/.github/workflows/publish.yml index d5e5822e..cf31e15e 100644 --- a/.github/workflows/publish.yml +++ b/.github/workflows/publish.yml @@ -20,7 +20,7 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' - name: Build package run: poetry build - name: Publish package diff --git a/.github/workflows/static_code_checks.yaml b/.github/workflows/static_code_checks.yaml index 6c8545c5..788bda83 100644 --- a/.github/workflows/static_code_checks.yaml +++ b/.github/workflows/static_code_checks.yaml @@ -34,7 +34,7 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' cache: 'poetry' - name: Setup yarn uses: mskelton/setup-yarn@v3 diff --git a/.github/workflows/unit_tests.yaml b/.github/workflows/unit_tests.yaml index 29d01d63..bd626d01 100644 --- a/.github/workflows/unit_tests.yaml +++ b/.github/workflows/unit_tests.yaml @@ -44,10 +44,10 @@ jobs: virtualenvs-in-project: true - uses: actions/setup-python@v5.2.0 with: - python-version: '3.9' + python-version: '3.10' - name: Install python dependencies and check code run: | - poetry env use '3.9' + poetry env use '3.10' source .venv/bin/activate poetry install --with docs,test coverage run -m pytest florist/tests/unit && coverage xml && coverage report -m From 1eab8c67738c0d18b77bd35eab6ac4843bfc3d04 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Tue, 22 Oct 2024 18:43:08 -0400 Subject: [PATCH 04/12] Upgrade python version to 3.10 in integration workflow file --- .github/workflows/integration_tests.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/integration_tests.yaml b/.github/workflows/integration_tests.yaml index 42d48a13..9c0b09ba 100644 --- a/.github/workflows/integration_tests.yaml +++ b/.github/workflows/integration_tests.yaml @@ -55,7 +55,7 @@ jobs: mongodb-version: 7.0.8 - name: Install dependencies and check code run: | - poetry env use '3.9' + poetry env use '3.10' source .venv/bin/activate poetry install --with docs,test coverage run -m pytest florist/tests/integration && coverage xml && coverage report -m From df64e1cdcfd099ef6d05fd418aa3cbea6b85fc54 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Tue, 22 Oct 2024 18:47:54 -0400 Subject: [PATCH 05/12] Upgrade static code check workflow python version --- .github/workflows/static_code_checks.yaml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/static_code_checks.yaml b/.github/workflows/static_code_checks.yaml index 788bda83..2b222369 100644 --- a/.github/workflows/static_code_checks.yaml +++ b/.github/workflows/static_code_checks.yaml @@ -41,7 +41,7 @@ jobs: - name: Install dependencies and check code run: | yarn - poetry env use '3.9' + poetry env use '3.10' source .venv/bin/activate poetry install --with test --all-extras pre-commit run --all-files From b08a0d5d379bed038b7262c84ce49c36075fd8fd Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 24 Oct 2024 12:17:18 -0400 Subject: [PATCH 06/12] Fix issues in test_launch integration test --- florist/tests/integration/api/launchers/test_launch.py | 6 ++++-- 1 file changed, 4 insertions(+), 2 deletions(-) diff --git a/florist/tests/integration/api/launchers/test_launch.py b/florist/tests/integration/api/launchers/test_launch.py index a157793c..7e7652f3 100644 --- a/florist/tests/integration/api/launchers/test_launch.py +++ b/florist/tests/integration/api/launchers/test_launch.py @@ -23,13 +23,15 @@ def test_launch() -> None: n_server_rounds = 2 server_address = "0.0.0.0:8080" + temp_dir = "." + with tempfile.TemporaryDirectory() as temp_dir: client_data_paths = [Path(f"{temp_dir}/{i}") for i in range(n_clients)] for client_data_path in client_data_paths: os.mkdir(client_data_path) clients = [MnistClient(client_data_path, [], torch.device("cpu")) for client_data_path in client_data_paths] - server_constructor = partial(get_server, model=MnistNet()) + server_constructor = partial(get_server, MnistNet(), []) server_path = os.path.join(temp_dir, "server") client_base_path = f"{temp_dir}/client" launch( @@ -41,4 +43,4 @@ def test_launch() -> None: client_base_path, ) - assert_string_in_file(f"{server_path}.out", "FL finished in") + assert_string_in_file(f"{server_path}.out", "[SUMMARY]") From ebece2f15489ad38c80a8d72c98ddf4fe36b05bd Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 24 Oct 2024 16:54:20 -0400 Subject: [PATCH 07/12] Changes to make compatible with new reporter structure Updated key name from type to host_type in tests and entities --- florist/api/db/entities.py | 4 ++-- florist/tests/integration/api/launchers/test_launch.py | 2 -- florist/tests/integration/api/test_train.py | 4 ++-- 3 files changed, 4 insertions(+), 6 deletions(-) diff --git a/florist/api/db/entities.py b/florist/api/db/entities.py index f7872412..7ed6eed8 100644 --- a/florist/api/db/entities.py +++ b/florist/api/db/entities.py @@ -62,7 +62,7 @@ class Config: "redis_host": "localhost", "redis_port": "6380", "uuid": "0c316680-1375-4e07-84c3-a732a2e6d03f", - "metrics": '{"type": "client", "initialized": "2024-03-25 11:20:56.819569", "rounds": {"1": {"fit_start": "2024-03-25 11:20:56.827081"}}}', + "metrics": '{"host_type": "client", "initialized": "2024-03-25 11:20:56.819569", "rounds": {"1": {"fit_start": "2024-03-25 11:20:56.827081"}}}', }, } @@ -219,7 +219,7 @@ class Config: "server_address": "localhost:8000", "server_config": '{"n_server_rounds": 3, "batch_size": 8, "local_epochs": 1}', "server_uuid": "d73243cf-8b89-473b-9607-8cd0253a101d", - "server_metrics": '{"type": "server", "fit_start": "2024-04-23 15:33:12.865604", "rounds": {"1": {"fit_start": "2024-04-23 15:33:12.869001"}}}', + "server_metrics": '{"host_type": "server", "fit_start": "2024-04-23 15:33:12.865604", "rounds": {"1": {"fit_start": "2024-04-23 15:33:12.869001"}}}', "redis_host": "localhost", "redis_port": "6379", "clients_info": [ diff --git a/florist/tests/integration/api/launchers/test_launch.py b/florist/tests/integration/api/launchers/test_launch.py index 7e7652f3..f8f14b77 100644 --- a/florist/tests/integration/api/launchers/test_launch.py +++ b/florist/tests/integration/api/launchers/test_launch.py @@ -23,8 +23,6 @@ def test_launch() -> None: n_server_rounds = 2 server_address = "0.0.0.0:8080" - temp_dir = "." - with tempfile.TemporaryDirectory() as temp_dir: client_data_paths = [Path(f"{temp_dir}/{i}") for i in range(n_clients)] for client_data_path in client_data_paths: diff --git a/florist/tests/integration/api/test_train.py b/florist/tests/integration/api/test_train.py index 6844114c..15b47de4 100644 --- a/florist/tests/integration/api/test_train.py +++ b/florist/tests/integration/api/test_train.py @@ -80,7 +80,7 @@ async def test_train(): server_metrics_result = redis_conn.get(server_uuid) assert server_metrics_result is not None and isinstance(server_metrics_result, bytes) server_metrics = json.loads(server_metrics_result.decode("utf8")) - assert