diff --git a/poetry.lock b/poetry.lock index 02558cb..d6e45ad 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,6 +1,6 @@ [[package]] name = "absl-py" -version = "0.12.0" +version = "0.14.1" description = "Abseil Python Common Libraries, see https://github.com/abseil/abseil-py." category = "main" optional = false @@ -33,7 +33,7 @@ six = ">=1.6.1,<2.0" [[package]] name = "biopython" -version = "1.78" +version = "1.79" description = "Freely available tools for computational molecular biology." category = "main" optional = false @@ -44,7 +44,7 @@ numpy = "*" [[package]] name = "cachetools" -version = "4.2.2" +version = "4.2.4" description = "Extensible memoizing collections and decorators" category = "main" optional = false @@ -52,23 +52,34 @@ python-versions = "~=3.5" [[package]] name = "certifi" -version = "2020.12.5" +version = "2021.10.8" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false python-versions = "*" [[package]] -name = "chardet" -version = "4.0.0" -description = "Universal encoding detector for Python 2 and 3" +name = "charset-normalizer" +version = "2.0.7" +description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = ">=3.5.0" + +[package.extras] +unicode_backport = ["unicodedata2"] + +[[package]] +name = "clang" +version = "5.0" +description = "libclang python bindings" +category = "main" +optional = false +python-versions = "*" [[package]] name = "click" -version = "8.0.1" +version = "8.0.3" description = "Composable command line interface toolkit" category = "main" optional = false @@ -87,7 +98,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [[package]] name = "fastapi" -version = "0.66.0" +version = "0.66.1" description = "FastAPI framework, high performance, easy to learn, fast to code, ready for production" category = "main" optional = false @@ -99,9 +110,9 @@ starlette = "0.14.2" [package.extras] all = ["requests (>=2.24.0,<3.0.0)", "aiofiles (>=0.5.0,<0.6.0)", "jinja2 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-test = ["pytest (==5.4.3)", "pytest-cov (==2.10.0)", "pytest-asyncio (>=0.14.0,<0.15.0)", "mypy (==0.812)", "flake8 (>=3.8.3,<4.0.0)", "black (==20.8b1)", "isort (>=5.0.6,<6.0.0)", "requests (>=2.24.0,<3.0.0)", "httpx (>=0.14.0,<0.15.0)", "email_validator (>=1.1.1,<2.0.0)", "sqlalchemy (>=1.3.18,<1.4.0)", "peewee (>=3.13.3,<4.0.0)", "databases[sqlite] (>=0.3.2,<0.4.0)", "orjson (>=3.2.1,<4.0.0)", "ujson (>=4.0.1,<5.0.0)", "async_exit_stack (>=1.0.1,<2.0.0)", "async_generator (>=1.10,<2.0.0)", "python-multipart (>=0.0.5,<0.0.6)", "aiofiles (>=0.5.0,<0.6.0)", "flask (>=1.1.2,<2.0.0)"] +test = ["pytest (>=6.2.4,<7.0.0)", "pytest-cov (>=2.12.0,<3.0.0)", "pytest-asyncio (>=0.14.0,<0.15.0)", "mypy (==0.812)", "flake8 (>=3.8.3,<4.0.0)", "black (==20.8b1)", "isort (>=5.0.6,<6.0.0)", "requests (>=2.24.0,<3.0.0)", "httpx (>=0.14.0,<0.15.0)", "email_validator (>=1.1.1,<2.0.0)", "sqlalchemy (>=1.3.18,<1.4.0)", "peewee (>=3.13.3,<4.0.0)", "databases[sqlite] (>=0.3.2,<0.4.0)", "orjson 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[[package]] name = "oauthlib" -version = "3.1.0" +version = "3.1.1" description = "A generic, spec-compliant, thorough implementation of the OAuth request-signing logic" category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = ">=3.6" [package.extras] -rsa = ["cryptography"] -signals = ["blinker"] -signedtoken = ["cryptography", "pyjwt (>=1.0.0)"] +rsa = ["cryptography (>=3.0.0,<4)"] +signals = ["blinker (>=1.4.0)"] +signedtoken = ["cryptography (>=3.0.0,<4)", "pyjwt (>=2.0.0,<3)"] [[package]] name = "opt-einsum" @@ -285,14 +303,11 @@ tests = ["pytest", "pytest-cov", "pytest-pep8"] [[package]] name = "protobuf" -version = "3.15.8" +version = "3.18.1" description = "Protocol Buffers" category = "main" optional = false -python-versions = "*" - -[package.dependencies] -six = ">=1.9" +python-versions = ">=3.5" [[package]] name = "pyasn1" @@ -330,7 +345,7 @@ email = ["email-validator (>=1.0.3)"] [[package]] name = "pyflakes" 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diff --git a/pyproject.toml b/pyproject.toml index 072c7b6..72194be 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -6,7 +6,7 @@ authors = ["coolneng "] license = "GPL-3.0-or-later" [tool.poetry.dependencies] -python = "3.8.*" +python = "3.9.*" tensorflow = "^2.4.1" biopython = "^1.78" fastapi = "^0.66.0" diff --git a/shell.nix b/shell.nix index 1c52b55..c6b9adc 100644 --- a/shell.nix +++ b/shell.nix @@ -3,7 +3,7 @@ with pkgs; mkShell { - buildInputs = [ python38 poetry ]; + buildInputs = [ python39 poetry ]; shellHook = '' export LD_LIBRARY_PATH=${pkgs.stdenv.cc.cc.lib}/lib:$LD_LIBRARY_PATH unset SOURCE_DATE_EPOCH