diff --git a/Dockerfile b/Dockerfile index 77849f2..b0a4bbe 100644 --- a/Dockerfile +++ b/Dockerfile @@ -1,33 +1,14 @@ -# basic python3 image as base -FROM continuumio/miniconda3 +FROM harbor2.vantage6.ai/infrastructure/algorithm-base:5.0 # This is a placeholder that should be overloaded by invoking # docker build with '--build-arg PKG_NAME=...' ARG PKG_NAME="v6_diagnostics" ENV PKG_NAME=${PKG_NAME} -ENV PATH="/opt/conda/envs/py310/bin/:${PATH}" - - -EXPOSE 8888 -LABEL p8888="port8" - -EXPOSE 5555 -LABEL p5555="port5" - # install federated algorithm COPY . /app - -RUN apt update - -RUN wget http://archive.ubuntu.com/ubuntu/pool/main/o/openssl/libssl1.1_1.1.0g-2ubuntu4_amd64.deb -RUN dpkg -i libssl1.1_1.1.0g-2ubuntu4_amd64.deb - -RUN conda create -n py310 python=3.10 - RUN pip install /app - - -# Tell docker to execute `docker_wrapper()` when the image is run. +# Tell docker to execute `wrap_algorithm()` when the image is run. This function +# will ensure that the algorithm method is called properly. CMD python -c "from vantage6.algorithm.tools.wrap import wrap_algorithm; wrap_algorithm()" \ No newline at end of file diff --git a/Makefile b/Makefile index 808ae74..b7063fa 100644 --- a/Makefile +++ b/Makefile @@ -1,4 +1,5 @@ -IMAGE_NAME := "harbor2.vantage6.ai/algorithms/diagnostic" +IMAGE_NAME := harbor2.vantage6.ai/algorithms/diagnostic +TAG := uluru help: @echo "publish - build and push docker image to registry" @@ -7,9 +8,8 @@ help: @echo "help - show this help message and exit" publish: image push - image: - docker build -t $(IMAGE_NAME) . + docker build -t $(IMAGE_NAME):$(TAG) . push: - docker push $(IMAGE_NAME) \ No newline at end of file + docker push $(IMAGE_NAME):$(TAG) \ No newline at end of file diff --git a/README.md b/README.md index 01a890d..710c475 100644 --- a/README.md +++ b/README.md @@ -19,31 +19,17 @@ pip install . ``` ### Execute -```bash -vtest run-test-algorithm --host http://localhost --port 5000 --username *** \ - --password *** --collaboration 1 [--online-only] [--organization 1] \ - [--organization N] -``` + +Follow instructions in the CLI: ```bash -python -i v6_diagnostic/cli.py [host] [port] [path] [username] [password] +v6 test --help ``` -````python ->>> from vantage6.client import Client ->>> client = Client('http://localhost', 5000, '***', '***') ->>> from v6_diagnostics.cli import DiagnosticRunner ->>> runner = DiagnosticRunner(client, collaboration_id, organizations, -... online_only) ->>> runner() -```` +See the [vantage6 documentation](https://docs.vantage6.ai/) for more information on how +to use the CLI. -## Build - -### Package -```bash -python setup.py sdist bdist_wheel -``` +The ``v6 test integration-test`` command and ``v6 test feature-test`` command will run this algorithm. ### Docker image ```bash diff --git a/cli/diagnostic_runner.py b/cli/diagnostic_runner.py deleted file mode 100644 index fae427b..0000000 --- a/cli/diagnostic_runner.py +++ /dev/null @@ -1,128 +0,0 @@ -import json - -from typing import Any -from rich.console import Console -from rich.table import Table - -from vantage6.client import UserClient -from vantage6.common import info, debug - -IMAGE_NAME = "harbor2.vantage6.ai/algorithms/diagnostic:v4" - - -class DiagnosticRunner: - - def __init__(self, client: UserClient, collaboration_id: int, - organizations: int | str, online_only: bool = False): - - self.client = client - self.collaboration_id = collaboration_id - - if isinstance(organizations, str): - # col = self.client.collaboration.get(self.collaboration_id) - # TODO get all organizations if multiple pages - orgs = self.client.organization.list( - collaboration=self.collaboration_id - ) - self.organization_ids = [org['id'] for org in orgs['data']] - elif isinstance(organizations, list | tuple): - self.organization_ids = organizations - - if online_only: - nodes = self.client.node.list( - collaboration=self.collaboration_id, - is_online=True - ) - debug(nodes) - online_orgs = [node['organization']['id'] for node in nodes['data']] - self.organization_ids = \ - list(set(self.organization_ids).intersection(online_orgs)) - - info(f"Running diagnostics to {len(self.organization_ids)} " - "organization(s)") - info(f" organizations: {self.organization_ids}") - info(f" collaboration: {self.collaboration_id}") - - def __call__(self, base: bool = True, vpn: bool = True, - *args: Any, **kwds: Any) -> Any: - return self.base_features() - # return self.base_features() | self.vpn_features() - - def base_features(self) -> dict: - task = self.client.task.create( - collaboration=self.collaboration_id, - name="test", - description="Basic Diagnostic test", - image=IMAGE_NAME, - input_={ - "method": "base_features", - }, - organizations=self.organization_ids, - databases=[ - {'label': 'default'} - ] - ) - debug(task) - - return self._wait_and_display(task.get("id")) - - def vpn_features(self) -> dict: - - self.client.node.list(collaboration=self.collaboration_id) - - task = self.client.task.create( - collaboration=self.collaboration_id, - name="test", - description="VPN Diagnostic test", - image=IMAGE_NAME, - input_={ - "method": "vpn_features", - "kwargs": {"other_nodes": self.organization_ids} - }, - organizations=self.organization_ids, - ) - - return self._wait_and_display(task.get("id")) - - def _wait_and_display(self, task_id: int) -> None: - # TODO should we have the option to combine these in one request? Seems - # like it would be more efficient - # TODO ensure that we get all pages of results - results = self.client.wait_for_results(task_id=task_id)['data'] - runs = self.client.run.from_task(task_id=task_id)['data'] - print("\n") - for res in results: - matched_run = [ - run for run in runs if run['id'] == res['run']['id'] - ][0] - self.display_diagnostic_results( - res, matched_run['organization']['id'] - ) - print() - return results - - def display_diagnostic_results(self, result: dict, org_id: int) -> None: - res = json.loads(result["result"]) - t_ = Table(title=f"Basic Diagnostics Summary (organization {org_id})") - t_.add_column('name') - t_.add_column('success') - e_ = Table(title=f"Basic Diagnostics Errors (organization {org_id})") - e_.add_column('name') - e_.add_column('exception') - e_.add_column('traceback') - e_.add_column('payload') - errors = False - for diag in res: - if diag['success']: - success = ":heavy_check_mark: [green]success[/green]" - else: - success = ":x: [red]failed[/red]" - e_.add_row(diag["name"], diag["exception"], diag["traceback"], - diag["payload"]) - errors = True - t_.add_row(diag["name"], success) - - console = Console() - console.print(t_) - if errors: - console.print(e_) \ No newline at end of file diff --git a/cli/test.py b/cli/test.py deleted file mode 100644 index 601df28..0000000 --- a/cli/test.py +++ /dev/null @@ -1,117 +0,0 @@ -import click -import sys - -from vantage6.client import UserClient -from vantage6.algorithm.tools.util import error -from vantage6.cli.dev import ( - create_demo_network, start_demo_network, stop_demo_network, - remove_demo_network -) -from vantage6.cli.server import get_server_context -from vantage6.cli.utils import prompt_config_name, check_config_name_allowed - -from cli.diagnostic_runner import DiagnosticRunner - -@click.group(name="test") -def cli_test() -> None: - """ - The `vtest` commands allow you to run diagnostic tests on your vantage6 - environment. - """ - -@cli_test.command(name="run-test-algorithm") -@click.option("--host", type=str, default="http://localhost", - help="URL of the server") -@click.option("--port", type=int, default=5000, help="Port of the server") -@click.option("--api-path", type=str, default="/api", - help="API path of the server") -@click.option("--username", type=str, default="root", - help="Username of vantage6 user account to create the task with") -@click.option("--password", type=str, default="root", - help="Password of vantage6 user account to create the task with") -@click.option("--collaboration", type=int, default=1, - help="ID of the collaboration to create the task