server_metrics["type"] == "server" + assert server_metrics["host_type"] == "server" assert "fit_start" in server_metrics assert "fit_end" in server_metrics assert len(server_metrics["rounds"]) == test_n_server_rounds @@ -89,7 +89,7 @@ async def test_train(): client_metrics_result = redis_conn.get(client_uuid) assert client_metrics_result is not None and isinstance(client_metrics_result, bytes) client_metrics = json.loads(client_metrics_result.decode("utf8")) - assert client_metrics["type"] == "client" + assert client_metrics["host_type"] == "client" assert "initialized" in client_metrics assert "shutdown" in client_metrics assert 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"pystoi (>=0.4.0)", "regex (>=2021.9.24)", "requests (>=2.19.0)", "scipy (>1.0.0)", "sentencepiece (>=0.2.0)", "torch (==2.4.1)", "torch-fidelity (<=0.4.0)", "torchaudio (>=0.10.0)", "torchvision (>=0.8)", "tqdm (<4.67.0)", "transformers (>4.4.0)", "transformers (>=4.42.3)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] +all = ["SciencePlots (>=2.0.0)", "gammatone (>=1.0.0)", "ipadic (>=1.0.0)", "librosa (>=0.9.0)", "matplotlib (>=3.6.0)", "mecab-python3 (>=1.0.6)", "mypy (==1.11.2)", "nltk (>3.8.1)", "onnxruntime (>=1.12.0)", "pesq (>=0.0.4)", "piq (<=0.8.0)", "pycocotools (>2.0.0)", "pystoi (>=0.4.0)", "regex (>=2021.9.24)", "requests (>=2.19.0)", "scipy (>1.0.0)", "sentencepiece (>=0.2.0)", "torch (==2.5.0)", "torch-fidelity (<=0.4.0)", "torchaudio (>=0.10.0)", "torchvision (>=0.8)", "tqdm (<4.67.0)", "transformers (>4.4.0)", "transformers (>=4.42.3)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] audio = ["gammatone (>=1.0.0)", "librosa (>=0.9.0)", "onnxruntime (>=1.12.0)", "pesq (>=0.0.4)", "pystoi (>=0.4.0)", "requests (>=2.19.0)", "torchaudio (>=0.10.0)"] detection = ["pycocotools (>2.0.0)", "torchvision (>=0.8)"] -dev = ["SciencePlots (>=2.0.0)", "bert-score (==0.3.13)", "dython (==0.7.6)", "dython (>=0.7.8,<0.8.0)", "fairlearn", "fast-bss-eval (>=0.1.0)", "faster-coco-eval (>=1.6.3)", "gammatone (>=1.0.0)", "huggingface-hub (<0.26)", "ipadic (>=1.0.0)", "jiwer (>=2.3.0)", "kornia (>=0.6.7)", "librosa (>=0.9.0)", "lpips (<=0.1.4)", "matplotlib (>=3.6.0)", "mecab-ko (>=1.0.0)", "mecab-ko-dic (>=1.0.0)", "mecab-python3 (>=1.0.6)", "mir-eval (>=0.6)", "monai (==1.3.2)", "mypy (==1.11.2)", "netcal (>1.0.0)", "nltk (>3.8.1)", "numpy (<2.2.0)", "onnxruntime (>=1.12.0)", "pandas (>1.4.0)", "pesq (>=0.0.4)", "piq (<=0.8.0)", "pycocotools (>2.0.0)", "pystoi (>=0.4.0)", "pytorch-msssim (==1.0.0)", "regex (>=2021.9.24)", "requests (>=2.19.0)", "rouge-score (>0.1.0)", "sacrebleu (>=2.3.0)", "scikit-image (>=0.19.0)", "scipy (>1.0.0)", "sentencepiece (>=0.2.0)", "sewar (>=0.4.4)", "statsmodels (>0.13.5)", "torch (==2.4.1)", "torch-complex (<0.5.0)", "torch-fidelity (<=0.4.0)", "torchaudio (>=0.10.0)", "torchvision (>=0.8)", "tqdm (<4.67.0)", "transformers (>4.4.0)", "transformers (>=4.42.3)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] +dev = ["SciencePlots (>=2.0.0)", "bert-score (==0.3.13)", "dython (==0.7.6)", "dython (>=0.7.8,<0.8.0)", "fairlearn", "fast-bss-eval (>=0.1.0)", "faster-coco-eval (>=1.6.3)", "gammatone (>=1.0.0)", "huggingface-hub (<0.27)", "ipadic (>=1.0.0)", "jiwer (>=2.3.0)", "kornia (>=0.6.7)", "librosa (>=0.9.0)", "lpips (<=0.1.4)", "matplotlib (>=3.6.0)", "mecab-ko (>=1.0.0,<1.1.0)", "mecab-ko-dic (>=1.0.0)", "mecab-python3 (>=1.0.6)", "mir-eval (>=0.6)", "monai (==1.3.2)", "mypy (==1.11.2)", "netcal (>1.0.0)", "nltk (>3.8.1)", "numpy (<2.2.0)", "onnxruntime (>=1.12.0)", "pandas (>1.4.0)", "pesq (>=0.0.4)", "piq (<=0.8.0)", "pycocotools (>2.0.0)", "pystoi (>=0.4.0)", "pytorch-msssim (==1.0.0)", "regex (>=2021.9.24)", "requests (>=2.19.0)", "rouge-score (>0.1.0)", "sacrebleu (>=2.3.0)", "scikit-image (>=0.19.0)", "scipy (>1.0.0)", "sentencepiece (>=0.2.0)", "sewar (>=0.4.4)", "statsmodels (>0.13.5)", "torch (==2.5.0)", "torch-complex (<0.5.0)", "torch-fidelity (<=0.4.0)", "torchaudio (>=0.10.0)", "torchvision (>=0.8)", "tqdm (<4.67.0)", "transformers (>4.4.0)", "transformers (>=4.42.3)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] image = ["scipy (>1.0.0)", "torch-fidelity (<=0.4.0)", "torchvision (>=0.8)"] multimodal = ["piq (<=0.8.0)", "transformers (>=4.42.3)"] text = ["ipadic (>=1.0.0)", "mecab-python3 (>=1.0.6)", "nltk (>3.8.1)", "regex (>=2021.9.24)", "sentencepiece (>=0.2.0)", "tqdm (<4.67.0)", "transformers (>4.4.0)"] -typing = ["mypy (==1.11.2)", "torch (==2.4.1)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] +typing = ["mypy (==1.11.2)", "torch (==2.5.0)", "types-PyYAML", "types-emoji", "types-protobuf", "types-requests", "types-setuptools", "types-six", "types-tabulate"] visual = ["SciencePlots (>=2.0.0)", "matplotlib (>=3.6.0)"] [[package]] @@ -7772,4 +7791,4 @@ propcache = ">=0.2.0" [metadata] lock-version = "2.0" python-versions = ">=3.10.0,<3.11" -content-hash = "47c2abc880dfc4259439615d0ae10ff2c60a5e8dd2730b63c1056622cbe5fc4f" +content-hash = "5417dc36d0eb58409ff4fe39326818c11730b3a992a09e6887f49f73fab4e5c9" diff --git a/pyproject.toml b/pyproject.toml index 4a5096a2..6b5f94f9 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -15,7 +15,6 @@ classifiers = [ [tool.poetry.dependencies] python = ">=3.10.0,<3.11" -fl4health = "^0.2.1" fastapi = "^0.115.2" uvicorn = {version = "^0.23.2", extras = ["standard"]} wandb = "^0.18.0" @@ -25,6 +24,7 @@ python-multipart = "^0.0.9" pydantic = "^1.10.15" motor = "^3.4.0" tqdm = "^4.66.3" +fl4health = {git = "git@github.com:VectorInstitute/FL4Health.git"} [tool.poetry.group.test] optional = true From 4643388934eaff3ac1c3fa4f92a725a008abdef0 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 24 Oct 2024 17:23:39 -0400 Subject: [PATCH 09/12] Try adding fl4health via http instead of ssh to avoid auth issues on github server --- florist/api/monitoring/metrics.py | 3 +-- poetry.lock | 4 ++-- pyproject.toml | 2 +- 3 files changed, 4 insertions(+), 5 deletions(-) diff --git a/florist/api/monitoring/metrics.py b/florist/api/monitoring/metrics.py index 7bf34208..f1d4502d 100644 --- a/florist/api/monitoring/metrics.py +++ b/florist/api/monitoring/metrics.py @@ -89,8 +89,7 @@ def report( scope of a training or evaluation step (eg. at the end of an epoch or round) Defaults to None. """ if not self.initialized: - kwargs = {"run_id": self.run_id} if self.run_id is not None else {} - self.initialize(**kwargs) + self.initialize() if round is None: # Reports outside of a fit round self.metrics.update(data) diff --git a/poetry.lock b/poetry.lock index 718f1d4e..1c56617e 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1685,7 +1685,7 @@ wandb = "^0.18.0" [package.source] type = "git" -url = "git@github.com:VectorInstitute/FL4Health.git" +url = "https://github.com/VectorInstitute/FL4Health.git" reference = "HEAD" resolved_reference = "a38caa26df8cc733f65f625c08f2ef44dd2b2710" @@ -7791,4 +7791,4 @@ propcache = ">=0.2.0" [metadata] lock-version = "2.0" python-versions = ">=3.10.0,<3.11" -content-hash = "5417dc36d0eb58409ff4fe39326818c11730b3a992a09e6887f49f73fab4e5c9" +content-hash = "aef6df7694d9da4efc41e5ce109ac67766a0dee7ebb3665ddedf5c66841983e5" diff --git a/pyproject.toml b/pyproject.toml index 6b5f94f9..272a726f 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -24,7 +24,7 @@ python-multipart = "^0.0.9" pydantic = "^1.10.15" motor = "^3.4.0" tqdm = "^4.66.3" -fl4health = {git = "git@github.com:VectorInstitute/FL4Health.git"} +fl4health = {git = "https://github.com/VectorInstitute/FL4Health.git"} [tool.poetry.group.test] optional = true From 5a44e6241e8ae73cf63f68c91780608e8a446eaf Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 7 Nov 2024 10:26:49 -0500 Subject: [PATCH 10/12] Change type to host_type in front end --- florist/app/jobs/details/page.tsx | 10 +++++----- 1 file changed, 5 insertions(+), 5 deletions(-) diff --git a/florist/app/jobs/details/page.tsx b/florist/app/jobs/details/page.tsx index 0ad2dab0..a8eca5fe 100644 --- a/florist/app/jobs/details/page.tsx +++ b/florist/app/jobs/details/page.tsx @@ -191,10 +191,10 @@ export function JobProgressBar({ const metricsJson = JSON.parse(metrics); let endRoundKey; - if (metricsJson.type === "server") { + if (metricsJson.host_type === "server") { endRoundKey = "fit_end"; } - if (metricsJson.type === "client") { + if (metricsJson.host_type === "client") { endRoundKey = "shutdown"; } @@ -287,11 +287,11 @@ export function JobProgressDetails({ metrics }: { metrics: Object }): ReactEleme let fitStartKey; let fitEndKey; - if (metrics.type === "server") { + if (metrics.host_type === "server") { fitStartKey = "fit_start"; fitEndKey = "fit_end"; } - if (metrics.type === "client") { + if (metrics.host_type === "client") { fitStartKey = "initialized"; fitEndKey = "shutdown"; } @@ -449,7 +449,7 @@ export function JobProgressProperty({ name, value }: { name: string; value: stri "evaluate_start", "evaluate_end", "rounds", - "type", + "host_type", "initialized", "shutdown", ].includes(name) From 6a6c4aec31d6e7dfd431b996a364706985294cea Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 7 Nov 2024 10:37:36 -0500 Subject: [PATCH 11/12] Revert change from type to host_type --- florist/app/jobs/details/page.tsx | 10 +++++----- poetry.lock | 4 ++-- 2 files changed, 7 insertions(+), 7 deletions(-) diff --git a/florist/app/jobs/details/page.tsx b/florist/app/jobs/details/page.tsx index a8eca5fe..0ad2dab0 100644 --- a/florist/app/jobs/details/page.tsx +++ b/florist/app/jobs/details/page.tsx @@ -191,10 +191,10 @@ export function JobProgressBar({ const metricsJson = JSON.parse(metrics); let endRoundKey; - if (metricsJson.host_type === "server") { + if (metricsJson.type === "server") { endRoundKey = "fit_end"; } - if (metricsJson.host_type === "client") { + if (metricsJson.type === "client") { endRoundKey = "shutdown"; } @@ -287,11 +287,11 @@ export function JobProgressDetails({ metrics }: { metrics: Object }): ReactEleme let fitStartKey; let fitEndKey; - if (metrics.host_type === "server") { + if (metrics.type === "server") { fitStartKey = "fit_start"; fitEndKey = "fit_end"; } - if (metrics.host_type === "client") { + if (metrics.type === "client") { fitStartKey = "initialized"; fitEndKey = "shutdown"; } @@ -449,7 +449,7 @@ export function JobProgressProperty({ name, value }: { name: string; value: stri "evaluate_start", "evaluate_end", "rounds", - "host_type", + "type", "initialized", "shutdown", ].includes(name) diff --git a/poetry.lock b/poetry.lock index 1c56617e..410b024b 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1657,7 +1657,7 @@ typing = ["typing-extensions (>=4.12.2)"] [[package]] name = "fl4health" -version = "0.2.1" +version = "0.2.2" description = "Federated Learning for Health" optional = false python-versions = ">=3.10.0,<3.11" @@ -1687,7 +1687,7 @@ wandb = "^0.18.0" type = "git" url = "https://github.com/VectorInstitute/FL4Health.git" reference = "HEAD" -resolved_reference = "a38caa26df8cc733f65f625c08f2ef44dd2b2710" +resolved_reference = "657c4006aae6cd8c143eea23e9378b9e0b3cd357" [[package]] name = "flake8" From c9c1f399b54c3cb143a741fcf252de37081a29c4 Mon Sep 17 00:00:00 2001 From: John Jewell Date: Thu, 7 Nov 2024 10:49:31 -0500 Subject: [PATCH 12/12] Add back change from type to host_type and fix UI test with old names --- florist/app/jobs/details/page.tsx | 10 +++++----- florist/tests/unit/app/jobs/details/page.test.tsx | 6 +++--- 2 files changed, 8 insertions(+), 8 deletions(-) diff --git a/florist/app/jobs/details/page.tsx b/florist/app/jobs/details/page.tsx index 0ad2dab0..a8eca5fe 100644 --- a/florist/app/jobs/details/page.tsx +++ b/florist/app/jobs/details/page.tsx @@ -191,10 +191,10 @@ export function JobProgressBar({ const metricsJson = JSON.parse(metrics); let endRoundKey; - if (metricsJson.type === "server") { + if (metricsJson.host_type === "server") { endRoundKey = "fit_end"; } - if (metricsJson.type === "client") { + if (metricsJson.host_type === "client") { endRoundKey = "shutdown"; } @@ -287,11 +287,11 @@ export function JobProgressDetails({ metrics }: { metrics: Object }): ReactEleme let fitStartKey; let fitEndKey; - if (metrics.type === "server") { + if (metrics.host_type === "server") { fitStartKey = "fit_start"; fitEndKey = "fit_end"; } - if (metrics.type === "client") { + if (metrics.host_type === "client") { fitStartKey = "initialized"; fitEndKey = "shutdown"; } @@ -449,7 +449,7 @@ export function JobProgressProperty({ name, value }: { name: string; value: stri "evaluate_start", "evaluate_end", "rounds", - "type", + "host_type", "initialized", "shutdown", ].includes(name) diff --git a/florist/tests/unit/app/jobs/details/page.test.tsx b/florist/tests/unit/app/jobs/details/page.test.tsx index 23226d2f..5bb9a397 100644 --- a/florist/tests/unit/app/jobs/details/page.test.tsx +++ b/florist/tests/unit/app/jobs/details/page.test.tsx @@ -42,7 +42,7 @@ function makeTestJob(): JobData { local_epochs: 2, }), server_metrics: JSON.stringify({ - type: "server", + host_type: "server", fit_start: "2020-01-01 12:07:07.0707", rounds: { "1": { @@ -79,7 +79,7 @@ function makeTestJob(): JobData { redis_host: "test-redis-host-1", redis_port: "test-redis-port-1", metrics: JSON.stringify({ - type: "client", + host_type: "client", initialized: "2024-10-10 15:05:59.025693", shutdown: "2024-10-10 15:12:34.888213", rounds: { @@ -105,7 +105,7 @@ function makeTestJob(): JobData { redis_host: "test-redis-host-2", redis_port: "test-redis-port-2", metrics: JSON.stringify({ - type: "client", + host_type: "client", initialized: "2024-10-10 15:05:59.025693", rounds: { "1": {