diff --git a/Dockerfile b/Dockerfile index 2b59aeb98a1d0263d01dc39010d0f7f11f6e58a9..9730def55293f868b3d2effa6249fafde19f55d0 100644 --- a/Dockerfile +++ b/Dockerfile @@ -1,6 +1,4 @@ ARG FROM_IMAGE=usgs/python:3.8-obspy - - FROM ${FROM_IMAGE} ARG GIT_BRANCH_NAME=none @@ -21,12 +19,14 @@ RUN cd /geomag-algorithms \ # install into system python && poetry export -o requirements.txt --dev --without-hashes \ # only install dependencies, not project - && pip install -r requirements.txt + && pip install -r requirements.txt \ + && pip cache purge # install rest of library separate from dependencies COPY . /geomag-algorithms RUN cd /geomag-algorithms \ && pip install . \ + && pip cache purge \ # add data directory owned by usgs-user && mkdir -p /data \ && chown -R usgs-user:usgs-user /data diff --git a/geomagio/algorithm/SqDistAlgorithm.py b/geomagio/algorithm/SqDistAlgorithm.py index 4dc5087a230367e817f1dacaa4991d7523455d20..e2106c0fa1b83f92307b10f47ed3b311adca3ea8 100644 --- a/geomagio/algorithm/SqDistAlgorithm.py +++ b/geomagio/algorithm/SqDistAlgorithm.py @@ -461,7 +461,7 @@ class SqDistAlgorithm(Algorithm): # to White et al. (USGS SIR 2014-5045). fom = 10 ** (-3 / 20.0) # halve power at corner frequency omg = np.pi / np.float64(smooth) # corner angular frequency - sig = np.sqrt(-2 * np.log(fom) / omg ** 2) + np.finfo(float).eps # sig>0 + sig = np.sqrt(-2 * np.log(fom) / omg**2) + np.finfo(float).eps # sig>0 ts = np.linspace( np.max((-m, -3 * np.round(sig))), np.min((m, 3 * np.round(sig))), @@ -536,7 +536,7 @@ class SqDistAlgorithm(Algorithm): # when forecasting, grow sigma=sqrt(var) like a prediction # interval; sumc2 and jstep will be reset with the next # valid observation - phiJminus1 = phiJminus1 + phi ** jstep + phiJminus1 = phiJminus1 + phi**jstep jstep = jstep + 1 sumc2 = ( sumc2 diff --git a/geomagio/api/db/metadata_history_table.py b/geomagio/api/db/metadata_history_table.py index 471869fe132d16a249ca31d283c0235a8e2d10d2..8fbd785c108d7cebbfa7657f8da6b3bc06cc43c8 100644 --- a/geomagio/api/db/metadata_history_table.py +++ b/geomagio/api/db/metadata_history_table.py @@ -4,7 +4,7 @@ from .common import sqlalchemy_metadata from .metadata_table import metadata # create copy of original metadata table and add to sqlalchemy metadata -metadata_history = metadata.tometadata( +metadata_history = metadata.to_metadata( metadata=sqlalchemy_metadata, name="metadata_history" ) metadata_history.indexes.clear() diff --git a/geomagio/geomag_types.py b/geomagio/geomag_types.py index a50e2804e5baf21454dbdaf22f75254c51bd70ff..9a181bcd29aeb60fd1aa8e9ee52167ea0dedf602 100644 --- a/geomagio/geomag_types.py +++ b/geomagio/geomag_types.py @@ -1,4 +1,4 @@ -from typing_extensions import Literal +from typing import Literal DataInterval = Literal["tenhertz", "second", "minute", "hour", "day", "month"] DataType = Literal[ diff --git a/geomagio/residual/Calculation.py b/geomagio/residual/Calculation.py index fe1ab1c1ed48706ddb343a0282daec9842c69fe7..d6d820446db64c3526662cd4dff1f4be35a7653b 100644 --- a/geomagio/residual/Calculation.py +++ b/geomagio/residual/Calculation.py @@ -1,5 +1,4 @@ -from typing import List, Tuple -from typing_extensions import Literal +from typing import List, Literal, Tuple import numpy as np @@ -116,7 +115,7 @@ def calculate_D_absolute( m.angle + np.degrees( m.measurement_type.meridian - * (np.arcsin(m.residual / np.sqrt((m.h + h_baseline) ** 2 + m.e ** 2))) + * (np.arcsin(m.residual / np.sqrt((m.h + h_baseline) ** 2 + m.e**2))) ) - np.degrees(np.arctan(m.e / (m.h + h_baseline))) for m in declination_measurements @@ -168,7 +167,7 @@ def calculate_HZ_absolutes( inclination_radians = np.radians(inclination) h_abs = corrected_f * np.cos(inclination_radians) z_abs = corrected_f * np.sin(inclination_radians) - h_b = np.sqrt(h_abs ** 2 - mean.e ** 2) - mean.h + h_b = np.sqrt(h_abs**2 - mean.e**2) - mean.h z_b = z_abs - mean.z # adjust absolutes to reference measurement if reference: diff --git a/geomagio/residual/Reading.py b/geomagio/residual/Reading.py index 437da4992fd3bac827861ff3340c3743b530c143..101ba4b4b7ed3c7e36024e6c8234b03cb1aea55c 100644 --- a/geomagio/residual/Reading.py +++ b/geomagio/residual/Reading.py @@ -1,5 +1,4 @@ -from typing import Dict, List, Optional, Tuple -from typing_extensions import Literal +from typing import