in") -@click.option("-o", "--organization", type=int, default=[], multiple=True, - help="ID(s) of the organization(s) to create the task for") -@click.option("--all-nodes", is_flag=True, - help="Run the diagnostic test on all nodes in the collaboration") -@click.option("--online-only", is_flag=True, - help="Run the diagnostic test on only nodes that are online") -def feature_tester( - host: str, port: int, api_path: str, username: str, password: str, - collaboration: int, organization: list[int | str], all_nodes: bool, - online_only: bool -) -> list[dict]: - """ - Run diagnostic checks on an existing vantage6 network. - - This command will create a task in the requested collaboration that will - test the functionality of vantage6, and will report back the results. - """ - if all_nodes and organization: - error("Cannot use --all and --organization at the same time.") - sys.exit(1) - - if all_nodes or not organization: - organization = 'all' - - client = UserClient(host=host, port=port, path=api_path, - log_level='critical') - client.authenticate(username=username, password=password) - client.setup_encryption(None) - diagnose = DiagnosticRunner(client, collaboration, organization, - online_only) - res = diagnose(base=False) - return res - - -@cli_test.command(name="run-integration-test") -@click.option('-n', '--name', default=None, type=str, - help="Name for your development setup") -@click.option('--server-url', type=str, default='http://host.docker.internal', - help='Server URL to point to. If you are using Docker Desktop, ' - 'the default http://host.docker.internal should not be changed.') -@click.option('-i', '--image', type=str, default=None, - help='Server Docker image to use') -@click.pass_context -def run_integration_test(click_ctx: click.Context, name: str, server_url: str, - image: str) -> list[dict]: - """ - Create development network and run diagnostic checks on it. - - This is a full integration test of the vantage6 network. It will create - a test server with some nodes using the `vdev` commands, and then run the - v6-diagnostics algorithm to test all functionality. - """ - # get name for the development setup - if not given - and check if it is - # allowed - name = prompt_config_name(name) - check_config_name_allowed(name) - - # create server & node configurations and create test resources ( - # collaborations, organizations, etc) - click_ctx.invoke( - create_demo_network, name=name, num_nodes=3, server_url=server_url, - server_port=5000, image=image - ) - - # start the server and nodes - click_ctx.invoke( - start_demo_network, name=name, system_folders=True, server_image=image, - node_image=image - ) - - # run the diagnostic tests - # TODO the username and password should be coordinated with the vdev - # command - diagnose_results = click_ctx.invoke( - feature_tester, host="http://localhost", port=5000, api_path='/api', - username='org_1-admin', password='password', collaboration=1, - organization=[], all_nodes=True, online_only=False - ) - - # clean up the test resources - click_ctx.invoke(stop_demo_network, name=name, system_folders=True) - click_ctx.invoke(remove_demo_network, name=name, system_folders=True) - - return diagnose_results diff --git a/pyproject.toml b/pyproject.toml new file mode 100644 index 0000000..067744e --- /dev/null +++ b/pyproject.toml @@ -0,0 +1,28 @@ +[build-system] +requires = ["hatchling"] +build-backend = "hatchling.build" + +[project] +name = "v6-diagnostics" +version = "1.0.0" +description = "vantage6 node diagnostic tools" +readme = "README.md" +requires-python = ">=3.13" +dependencies = [ + "vantage6-algorithm-tools>=5.0.0a43", + "vantage6-client>=5.0.0a43", + "requests", + "pyjwt", + "rich", + "click", +] +license = { text = "Apache License 2.0" } +keywords = ["vantage6", "algorithm", "diagnostics"] +classifiers = [ + "License :: OSI Approved :: Apache Software License", + "Programming Language :: Python :: 3", + "Programming Language :: Python :: 3.13", +] + +[tool.hatch.build.targets.wheel] +packages = ["v6_diagnostics"] \ No newline at end of file diff --git a/requirements.txt b/requirements.txt deleted file mode 100644 index 1b912e6..0000000 --- a/requirements.txt +++ /dev/null @@ -1,6 +0,0 @@ -vantage6-algorithm-tools -vantage6-client -requests -pyjwt -rich -click diff --git a/setup.py b/setup.py deleted file mode 100644 index b015138..0000000 --- a/setup.py +++ /dev/null @@ -1,35 +0,0 @@ -from pathlib import Path -from codecs import open -from setuptools import setup, find_packages - -# we're using a README.md, if you do not have this in your folder, simply -# replace this with a string. -here = Path(__file__).parent.resolve() -with open(here / 'README.md', encoding='utf-8') as f: - long_description = f.read() - -# Here you specify the meta-data of your package. 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vantage6.algorithm.tools.decorators import algorithm_client + +# use default infra implementation of read_csv +from vantage6.algorithm.data_extraction import read_csv # noqa: F401 from v6_diagnostics.util import header, DiagnosticResult from v6_diagnostics.base_features import ( # noqa: F401 diagnose_environment, diagnose_input_file, diagnose_output_file, - diagnose_token_file, - diagnose_temporary_volume, - diagnose_temporary_volume_file_exists, + diagnose_token, diagnose_local_proxy, diagnose_local_proxy_subtask, # child task runs this, so we need to keep the import here diagnose_local_proxy_subtask_stop, diagnose_isolation, - diagnose_external_port, - diagnose_database -) - -from v6_diagnostics.vpn import ( # noqa: F401 - diagnose_vpn_connection, - RPC_echo, - RPC_wait + diagnose_database, ) +@central @algorithm_client def base_features(client: AlgorithmClient) -> list[DiagnosticResult]: """ @@ -40,32 +36,16 @@ def base_features(client: AlgorithmClient) -> list[DiagnosticResult]: list[DiagnosticResult] The results of the diagnostics. """ - header('Running base feature diagnostics') + header("Running base feature diagnostics") results = [ diagnose_environment().json, diagnose_input_file().json, diagnose_output_file().json, - diagnose_token_file().json, - diagnose_temporary_volume().json, - diagnose_temporary_volume_file_exists().json, + diagnose_token().json, diagnose_local_proxy().json, diagnose_local_proxy_subtask(client).json, diagnose_isolation().json, - diagnose_external_port().json, + diagnose_database().json, ] - results.extend( - [diagnosis.json for diagnosis in diagnose_database()] - ) - - return results - -@algorithm_client -def vpn_features(client: AlgorithmClient, other_nodes) \ - -> list[DiagnosticResult]: - """Run all diagnostics.""" - header('Running VPN feature diagnostics') - results = [ - diagnose_vpn_connection(client, other_nodes).json - ] return results diff --git a/v6_diagnostics/base_features.py b/v6_diagnostics/base_features.py index 74157d8..a80ac4c 100644 --- a/v6_diagnostics/base_features.py +++ b/v6_diagnostics/base_features.py @@ -32,17 +32,6 @@ Checks if the algorithm container is isolated such that it can not reach the internet. It tests this by trying to reach google.nl, so make sure this is not a whitelisted domain when testing. - External port test - Check that the algorithm can find its own ports. Algorithms can - request a dedicated port for communication with other algorithm - containers. The port that they require is stored in the Dockerfile - using the ``EXPORT`` and ``LABEL`` keywords. For example: - ```Dockefile - LABEL p8888="port8" - EXPOSE 8888 - ``` - It however does not check that the application is actually listening - on the port. Database readable Check if the file-based database is readable. """ @@ -54,10 +43,10 @@ import requests import jwt -from pathlib import Path from requests.exceptions import ConnectionError from vantage6.algorithm.client import AlgorithmClient +from vantage6.algorithm.decorator.action import federated from v6_diagnostics.util import DiagnosticResult, header from vantage6.algorithm.tools.util import get_env_var @@ -104,46 +93,14 @@ def diagnose_output_file() -> DiagnosticResult: return