From 292743e6cf3d96b42cc727bb459b291a0abc8784 Mon Sep 17 00:00:00 2001 From: Lorenzo Date: Mon, 24 May 2021 14:42:49 +0100 Subject: [PATCH] Fix vulnerabilities. Set minimum Python version to 3.6.8 (#576) * Fix vulnerabilities. Set minimum Python version to 3.6.8 * Fix tests --- hydrus/app_factory.py | 13 -- hydrus/hydrus_logger.py | 15 --- poetry.lock | 258 ++++++++++++++++++++++++++-------------- pyproject.toml | 11 +- requirements.txt | 4 +- tests/test_pep8.py | 15 +-- 6 files changed, 182 insertions(+), 134 deletions(-) delete mode 100644 hydrus/hydrus_logger.py diff --git a/hydrus/app_factory.py b/hydrus/app_factory.py index a99436fa..ac660c24 100644 --- a/hydrus/app_factory.py +++ b/hydrus/app_factory.py @@ -2,12 +2,9 @@ import uuid from flask_cors import CORS from flask_restful import Api -from hydrus_logger import HydrusLogger from hydrus.resources import (Index, Vocab, Contexts, Entrypoint, ItemCollection, Item, Items, ItemMember) -logger = HydrusLogger().get_logger() - def app_factory(api_name: str = "api", vocab_route: str = "vocab") -> Flask: """ @@ -23,16 +20,6 @@ def app_factory(api_name: str = "api", vocab_route: str = "vocab") -> Flask: app.url_map.strict_slashes = False api = Api(app) - @app.after_request - def logging_request_response(response): - if response.location and response.status_code != 302: - logger.info(" {} {}:{} Object_created_at : {}, status_code : {} " - .format(uuid.uuid4(), request.method, request.path, response.location, response.status)) - else: - logger.info(" {} {}:{} status_code : {} " - .format(uuid.uuid4(), request.method, request.path, response.status)) - return response - # Redirecting root_path to root_path/api_name if api_name: @app.route("/") diff --git a/hydrus/hydrus_logger.py b/hydrus/hydrus_logger.py deleted file mode 100644 index d8b3ff97..00000000 --- a/hydrus/hydrus_logger.py +++ /dev/null @@ -1,15 +0,0 @@ -import logging -import logging.config -import structlog -import os - -class HydrusLogger: - def __init__(self): - logging.basicConfig(level = os.environ.get('LOGLEVEL', 'DEBUG')) - logging.config.fileConfig('LogConfig') - structlog.wrap_logger(logging.getLogger()) - structlog.configure(logger_factory=structlog.stdlib.LoggerFactory()) - self.logger = structlog.get_logger() - - def get_logger(self): - return self.logger diff --git a/poetry.lock b/poetry.lock index 37b124f7..d8b55b58 100644 --- a/poetry.lock +++ b/poetry.lock @@ -49,21 +49,21 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "attrs" -version = "20.3.0" +version = "21.2.0" description = "Classes Without Boilerplate" category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [package.extras] -dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "zope.interface", "furo", "sphinx", "pre-commit"] -docs = ["furo", "sphinx", "zope.interface"] -tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "zope.interface"] -tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six"] +dev = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit"] +docs = ["furo", "sphinx", "zope.interface", "sphinx-notfound-page"] +tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface"] +tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins"] [[package]] name = "babel" -version = "2.9.0" +version = "2.9.1" description = "Internationalization utilities" category = "main" optional = false @@ -82,11 +82,11 @@ python-versions = "*" [[package]] name = "cachetools" -version = "4.2.1" +version = "3.1.1" description = "Extensible memoizing collections and decorators" category = "main" optional = false -python-versions = "~=3.5" +python-versions = "*" [[package]] name = "certifi" @@ -155,17 +155,17 @@ pyflakes = ">=2.2.0,<2.3.0" [[package]] name = "flask" -version = "1.1.2" +version = "1.1.4" description = "A simple framework for building complex web applications." category = "main" optional = false python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [package.dependencies] -click = ">=5.1" -itsdangerous = ">=0.24" -Jinja2 = ">=2.10.1" -Werkzeug = ">=0.15" +click = ">=5.1,<8.0" +itsdangerous = ">=0.24,<2.0" +Jinja2 = ">=2.10.1,<3.0" +Werkzeug = ">=0.15,<2.0" [package.extras] dev = ["pytest", "coverage", "tox", "sphinx", "pallets-sphinx-themes", "sphinxcontrib-log-cabinet", "sphinx-issues"] @@ -186,7 +186,7 @@ Six = "*" [[package]] name = "flask-restful" -version = "0.3.8" +version = "0.3.9" description = "Simple framework for creating REST APIs" category = "main" optional = false @@ -215,11 +215,11 @@ python-socketio = ">=4.3.0" [[package]] name = "frozendict" -version = "1.2" -description = "An immutable dictionary" +version = "2.0.2" +description = "A simple immutable dictionary" category = "main" optional = false -python-versions = "*" +python-versions = ">=3.6" [[package]] name = "gevent" @@ -300,18 +300,19 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "importlib-metadata" -version = "2.1.1" +version = "4.0.1" description = "Read metadata from Python packages" category = "main" optional = false -python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7" +python-versions = ">=3.6" [package.dependencies] +typing-extensions = {version = ">=3.6.4", markers = "python_version < \"3.8\""} zipp = ">=0.5" [package.extras] -docs = ["sphinx", "rst.linker"] -testing = ["packaging", "pep517", "unittest2", "importlib-resources (>=1.3)"] +docs = ["sphinx", "jaraco.packaging (>=8.2)", "rst.linker (>=1.9)"] +testing = ["pytest (>=4.6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "packaging", "pep517", "pyfakefs", "flufl.flake8", 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"sha256:779383f6086d90c99ae41cf0ff39aac8a7937a9283ce0a414e5dd782f4c94a84"}, + {file = "typing_extensions-3.10.0.0.tar.gz", hash = "sha256:50b6f157849174217d0656f99dc82fe932884fb250826c18350e159ec6cdf342"}, +] urllib3 = [ - {file = "urllib3-1.26.4-py2.py3-none-any.whl", hash = "sha256:2f4da4594db7e1e110a944bb1b551fdf4e6c136ad42e4234131391e21eb5b0df"}, - {file = "urllib3-1.26.4.tar.gz", hash = "sha256:e7b021f7241115872f92f43c6508082facffbd1c048e3c6e2bb9c2a157e28937"}, + {file = "urllib3-1.22-py2.py3-none-any.whl", hash = "sha256:06330f386d6e4b195fbfc736b297f58c5a892e4440e54d294d7004e3a9bbea1b"}, + {file = "urllib3-1.22.tar.gz", hash = "sha256:cc44da8e1145637334317feebd728bd869a35285b93cbb4cca2577da7e62db4f"}, ] wcwidth = [ {file = "wcwidth-0.2.5-py2.py3-none-any.whl", hash = "sha256:beb4802a9cebb9144e99086eff703a642a13d6a0052920003a230f3294bbe784"}, @@ -1357,8 +1431,8 @@ werkzeug = [ {file = "Werkzeug-0.16.1.tar.gz", hash = "sha256:b353856d37dec59d6511359f97f6a4b2468442e454bd1c98298ddce53cac1f04"}, ] zipp = [ - {file = "zipp-1.2.0-py2.py3-none-any.whl", hash = "sha256:e0d9e63797e483a30d27e09fffd308c59a700d365ec34e93cc100844168bf921"}, - {file = "zipp-1.2.0.tar.gz", hash = "sha256:c70410551488251b0fee67b460fb9a536af8d6f9f008ad10ac51f615b6a521b1"}, + {file = "zipp-3.4.1-py3-none-any.whl", hash = "sha256:51cb66cc54621609dd593d1787f286ee42a5c0adbb4b29abea5a63edc3e03098"}, + {file = "zipp-3.4.1.tar.gz", hash = "sha256:3607921face881ba3e026887d8150cca609d517579abe052ac81fc5aeffdbd76"}, ] "zope.event" = [ {file = "zope.event-4.5.0-py2.py3-none-any.whl", hash = "sha256:2666401939cdaa5f4e0c08cf7f20c9b21423b95e88f4675b1443973bdb080c42"}, diff --git a/pyproject.toml b/pyproject.toml index 8de3d03f..ffdce87c 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -1,20 +1,21 @@ [tool.poetry] name = "hydrus" -version = "0.4.1" +version = "0.4.2" description = "Hydra Ecosystem Flagship Server. Deploy REST data for Web 3.0" authors = ["Hydra Ecosystem"] license = "MIT License" [tool.poetry.dependencies] -python = "^3.5.2" +python = ">=3.6.8" alembic = "~1.0.10" aniso8601 = "~3.0.2" appdirs = "~1.4.3" blinker = "~1.4" click = "~7.1.2" certifi = "~2019.11.28" +flake8 = "~3.8.3" Flask = "~1.1.1" -Flask-Cors = "~3.0.8" +Flask-Cors = ">=3.0.10" Flask-RESTful = "~0.3.7" Flask-SocketIO = "~4.2.1" gevent = "~20.12.0" @@ -38,12 +39,12 @@ python-editor = "~1.0.4" python-engineio = "~3.11.2" python-socketio = "~4.4.0" pytz = "~2019.3" -PyYAML = ">=5.3" +PyYAML = ">=5.4" six = "~1.13.0" SQLAlchemy = "~1.3.12" +structlog = ">=21.1.0" thespian = "~3.9.11" Werkzeug = "~0.16.0" -flake8 = "~3.8.3" [tool.poetry.dev-dependencies] diff --git a/requirements.txt b/requirements.txt index 9017b637..495b6ebe 100644 --- a/requirements.txt +++ b/requirements.txt @@ -6,7 +6,7 @@ click==7.1.2 certifi==2019.11.28 flake8 Flask==1.1.1 -Flask-Cors==3.0.8 +Flask-Cors==3.0.10 Flask-RESTful==0.3.7 Flask-SocketIO==4.2.1 gevent==20.12.0 @@ -30,7 +30,7 @@ python-editor==1.0.4 python-engineio==3.11.2 python-socketio==4.4.0 pytz==2019.3 -PyYAML==5.3 +PyYAML==5.4.1 six==1.13.0 SQLAlchemy==1.3.12 thespian==3.9.11 diff --git a/tests/test_pep8.py b/tests/test_pep8.py index 81a7c7c3..e9eb853b 100644 --- a/tests/test_pep8.py +++ b/tests/test_pep8.py @@ -1,24 +1,25 @@ """Run PEP8 code format checker on all python files except samples directory.""" import os -from os.path import abspath, dirname +from os.path import abspath, dirname, join +import logging import pep8 def test_pep8(): """Test method to check PEP8 compliance over the entire project.""" - file_structure = dirname(dirname(abspath(__file__))) - print(f"Testing for PEP8 compliance of python files in {file_structure}") + file_structure = join(dirname(dirname(__file__)), 'hydrus') + logging.info(f"Testing for PEP8 compliance of python files in {file_structure}") style = pep8.StyleGuide() style.options.max_line_length = 100 # Set this to desired maximum line length filenames = [] # Set this to desired folder location for root, _, files in os.walk(file_structure): - python_files = [f for f in files if f.endswith('.py') and "examples" not in root] + exclude = ['samples', 'examples'] + python_files = [f for f in files if f.endswith('.py') and all(e not in root for e in exclude)] for file in python_files: - if len(root.split('samples')) != 2: # Ignore samples directory - filename = f'{root}/{file}' - filenames.append(filename) + filename = f'{root}/{file}' + filenames.append(filename) check = style.check_files(filenames) assert check.total_errors == 0, f'PEP8 style errors: check.total_errors'