Dict, List, Literal, Optional, Tuple import numpy as np from obspy import Stream, UTCDateTime @@ -187,7 +186,7 @@ def get_ordinates( d_ord = d_abs - d_bas z_ord = z_abs - z_bas e_ord = h_abs * np.radians(d_ord) - h_ord = np.sqrt(h_ord ** 2 - e_ord ** 2) + h_ord = np.sqrt(h_ord**2 - e_ord**2) return (h_ord, e_ord, z_ord) diff --git a/poetry.lock b/poetry.lock index f951e391132293afbee9e958676c8b55f98dd858..ac656849eaf1cee0d1587b4969ee6d1f4ec8f348 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,6 +1,6 @@ [[package]] name = "aiomysql" -version = "0.0.21" +version = "0.0.22" description = "MySQL driver for asyncio." category = "main" optional = false @@ -25,21 +25,24 @@ typing_extensions = ">=3.7.2" [[package]] name = "alembic" -version = "1.6.5" +version = "1.7.7" description = "A database migration tool for SQLAlchemy." category = "main" optional = false -python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7" +python-versions = ">=3.6" [package.dependencies] +importlib-metadata = {version = "*", markers = "python_version < \"3.9\""} +importlib-resources = {version = "*", markers = "python_version < \"3.9\""} Mako = "*" -python-dateutil = "*" -python-editor = ">=0.3" SQLAlchemy = ">=1.3.0" +[package.extras] +tz = ["python-dateutil"] + [[package]] name = "anyio" -version = "3.3.0" +version = "3.5.0" description = "High level compatibility layer for multiple asynchronous event loop implementations" category = "main" optional = false @@ -48,31 +51,19 @@ python-versions = ">=3.6.2" [package.dependencies] idna = ">=2.8" sniffio = ">=1.1" -typing-extensions = {version = "*", markers = "python_version < \"3.8\""} [package.extras] -doc = ["sphinx-rtd-theme", "sphinx-autodoc-typehints (>=1.2.0)"] -test = ["coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "pytest (>=6.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (<0.15)", "mock (>=4)", "uvloop (>=0.15)"] +doc = ["packaging", "sphinx-rtd-theme", "sphinx-autodoc-typehints (>=1.2.0)"] +test = ["coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "pytest (>=6.0)", "pytest-mock (>=3.6.1)", "trustme", "contextlib2", "uvloop (<0.15)", "mock (>=4)", "uvloop (>=0.15)"] trio = ["trio (>=0.16)"] -[[package]] -name = "appdirs" -version = "1.4.4" -description = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"." -category = "dev" -optional = false -python-versions = "*" - [[package]] name = "asgiref" -version = "3.4.1" +version = "3.5.0" description = "ASGI specs, helper code, and adapters" category = "main" optional = false -python-versions = ">=3.6" - -[package.dependencies] -typing-extensions = {version = "*", markers = "python_version < \"3.8\""} +python-versions = ">=3.7" [package.extras] tests = ["pytest", "pytest-asyncio", "mypy (>=0.800)"] @@ -87,59 +78,54 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "attrs" -version = "21.2.0" +version = "21.4.0" description = "Classes Without Boilerplate" category = "dev" optional = false 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", "mypy", "pytest-mypy-plugins", "zope.interface", "furo", "sphinx", "sphinx-notfound-page", "pre-commit"] +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", "cloudpickle"] 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"] +tests = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "zope.interface", "cloudpickle"] +tests_no_zope = ["coverage[toml] (>=5.0.2)", "hypothesis", "pympler", "pytest (>=4.3.0)", "six", "mypy", "pytest-mypy-plugins", "cloudpickle"] [[package]] name = "authlib" -version = "0.15.4" -description = "The ultimate Python library in building OAuth and OpenID Connect servers." +version = "1.0.0" +description = "The ultimate Python library in building OAuth and OpenID Connect servers and clients." category = "main" optional = false python-versions = "*" [package.dependencies] -cryptography = "*" - -[package.extras] -client = ["requests"] +cryptography = ">=3.2" [[package]] name = "black" -version = "21.7b0" +version = "22.1.0" description = "The uncompromising code formatter." category = "dev" optional = false python-versions = ">=3.6.2" [package.dependencies] -appdirs = "*" -click = ">=7.1.2" +click = ">=8.0.0" mypy-extensions = ">=0.4.3" -pathspec = ">=0.8.1,<1" -regex = ">=2020.1.8" -tomli = ">=0.2.6,<2.0.0" -typed-ast = {version = ">=1.4.2", markers = "python_version < \"3.8\""} -typing-extensions = {version = ">=3.7.4", markers = "python_version < \"3.8\""} +pathspec = ">=0.9.0" +platformdirs = ">=2" +tomli = ">=1.1.0" +typing-extensions = {version = ">=3.10.0.0", markers = "python_version < \"3.10\""} [package.extras] colorama = ["colorama (>=0.4.3)"] -d = ["aiohttp (>=3.6.0)", "aiohttp-cors (>=0.4.0)"] -python2 = ["typed-ast (>=1.4.2)"] +d = ["aiohttp (>=3.7.4)"] +jupyter = ["ipython (>=7.8.0)", "tokenize-rt (>=3.2.0)"] uvloop = ["uvloop (>=0.15.2)"] [[package]] name = "certifi" -version = "2021.5.30" +version = "2021.10.8" description = "Python package for providing Mozilla's CA Bundle." category = "main" optional = false @@ -147,7 +133,7 @@ python-versions = "*" [[package]] name = "cffi" -version = "1.14.6" +version = "1.15.0" description = "Foreign Function Interface for Python calling C code." category = "main" optional = false @@ -158,7 +144,7 @@ pycparser = "*" [[package]] name = "charset-normalizer" -version = "2.0.4" +version = "2.0.12" description = "The Real First Universal Charset Detector. Open, modern and actively maintained alternative to Chardet." category = "main" optional = false @@ -169,11 +155,14 @@ unicode_backport = ["unicodedata2"] [[package]] name = "click" -version = "7.1.2" +version = "8.0.4" description = "Composable command line interface toolkit" category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = ">=3.6" + +[package.dependencies] +colorama = {version = "*", markers = "platform_system == \"Windows\""} [[package]] name = "colorama" @@ -185,18 +174,18 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" [[package]] name = "coverage" -version = "5.5" +version = "6.3.2" description = "Code coverage measurement for Python" category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, <4" +python-versions = ">=3.7" [package.extras] -toml = ["toml"] +toml = ["tomli"] [[package]] name = "cryptography" -version = "3.4.7" +version = "36.0.2" description = "cryptography is a package which provides cryptographic recipes and primitives to Python developers." category = "main" optional = false @@ -207,22 +196,19 @@ cffi = ">=1.12" [package.extras] docs = ["sphinx (>=1.6.5,!=1.8.0,!=3.1.0,!=3.1.1)", "sphinx-rtd-theme"] -docstest = ["doc8", "pyenchant (>=1.6.11)", "twine (>=1.12.0)", "sphinxcontrib-spelling (>=4.0.1)"] +docstest = ["pyenchant (>=1.6.11)", "twine (>=1.12.0)", "sphinxcontrib-spelling (>=4.0.1)"] pep8test = ["black", "flake8", "flake8-import-order", "pep8-naming"] -sdist = ["setuptools-rust (>=0.11.4)"] +sdist = ["setuptools_rust (>=0.11.4)"] ssh = ["bcrypt (>=3.1.5)"] -test = ["pytest (>=6.0)", "pytest-cov", "pytest-subtests", "pytest-xdist", "pretend", "iso8601", "pytz", "hypothesis (>=1.11.4,!=3.79.2)"] +test = ["pytest (>=6.2.0)", "pytest-cov", "pytest-subtests", "pytest-xdist", "pretend", "iso8601", "pytz", "hypothesis (>=1.11.4,!=3.79.2)"] [[package]] name = "cycler" -version = "0.10.0" +version = "0.11.0" description = "Composable style cycles" category = "main" optional = false -python-versions = "*" - -[package.dependencies] -six = "*" +python-versions = ">=3.6" [[package]] name = "data-science-types" @@ -237,7 +223,7 @@ dev = ["black", "flake8", "flake8-pyi", "matplotlib", "mypy (==0.770)", "numpy", [[package]] name = "databases" -version = "0.4.3" +version = "0.5.5" description = "Async database support for Python." category = "main" optional = false @@ -246,17 +232,18 @@ python-versions = ">=3.6" [package.dependencies] aiomysql = {version = "*", optional = true, markers = "extra == \"mysql\""} aiosqlite = {version = "*", optional = true, markers = "extra == \"sqlite\""} -sqlalchemy = "<1.4" +sqlalchemy = ">=1.4,<1.5" [package.extras] mysql = ["aiomysql"] +mysql_asyncmy = ["asyncmy"] postgresql = ["asyncpg"] postgresql_aiopg = ["aiopg"] sqlite = ["aiosqlite"] [[package]] name = "decorator" -version = "5.0.9" +version = "5.1.1" description = "Decorators for Humans" category = "main" optional = false @@ -288,29 +275,53 @@ python-versions = ">=3.6" [[package]] name = "fastapi" -version = "0.68.0" +version = "0.75.0" description = "FastAPI framework, high performance, easy to learn, fast to code, ready for production" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.6.1" [package.dependencies] pydantic = ">=1.6.2,<1.7 || >1.7,<1.7.1 || >1.7.1,<1.7.2 || >1.7.2,<1.7.3 || >1.7.3,<1.8 || >1.8,<1.8.1 || >1.8.1,<2.0.0" -starlette = "0.14.2" +starlette = "0.17.1" [package.extras] -all = ["requests (>=2.24.0,<3.0.0)", "aiofiles (>=0.5.0,<0.6.0)", "jinja2 (>=2.11.2,<3.0.0)", "python-multipart (>=0.0.5,<0.0.6)", "itsdangerous (>=1.1.0,<2.0.0)", "pyyaml (>=5.3.1,<6.0.0)", "graphene (>=2.1.8,<3.0.0)", "ujson (>=4.0.1,<5.0.0)", "orjson (>=3.2.1,<4.0.0)", "email_validator (>=1.1.1,<2.0.0)", "uvicorn[standard] (>=0.12.0,<0.14.0)", "async_exit_stack (>=1.0.1,<2.0.0)", "async_generator (>=1.10,<2.0.0)"] -dev = ["python-jose[cryptography] (>=3.3.0,<4.0.0)", "passlib[bcrypt] (>=1.7.2,<2.0.0)", "autoflake (>=1.3.1,<2.0.0)", "flake8 (>=3.8.3,<4.0.0)", "uvicorn[standard] (>=0.12.0,<0.14.0)", "graphene (>=2.1.8,<3.0.0)"] -doc = ["mkdocs (>=1.1.2,<2.0.0)", "mkdocs-material (>=7.1.9,<8.0.0)", "markdown-include (>=0.6.0,<0.7.0)", "mkdocs-markdownextradata-plugin (>=0.1.7,<0.2.0)", "typer-cli (>=0.0.12,<0.0.13)", "pyyaml (>=5.3.1,<6.0.0)"] -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 (>=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)"] +all = ["requests (>=2.24.0,<3.0.0)", "jinja2 (>=2.11.2,<4.0.0)", "python-multipart (>=0.0.5,<0.0.6)", "itsdangerous (>=1.1.0,<3.0.0)", "pyyaml (>=5.3.1,<6.0.0)", "ujson (>=4.0.1,<5.0.0)", "orjson (>=3.2.1,<4.0.0)", "email_validator (>=1.1.1,<2.0.0)", "uvicorn[standard] (>=0.12.0,<0.16.0)"] +dev = ["python-jose[cryptography] (>=3.3.0,<4.0.0)", "passlib[bcrypt] (>=1.7.2,<2.0.0)", "autoflake (>=1.4.0,<2.0.0)", "flake8 (>=3.8.3,<4.0.0)", "uvicorn[standard] (>=0.12.0,<0.16.0)"] +doc = ["mkdocs (>=1.1.2,<2.0.0)", "mkdocs-material (>=8.1.4,<9.0.0)", "mdx-include (>=1.4.1,<2.0.0)", "mkdocs-markdownextradata-plugin (>=0.1.7,<0.3.0)", "typer-cli (>=0.0.12,<0.0.13)", "pyyaml (>=5.3.1,<6.0.0)"] +test = ["pytest (>=6.2.4,<7.0.0)", "pytest-cov (>=2.12.0,<4.0.0)", "mypy (==0.910)", "flake8 (>=3.8.3,<4.0.0)", "black (==21.9b0)", "isort (>=5.0.6,<6.0.0)", "requests (>=2.24.0,<3.0.0)", "httpx (>=0.14.0,<0.19.0)", "email_validator (>=1.1.1,<2.0.0)", "sqlalchemy (>=1.3.18,<1.5.0)", "peewee (>=3.13.3,<4.0.0)", "databases[sqlite] (>=0.3.2,<0.6.0)", "orjson (>=3.2.1,<4.0.0)", "ujson (>=4.0.1,<5.0.0)", "python-multipart (>=0.0.5,<0.0.6)", "flask (>=1.1.2,<3.0.0)", "anyio[trio] (>=3.2.1,<4.0.0)", "types-ujson (==0.1.1)", "types-orjson (==3.6.0)", "types-dataclasses (==0.1.7)"] [[package]] -name = "future" -version = "0.18.2" -description = "Clean single-source support for Python 3 and 2" +name = "fonttools" +version = "4.31.1" +description = "Tools to manipulate font files" category = "main" optional = false -python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" +python-versions = ">=3.7" + +[package.extras] +all = ["fs (>=2.2.0,<3)", "lxml (>=4.0,<5)", "zopfli (>=0.1.4)", "lz4 (>=1.7.4.2)", "matplotlib", "sympy", "skia-pathops (>=0.5.0)", "brotlicffi (>=0.8.0)", "scipy", "brotli (>=1.0.1)", "munkres", "unicodedata2 (>=14.0.0)", "xattr"] +graphite = ["lz4 (>=1.7.4.2)"] +interpolatable = ["scipy", "munkres"] +lxml = ["lxml (>=4.0,<5)"] +pathops = ["skia-pathops (>=0.5.0)"] +plot = ["matplotlib"] +symfont = ["sympy"] +type1 = ["xattr"] +ufo = ["fs (>=2.2.0,<3)"] +unicode = ["unicodedata2 (>=14.0.0)"] +woff = ["zopfli (>=0.1.4)", "brotlicffi (>=0.8.0)", "brotli (>=1.0.1)"] + +[[package]] +name = "greenlet" +version = "1.1.2" +description = "Lightweight in-process concurrent programming" +category = "main" +optional = false +python-versions = ">=2.7,!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*" + +[package.extras] +docs = ["sphinx"] [[package]] name = "gunicorn" @@ -336,7 +347,7 @@ python-versions = ">=3.6" [[package]] name = "httpcore" -version = "0.13.6" +version = "0.14.7" description = "A minimal low-level HTTP client." category = "main" optional = false @@ -344,26 +355,28 @@ python-versions = ">=3.6" [package.dependencies] anyio = ">=3.0.0,<4.0.0" +certifi = "*" h11 = ">=0.11,<0.13" sniffio = ">=1.0.0,<2.0.0" [package.extras] http2 = ["h2 (>=3,<5)"] +socks = ["socksio (>=1.0.0,<2.0.0)"] [[package]] name = "httptools" -version = "0.2.0" +version = "0.4.0" description = "A collection of framework independent HTTP protocol utils." category = "main" optional = false -python-versions = "*" +python-versions = ">=3.5.0" [package.extras] -test = ["Cython (==0.29.22)"] +test = ["Cython (>=0.29.24,<0.30.0)"] [[package]] name = "httpx" -version = "0.18.1" +version = "0.22.0" description = "The next generation HTTP client." category = "main" optional = false @@ -371,17 +384,20 @@ python-versions = ">=3.6" [package.dependencies] certifi = "*" -httpcore = ">=0.13.0,<0.14.0" +charset-normalizer = "*" +httpcore = ">=0.14.5,<0.15.0" rfc3986 = {version = ">=1.3,<2", extras = ["idna2008"]} sniffio = "*" [package.extras] -brotli = ["brotlicffi (>=1.0.0,<2.0.0)"] -http2 = ["h2 (>=3.0.0,<4.0.0)"] +brotli = ["brotlicffi", "brotli"] +cli = ["click (>=8.0.0,<9.0.0)", "rich (>=10.0.0,<11.0.0)", "pygments (>=2.0.0,<3.0.0)"] +http2 = ["h2 (>=3,<5)"] +socks = ["socksio (>=1.0.0,<2.0.0)"] [[package]] name = "idna" -version = "3.2" +version = "3.3" description = "Internationalized Domain Names in Applications (IDNA)" category = "main" optional = false @@ -389,20 +405,34 @@ python-versions = ">=3.5" [[package]] name = "importlib-metadata" -version = "4.6.4" +version = "4.11.3" description = "Read metadata from Python packages" -category = "dev" +category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] -typing-extensions = {version = ">=3.6.4", markers = "python_version < \"3.8\""} zipp = ">=0.5" [package.extras] -docs = ["sphinx", "jaraco.packaging (>=8.2)", "rst.linker (>=1.9)"] +docs = ["sphinx", "jaraco.packaging (>=9)", "rst.linker (>=1.9)"] perf = ["ipython"] -testing = ["pytest (>=4.6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "packaging", "pep517", "pyfakefs", "flufl.flake8", "pytest-perf (>=0.9.2)", "pytest-black (>=0.3.7)", "pytest-mypy", "importlib-resources (>=1.3)"] +testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "packaging", "pyfakefs", "flufl.flake8", "pytest-perf (>=0.9.2)", "pytest-black (>=0.3.7)", "pytest-mypy (>=0.9.1)", "importlib-resources (>=1.3)"] + +[[package]] +name = "importlib-resources" +version = "5.4.0" +description = "Read resources from Python packages" +category = "main" +optional = false +python-versions = ">=3.6" + +[package.dependencies] +zipp = {version = ">=3.1.0", markers = "python_version < \"3.10\""} + +[package.extras] +docs = ["sphinx", "jaraco.packaging (>=8.2)", "rst.linker (>=1.9)"] +testing = ["pytest (>=6)", "pytest-checkdocs (>=2.4)", "pytest-flake8", "pytest-cov", "pytest-enabler (>=1.0.1)", "pytest-black (>=0.3.7)", "pytest-mypy"] [[package]] name = "iniconfig" @@ -414,15 +444,15 @@ python-versions = "*" [[package]] name = "kiwisolver" -version = "1.3.1" +version = "1.4.0" description = "A fast implementation of the Cassowary constraint solver" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [[package]] name = "lxml" -version = "4.6.3" +version = "4.8.0" description = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API." category = "main" optional = false @@ -436,11 +466,11 @@ source = ["Cython (>=0.29.7)"] [[package]] name = "mako" -version = "1.1.5" -description = "A super-fast templating language that borrows the best ideas from the existing templating languages." +version = "1.2.0" +description = "A super-fast templating language that borrows the best ideas from the existing templating languages." category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = ">=3.7" [package.dependencies] MarkupSafe = ">=0.9.2" @@ -448,18 +478,19 @@ MarkupSafe = ">=0.9.2" [package.extras] babel = ["babel"] lingua = ["lingua"] +testing = ["pytest"] [[package]] name = "markupsafe" -version = "2.0.1" +version = "2.1.1" description = "Safely add untrusted strings to HTML/XML markup." category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [[package]] name = "matplotlib" -version = "3.4.3" +version = "3.5.1" description = "Python plotting package" category = "main" optional = false @@ -467,29 +498,32 @@ python-versions = ">=3.7" [package.dependencies] cycler = ">=0.10" +fonttools = ">=4.22.0" kiwisolver = ">=1.0.1" -numpy = ">=1.16" +numpy = ">=1.17" +packaging = ">=20.0" pillow = ">=6.2.0" pyparsing = ">=2.2.1" python-dateutil = ">=2.7" +setuptools_scm = ">=4" [[package]] name = "mypy" -version = "0.910" +version = "0.941" description = "Optional static typing for Python" category = "dev" optional = false -python-versions = ">=3.5" +python-versions = ">=3.6" [package.dependencies] -mypy-extensions = ">=0.4.3,<0.5.0" -toml = "*" -typed-ast = {version = ">=1.4.0,<1.5.0", markers = "python_version < \"3.8\""} -typing-extensions = ">=3.7.4" +mypy-extensions = ">=0.4.3" +tomli = ">=1.1.0" +typing-extensions = ">=3.10" [package.extras] dmypy = ["psutil (>=4.0)"] -python2 = ["typed-ast (>=1.4.0,<1.5.0)"] +python2 = ["typed-ast (>=1.4.0,<2)"] +reports = ["lxml"] [[package]] name = "mypy-extensions" @@ -501,49 +535,50 @@ python-versions = "*" [[package]] name = "numpy" -version = "1.21.2" +version = "1.22.3" description = "NumPy is the fundamental package for array computing with Python." category = "main" optional = false -python-versions = ">=3.7,<3.11" +python-versions = ">=3.8" [[package]] name = "obspy" -version = "1.2.2" +version = "1.3.0" description = "ObsPy - a Python framework for seismological observatories." category = "main" optional = false -python-versions = "*" +python-versions = ">=3.7" [package.dependencies] decorator = "*" -future = ">=0.12.4" lxml = "*" -matplotlib = ">=1.1.0" -numpy = ">=1.6.1" +matplotlib = ">=3.2.0" +numpy = ">=1.15.0" requests = "*" -scipy = ">=0.9.0" +scipy = ">=1.0.0" sqlalchemy = "*" [package.extras] -arclink = ["cryptography"] +all = ["packaging", "pyproj", "pytest", "pytest-json-report", "geographiclib", "cartopy", "pyshp"] +geo = ["geographiclib"] +imaging = ["cartopy"] "io.shapefile" = ["pyshp"] -tests = ["flake8 (>=2)", "pyimgur", "pyproj", "pep8-naming"] +tests = ["packaging", "pyproj", "pytest", "pytest-json-report"] [[package]] name = "openpyxl" -version = "3.0.7" +version = "3.0.9" description = "A Python library to read/write Excel 2010 xlsx/xlsm files" category = "main" optional = false -python-versions = ">=3.6," +python-versions = ">=3.6" [package.dependencies] et-xmlfile = "*" [[package]] name = "openpyxl-stubs" -version = "0.1.19" +version = "0.1.21" description = "Type stubs for openpyxl" category = "dev" optional = false @@ -556,14 +591,14 @@ typing-extensions = ">=3.7.4" [[package]] name = "packaging" -version = "21.0" +version = "21.3" description = "Core utilities for Python packages" -category = "dev" +category = "main" optional = false python-versions = ">=3.6" [package.dependencies] -pyparsing = ">=2.0.2" +pyparsing = ">=2.0.2,<3.0.5 || >3.0.5" [[package]] name = "pathspec" @@ -575,37 +610,47 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7" [[package]] name = "pillow" -version = "8.3.2" +version = "9.0.1" description = "Python Imaging Library (Fork)" category = "main" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" + +[[package]] +name = "platformdirs" +version = "2.5.1" +description = "A small Python module for determining appropriate platform-specific dirs, e.g. a \"user data dir\"." +category = "dev" +optional = false +python-versions = ">=3.7" + +[package.extras] +docs = ["Sphinx (>=4)", "furo (>=2021.7.5b38)", "proselint (>=0.10.2)", "sphinx-autodoc-typehints (>=1.12)"] +test = ["appdirs (==1.4.4)", "pytest (>=6)", "pytest-cov (>=2.7)", "pytest-mock (>=3.6)"] [[package]] name = "pluggy" -version = "0.13.1" +version = "1.0.0" description = "plugin and hook calling mechanisms for python" category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" - -[package.dependencies] -importlib-metadata = {version = ">=0.12", markers = "python_version < \"3.8\""} +python-versions = ">=3.6" [package.extras] dev = ["pre-commit", "tox"] +testing = ["pytest", "pytest-benchmark"] [[package]] name = "py" -version = "1.10.0" +version = "1.11.0" description = "library with cross-python path, ini-parsing, io, code, log facilities" category = "dev" 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]] name = "pycparser" -version = "2.20" +version = "2.21" description = "C parser in Python" category = "main" optional = false @@ -613,7 +658,7 @@ python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" [[package]] name = "pycurl" -version = "7.44.1" +version = "7.45.1" description = "PycURL -- A Python Interface To The cURL library" category = "main" optional = true @@ -621,7 +666,7 @@ python-versions = ">=3.5" [[package]] name = "pydantic" -version = "1.8.2" +version = "1.9.0" description = "Data validation and settings management using python 3.6 type hinting" category = "main" optional = false @@ -647,15 +692,18 @@ rsa = ["cryptography"] [[package]] name = "pyparsing" -version = "2.4.7" +version = "3.0.7" description = "Python parsing module" category = "main" optional = false -python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" +python-versions = ">=3.6" + +[package.extras] +diagrams = ["jinja2", "railroad-diagrams"] [[package]] name = "pytest" -version = "6.2.4" +version = "6.2.5" description = "pytest: simple powerful testing with Python" category = "dev" optional = false @@ -665,10 +713,9 @@ python-versions = ">=3.6" atomicwrites = {version = ">=1.0", markers = "sys_platform == \"win32\""} attrs = ">=19.2.0" colorama = {version = "*", markers = "sys_platform == \"win32\""} -importlib-metadata = {version = ">=0.12", markers = "python_version < \"3.8\""} iniconfig = "*" packaging = "*" -pluggy = ">=0.12,<1.0.0a1" +pluggy = ">=0.12,<2.0" py = ">=1.8.2" toml = "*" @@ -704,7 +751,7 @@ six = ">=1.5" [[package]] name = "python-dotenv" -version = "0.19.0" +version = "0.19.2" description = "Read key-value pairs from a .env file and set them as environment variables" category = "main" optional = false @@ -713,33 +760,17 @@ python-versions = ">=3.5" [package.extras] cli = ["click (>=5.0)"] -[[package]] -name = "python-editor" -version = "1.0.4" -description = "Programmatically open an editor, capture the result." -category = "main" -optional = false -python-versions = "*" - [[package]] name = "pyyaml" -version = "5.4.1" +version = "6.0" description = "YAML parser and emitter for Python" category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, !=3.5.*" - -[[package]] -name = "regex" -version = "2021.8.21" -description = "Alternative regular expression module, to replace re." -category = "dev" -optional = false -python-versions = "*" +python-versions = ">=3.6" [[package]] name = "requests" -version = "2.26.0" +version = "2.27.1" description = "Python HTTP for Humans." category = "main" optional = false @@ -785,14 +816,30 @@ requests = "*" [[package]] name = "scipy" -version = "1.7.1" +version = "1.8.0" description = "SciPy: Scientific Library for Python" category = "main" optional = false -python-versions = ">=3.7,<3.10" +python-versions = ">=3.8,<3.11" + +[package.dependencies] +numpy = ">=1.17.3,<1.25.0" + +[[package]] +name = "setuptools-scm" +version = "6.4.2" +description = "the blessed package to manage your versions by scm tags" +category = "main" +optional = false +python-versions = ">=3.6" [package.dependencies] -numpy = ">=1.16.5,<1.23.0" +packaging = ">=20.0" +tomli = ">=1.0.0" + +[package.extras] +test = ["pytest (>=6.2)", "virtualenv (>20)"] +toml = ["setuptools (>=42)"] [[package]] name = "six" @@ -812,23 +859,35 @@ python-versions = ">=3.5" [[package]] name = "sqlalchemy" -version = "1.3.24" +version = "1.4.32" description = "Database Abstraction Library" category = "main" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*" +python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,>=2.7" + +[package.dependencies] +greenlet = {version = "!=0.4.17", markers = "python_version >= \"3\" and (platform_machine == \"aarch64\" or platform_machine == \"ppc64le\" or platform_machine == \"x86_64\" or platform_machine == \"amd64\" or platform_machine == \"AMD64\" or platform_machine == \"win32\" or platform_machine == \"WIN32\")"} [package.extras] +aiomysql = ["greenlet (!=0.4.17)", "aiomysql"] +aiosqlite = ["typing_extensions (!=3.10.0.1)", "greenlet (!=0.4.17)", "aiosqlite"] +asyncio = ["greenlet (!=0.4.17)"] +asyncmy = ["greenlet (!=0.4.17)", "asyncmy (>=0.2.3)"] +mariadb_connector = ["mariadb (>=1.0.1)"] mssql = ["pyodbc"] mssql_pymssql = ["pymssql"] mssql_pyodbc = ["pyodbc"] -mysql = ["mysqlclient"] -oracle = ["cx-oracle"] -postgresql = ["psycopg2"] -postgresql_pg8000 = ["pg8000 (<1.16.6)"] +mypy = ["sqlalchemy2-stubs", "mypy (>=0.910)"] +mysql = ["mysqlclient (>=1.4.0,<2)", "mysqlclient (>=1.4.0)"] +mysql_connector = ["mysql-connector-python"] +oracle = ["cx_oracle (>=7,<8)", "cx_oracle (>=7)"] +postgresql = ["psycopg2 (>=2.7)"] +postgresql_asyncpg = ["greenlet (!