diagnostic -def diagnose_token_file() -> DiagnosticResult: +def diagnose_token() -> DiagnosticResult: """Diagnose the token file.""" header("Diagnose the token file") try: - with open(get_env_var("TOKEN_FILE"), "r") as f: - token = f.read() - diagnostic = DiagnosticResult("TOKEN_FILE", True, token) + token = get_env_var("CONTAINER_TOKEN") + diagnostic = DiagnosticResult("CONTAINER_TOKEN", True, token) except Exception as exc: - diagnostic = DiagnosticResult("TOKEN_FILE", False, exception=exc) - - print(diagnostic) - return diagnostic - - -def diagnose_temporary_volume() -> DiagnosticResult: - """Diagnose the temporary volume.""" - header("Diagnose writing to temporary volume") - try: - temp_file = Path(get_env_var("TEMPORARY_FOLDER")) / "test.txt" - with open(temp_file, "w") as f: - f.write("test") - diagnostic = DiagnosticResult("TEMPORARY_VOLUME", True) - except Exception as exc: - diagnostic = DiagnosticResult("TEMPORARY_VOLUME", False, exception=exc) - - print(diagnostic) - return diagnostic - - -def diagnose_temporary_volume_file_exists() -> DiagnosticResult: - """Diagnose the temporary volume.""" - header("Diagnose that the temporary file is created") - try: - temp_file = Path(get_env_var("TEMPORARY_FOLDER")) / "test.txt" - file_exists = Path(temp_file).exists() - diagnostic = DiagnosticResult("TEMPORARY_VOLUME_FILE_EXISTS", file_exists) - except Exception as exc: - diagnostic = DiagnosticResult( - "TEMPORARY_VOLUME_FILE_EXISTS", False, exception=exc - ) + diagnostic = DiagnosticResult("CONTAINER_TOKEN", False, exception=exc) print(diagnostic) return diagnostic @@ -168,19 +125,15 @@ def diagnose_local_proxy_subtask(client: AlgorithmClient) -> DiagnosticResult: """Diagnose the local proxy.""" header("Diagnose the local proxy subtask") try: - - with open(get_env_var("TOKEN_FILE"), "r") as f: - token = f.read() + token = get_env_var("CONTAINER_TOKEN") identity = jwt.decode(token, options={"verify_signature": False})["sub"] - input_ = {"master": True, "method": "diagnose_local_proxy_subtask_stop"} - task = client.task.create( + method="diagnose_local_proxy_subtask_stop", name="feature-tester-subtask", description="This task is from the feature tester", organizations=[identity.get("organization_id")], - input_=input_, ) result = client.wait_for_results(task.get("id")) @@ -193,6 +146,7 @@ def diagnose_local_proxy_subtask(client: AlgorithmClient) -> DiagnosticResult: return diagnostic +@federated def diagnose_local_proxy_subtask_stop(*_args, **_kwargs) -> bool: """Subtask stop""" return True @@ -219,74 +173,50 @@ def diagnose_isolation() -> DiagnosticResult: return diagnostic -def diagnose_external_port() -> DiagnosticResult: - """Diagnose the external port.""" - header("Diagnose the external port") +# TODO it would be nice to extend this check to see if the database is the correct one. +# That is probably best/easiest when we have specific checks for a federated step. +def diagnose_database() -> DiagnosticResult: + """Diagnose the database.""" + header("Diagnose the database") try: - with open(get_env_var("TOKEN_FILE"), "r") as f: - token = f.read() - - host = get_env_var("HOST") - port = get_env_var("PORT") - - # port should be published as we are running this code.. So no - # need for polling - response = requests.get( - f"{host}:{port}/vpn/algorithm/addresses", - headers={"Authorization": "Bearer " + token}, - params={"include_parent": True, "include_children": True}, - ) - - # we also assume that only a single task has been posted as we - # are not testing the connectivity between nodes yet - p5 = p8 = False - pU = True - result = response.json() - for addr in result["addresses"]: - if addr["label"] == "port5": - p5 = True - elif addr["label"] == "port8": - p8 = True - else: - pU = False - - diagnostic = DiagnosticResult( - "EXTERNAL_PORT_TEST", all([p5, p8, pU]), payload=result - ) + requested_dataframes = get_env_var("USER_REQUESTED_DATAFRAMES") + diagnostic = DiagnosticResult("DATAFRAME ENV VARS", True, requested_dataframes) except Exception as exc: - diagnostic = DiagnosticResult("EXTERNAL_PORT_TEST", False, exception=exc) + diagnostic = DiagnosticResult("DATAFRAME ENV VARS", False, exception=exc) print(diagnostic) return diagnostic -def diagnose_database() -> list[DiagnosticResult]: - """Diagnose the file-based database.""" - header("Diagnose the file-based database") - diagnostics = [] - try: - db_labels = get_env_var("DB_LABELS").split(",") - for label in db_labels: - db_uri = get_env_var(f"{label.upper()}_DATABASE_URI") - db_type = get_env_var(f"{label.upper()}_DATABASE_TYPE") - - if db_type in ["sql", "omop", "sparql"]: - # We do not expect these databases to be files, so don't - # perform checks on them - continue - elif Path(db_uri).exists(): - diagnostic = DiagnosticResult(f"DATABASE {label.upper()}", True) - else: - diagnostic = DiagnosticResult( - f"DATABASE {label.upper()}", - False, - payload=f"{db_uri} does not exist", - ) - diagnostics.append(diagnostic) - except Exception as exc: - diagnostic = DiagnosticResult("DATABASE", False, exception=exc) - diagnostics.append(diagnostic) - - for diagnostic in diagnostics: - print(diagnostic) - return diagnostics +# TODO we might reintroduce this check in v5 but it can only be done in a data +# extraction step in v5 - so then we need to have separate checks for that step. +# def diagnose_database() -> list[DiagnosticResult]: +# """Diagnose the file-based database.""" +# header("Diagnose the file-based database") +# diagnostics = [] +# try: +# db_labels = get_env_var("DATABASE_LABELS").split(",") +# for label in db_labels: +# db_uri = get_env_var(f"DATABASE_{label.upper()}_URI") +# db_type = get_env_var(f"DATABASE_{label.upper()}_TYPE") + +# if db_type in ["sql", "omop", "sparql", "other"]: +# # We do not expect these databases to be files, so don't +# # perform checks on them +# continue +# elif Path(db_uri).exists(): +# diagnostic = DiagnosticResult(f"DATABASE {label.upper()}", True) +# else: +# diagnostic = DiagnosticResult( +# f"DATABASE {label.upper()}", +# False, +# payload=f"{db_uri} does not exist", +# ) +# diagnostics.append(diagnostic) +# except Exception as exc: +# diagnostic = DiagnosticResult("DATABASE", False, exception=exc) +# diagnostics.append(diagnostic) + +# for diagnostic in diagnostics: +# print(diagnostic) +# return diagnostics diff --git a/v6_diagnostics/client.py b/v6_diagnostics/client.py deleted file mode 100644 index e69de29..0000000 diff --git a/v6_diagnostics/ssh_tunnel.py b/v6_diagnostics/ssh_tunnel.py deleted file mode 100644 index e69de29..0000000 diff --git a/v6_diagnostics/util.py b/v6_diagnostics/util.py index ab733e6..3a6e3e5 100644 --- a/v6_diagnostics/util.py +++ b/v6_diagnostics/util.py @@ -1,9 +1,5 @@ import traceback from typing import Any -import os -import base64 - -from vantage6.common.globals import STRING_ENCODING, ENV_VAR_EQUALS_REPLACEMENT class DiagnosticResult: @@ -39,31 +35,3 @@ def __repr__(self): def header(text): """Print header.""" print("\n" + text.center(80, "-")) - - -# def get_env_var(var_name: str, default: str | None = None) -> str: -# """ -# Get the value of an environment variable. Environment variables are encoded -# by the node so they need to be decoded here. - -# Note that this decoding follows the reverse of the encoding in the node: -# first replace '=' back and then decode the base32 string. - -# Parameters -# ---------- -# var_name : str -# Name of the environment variable - -# Returns -# ------- -# var_value : str | None -# Value of the environment variable, or default value if not found -# """ -# try: -# encoded_env_var_value = \ -# os.environ[var_name].replace( -# ENV_VAR_EQUALS_REPLACEMENT, "=" -# ).encode(STRING_ENCODING) -# return base64.b32decode(encoded_env_var_value).decode(STRING_ENCODING) -# except KeyError: -# return default diff --git a/v6_diagnostics/vpn.py b/v6_diagnostics/vpn.py deleted file mode 100644 index f571f46..0000000 --- a/v6_diagnostics/vpn.py +++ /dev/null @@ -1,165 +0,0 @@ -""" methods.py - -This file contains all algorithm pieces that are executed on the nodes. -It is important to note that the master method is also triggered on a -node just the same as any other method. - -When a return statement is reached the result is send to the central -server after encryption. -""" - -import socket -import asyncio -import traceback - -from typing import Any -from time import sleep - -from vantage6.algorithm.tools.util import info -from vantage6.algorithm.client import AlgorithmClient - -from v6_diagnostics.util import header, DiagnosticResult - - -MESSAGE = b'Hello vantage6!