=0.4.17)", "asyncpg"] +postgresql_pg8000 = ["pg8000 (>=1.16.6)"] postgresql_psycopg2binary = ["psycopg2-binary"] postgresql_psycopg2cffi = ["psycopg2cffi"] pymysql = ["pymysql (<1)", "pymysql"] +sqlcipher = ["sqlcipher3-binary"] [[package]] name = "sqlalchemy-stubs" @@ -844,7 +903,7 @@ typing-extensions = ">=3.7.4" [[package]] name = "sqlalchemy-utc" -version = "0.12.0" +version = "0.14.0" description = "SQLAlchemy type to store aware datetime values" category = "main" optional = false @@ -855,14 +914,17 @@ SQLAlchemy = ">=0.9.0" [[package]] name = "starlette" -version = "0.14.2" +version = "0.17.1" description = "The little ASGI library that shines." category = "main" optional = false python-versions = ">=3.6" +[package.dependencies] +anyio = ">=3.0.0,<4" + [package.extras] -full = ["aiofiles", "graphene", "itsdangerous", "jinja2", "python-multipart", "pyyaml", "requests"] +full = ["itsdangerous", "jinja2", "python-multipart", "pyyaml", "requests"] [[package]] name = "toml" @@ -874,36 +936,28 @@ python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" [[package]] name = "tomli" -version = "1.2.1" +version = "2.0.1" description = "A lil' TOML parser" -category = "dev" -optional = false -python-versions = ">=3.6" - -[[package]] -name = "typed-ast" -version = "1.4.3" -description = "a fork of Python 2 and 3 ast modules with type comment support" -category = "dev" +category = "main" optional = false -python-versions = "*" +python-versions = ">=3.7" [[package]] name = "typer" -version = "0.3.2" +version = "0.4.0" description = "Typer, build great CLIs. Easy to code. Based on Python type hints." category = "main" optional = false python-versions = ">=3.6" [package.dependencies] -click = ">=7.1.1,<7.2.0" +click = ">=7.1.1,<9.0.0" [package.extras] -test = ["pytest-xdist (>=1.32.0,<2.0.0)", "pytest-sugar (>=0.9.4,<0.10.0)", "mypy (==0.782)", "black (>=19.10b0,<20.0b0)", "isort (>=5.0.6,<6.0.0)", "shellingham (>=1.3.0,<2.0.0)", "pytest (>=4.4.0,<5.4.0)", "pytest-cov (>=2.10.0,<3.0.0)", "coverage (>=5.2,<6.0)"] all = ["colorama (>=0.4.3,<0.5.0)", "shellingham (>=1.3.0,<2.0.0)"] dev = ["autoflake (>=1.3.1,<2.0.0)", "flake8 (>=3.8.3,<4.0.0)"] doc = ["mkdocs (>=1.1.2,<2.0.0)", "mkdocs-material (>=5.4.0,<6.0.0)", "markdown-include (>=0.5.1,<0.6.0)"] +test = ["shellingham (>=1.3.0,<2.0.0)", "pytest (>=4.4.0,<5.4.0)", "pytest-cov (>=2.10.0,<3.0.0)", "coverage (>=5.2,<6.0)", "pytest-xdist (>=1.32.0,<2.0.0)", "pytest-sugar (>=0.9.4,<0.10.0)", "mypy (==0.910)", "black (>=19.10b0,<20.0b0)", "isort (>=5.0.6,<6.0.0)"] [[package]] name = "types-python-dateutil" @@ -915,56 +969,66 @@ python-versions = "*" [[package]] name = "types-requests" -version = "2.25.6" +version = "2.27.13" description = "Typing stubs for requests" category = "dev" optional = false python-versions = "*" +[package.dependencies] +types-urllib3 = "<1.27" + +[[package]] +name = "types-urllib3" +version = "1.26.11" +description = "Typing stubs for urllib3" +category = "dev" +optional = false +python-versions = "*" + [[package]] name = "typing-extensions" -version = "3.10.0.0" -description = "Backported and Experimental Type Hints for Python 3.5+" +version = "4.1.1" +description = "Backported and Experimental Type Hints for Python 3.6+" category = "main" optional = false -python-versions = "*" +python-versions = ">=3.6" [[package]] name = "urllib3" -version = "1.26.6" +version = "1.26.9" description = "HTTP library with thread-safe connection pooling, file post, and more." category = "main" optional = false python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*, <4" [package.extras] -brotli = ["brotlipy (>=0.6.0)"] +brotli = ["brotlicffi (>=0.8.0)", "brotli (>=1.0.9)", "brotlipy (>=0.6.0)"] secure = ["pyOpenSSL (>=0.14)", "cryptography (>=1.3.4)", "idna (>=2.0.0)", "certifi", "ipaddress"] socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] [[package]] name = "uvicorn" -version = "0.15.0" +version = "0.17.6" description = "The lightning-fast ASGI server." category = "main" optional = false -python-versions = "*" +python-versions = ">=3.7" [package.dependencies] asgiref = ">=3.4.0" click = ">=7.0" colorama = {version = ">=0.4", optional = true, markers = "sys_platform == \"win32\" and extra == \"standard\""} h11 = ">=0.8" -httptools = {version = ">=0.2.0,<0.3.0", optional = true, markers = "extra == \"standard\""} +httptools = {version = ">=0.4.0", optional = true, markers = "extra == \"standard\""} python-dotenv = {version = ">=0.13", optional = true, markers = "extra == \"standard\""} PyYAML = {version = ">=5.1", optional = true, markers = "extra == 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