\n' -WAIT = 5 -TIMEOUT = 20 -RETRY = 20 - - -def diagnose_vpn_connection(client, other_nodes: list[int], **kwargs) \ - -> DiagnosticResult: - header('Diagnosing VPN connection') - - try: - successes = echo(client, other_nodes, **kwargs) - diagnostic = DiagnosticResult('VPN connection', all(successes), - successes) - except Exception as e: - diagnostic = DiagnosticResult('VPN connection', False, exception=e) - - print(diagnostic) - return diagnostic - - -def echo(client: AlgorithmClient, other_nodes: list[int], **kwargs) \ - -> list[bool]: - try: - return try_echo(client, other_nodes) - except Exception as exc: - info('Exception!') - info(traceback.format_exc()) - raise exc - - -def try_echo(client: AlgorithmClient, other_nodes: list[int]) -> list[bool]: - - info("Defining input parameters") - # create a new task for all organizations in the collaboration. - info(f"Dispatching node-tasks to organizations {other_nodes}") - subtask = client.task.create( - input_={"method": "RPC_echo"}, organizations=other_nodes - ) - info(f"Waiting {WAIT} seconds for the algorithm containers to boot up...") - sleep(WAIT) - - # Ip address and port of algorithm can be found in results model - n_nodes = len(other_nodes) - addresses = _await_port_numbers(client, num_nodes=n_nodes, subtask=subtask["id"]) - succeeded_echos = [] - info(f"Echoing to {len(addresses)} algorithms...") - - for a in addresses: - ip = a["ip"] - port = a["port"] - info(f"Sending message to {ip}:{port}") - - try: - succeeded_echos.append(_check_echo(ip, port)) - except socket.timeout: - info("Timeout! Skipping to next address.") - - info(f"Succeeded echos: {succeeded_echos}") - return succeeded_echos - - -def _await_port_numbers( - client: AlgorithmClient, num_nodes: int, subtask: int -) -> list[dict[str, Any]]: - - results = get_vpn_addresses(client, subtask) - - - info(f"Addresses: {results}") - attempts = 0 - while len(results) < num_nodes: - if attempts >= RETRY: - info("Cannot contact all organizations!") - break - - info("Polling results for port numbers...") - results = get_vpn_addresses(client, subtask) - info(results) - attempts += 1 - sleep(4) - - info(str(results)) - return results - - -def get_vpn_addresses(client, subtask): - results = client.vpn.get_addresses(only_children=True, label="port8") - - return [r for r in results if r["task_id"] == subtask] - - -def _check_echo(host: str, port: int) -> bool: - info(f"Checking echo on {host}:{port}") - - with socket.socket(socket.AF_INET, socket.SOCK_STREAM) as s: - s.settimeout(TIMEOUT) - s.connect((host, port)) - s.sendall(MESSAGE) - response = s.recv(len(MESSAGE)) - return response == MESSAGE - - -def RPC_echo(*args, **kwargs): - """ - Start echo socket server - """ - asyncio.run(_serve_echo()) - return - - -def RPC_wait(*args, **kwargs): - try: - sleep(10000) - except KeyboardInterrupt: - pass - finally: - return - - -async def _serve_echo(): - info('Start') - server = await asyncio.start_server(_handle_echo, '0.0.0.0', 8888) - - info(f'Running echo server for {TIMEOUT} seconds...') - - async with server: - await asyncio.sleep(TIMEOUT) - - info('Terminated') - - -async def _handle_echo(reader, writer): - # Read message - line = await reader.readline() - - info(f'Received {line.decode()}, will echo') - writer.writelines([line]) - await writer.drain() - - print('Close the connection') - writer.close() diff --git a/v6_diagnostics/whitelisting.py b/v6_diagnostics/whitelisting.py deleted file mode 100644 index e69de29..0000000