feat: initial structure

Author: jose-gilberto

.flake8

@@ -0,0 +1,296 @@
+[build-system]
+requires = ["flit"]
+build-backend = "flit.buildapi"
+
+[project]
+name = "deeptime"
+authors = [
+    {name = "Gilberto Medeiros", email = "medeiros.gilberto.br@gmail.com"}
+]
+description = "Deep Learning tools to work with Time Series"
+readme = "README.md"
+classifiers = [
+    "Development Status :: 3 - Alpha",
+    "Intended Audience :: Developers",
+    "License :: OSI Approved :: MIT License",
+    "Programming Language :: Python :: 3 :: Only",
+    "Programming Language :: Python :: 3.7",
+    "Programming Language :: Python :: 3.8",
+    "Programming Language :: Python :: 3.9",
+    "Programming Language :: Python :: 3.10"
+]
+requires-python = ">=3.7"
+dynamic = ["version"]
+
+[project.optional-dependencies]
+spark = [
+    "pyspark>=3.0.0"
+]
+test = [
+    "bandit[toml]==1.7.4",
+    "black==22.1.0",
+    "check-manifest==0.48",
+    "flake8-bugbear==22.1.11",
+    "flake8-docstrings",
+    "flake8-formatter_junit_xml",
+    "flake8==4.0.1",
+    "pre-commit==2.17.0",
+    "pylint==2.12.2",
+    "pylint_junit",
+    "pytest-cov==3.0.0",
+    "pytest-mock<3.7.1",
+    "pytest-runner",
+    "pytest==7.1.0",
+    "pytest-github-actions-annotate-failures",
+    "shellcheck-py==0.8.0.4"
+]
+
+[project.urls]
+Documentation = "https://github.com/jose-gilberto/deeptime/tree/main#readme"
+Source = "https://github.com/jose-gilberto/deeptime"
+Tracker = "https://github.com/jose-gilberto/deeptime/issues"
+
+[tool.flit.module]
+name = "deeptime"
+
+[tool.bandit]
+exclude_dirs = ["build", "dist", "tests", "scripts"]
+number = 4
+recursive = true
+targets = "src"
+
+[tool.black]
+line-length = 120
+fast = true
+
+[tool.coverage.run]
+branch = true
+
+[tool.coverage.report]
+fail_under = 80
+
+[tool.pyright]
+include = ["src"]
+exclude = [
+    "**/__pycache__"
+]
+venv = "env37"
+
+reportMissingImports = true
+reportMissingTypeStubs = false
+
+pythonVersion = "3.9"
+pythonPlatform = "Windows"
+
+executionEnvironments = [
+    { root = "src" }
+]
+
+[tool.pytest.ini_options]
+addopts = "--cov-report xml:coverage.xml --cov src --cov-fail-under 0 --cov-append -m 'not integration'"
+pythonpath = [
+   "src" 
+]
+testpaths = "tests"
+junit_family = "xunit2"
+markers = [
+    "integration: mark as integration test",
+    "notebooks: mark as notebooks test",
+    "gpu: mark as gpu test",
+    "spark: marks tests which need spark",
+    "slow: marks tests as slow",
+    "unit: fast offline tests"
+]
+
+[tool.tox]
+legacy_tox_ini = """
+[tox]
+envlist = py, integration, spark, all
+
+[testenv]
+commands = 
+    pytest -m "not integration and not spark" {posargs}
+
+[testenv:integration]
+commands = 
+    pytest -m "integration" {posargs}
+
+[testenv:spark]
+extras = spark
+setenv =
+    PYSPARK_DRIVER_PYTHON = {envpython}
+    PYSPARK_PYTHON = {envpython}
+commands = 
+    pytest -m "spark" {posargs}
+
+[testenv:all]
+extras = all
+setenv = 
+    PYSPARK_DRIVER_PYTHON = {envpython}
+    PYSPARK_PYTHON = {envpython}
+commands = 
+    pytest {posargs}
+"""
+
+[tool.pylint]
+extension-pkg-whitelist = [
+    "numpy",
+    "torch",
+    "cv2",
+    "pyodbc",
+    "pydantic",
+    "ciso8601",
+    "netcdf4",
+    "scipy"
+]
+ignore = "CVS"
+ignore-patterns = "test.*?py,conftest.py"
+init-hook = 'import sys; sys.setrecursionlimit(8 * sys.getrecursionlimit())'
+jobs = 0
+limit-inference-results = 100
+persistent = "yes"
+suggestion-mode = "yes"
+unsafe-load-any-extension = "no"
+
+[tool.pylint.'MESSAGES CONTROL']
+enable = "c-extension-no-member"
+
+[tool.pylint.'REPORTS']
+evaluation = "10.0 - ((float(5 * error + warning + refactor + convention) / statement) * 10)"
+output-format = "text"
+reports = "no"
+score = "yes"
+
+[tool.pylint.'REFACTORING']
+max-nested-blocks = 5
+never-returning-functions = "sys.exit"
+
+[tool.pylint.'BASIC']
+argument-naming-style = "snake_case"
+attr-naming-style = "snake_case"
+bad-names = [
+    "foo",
+    "bar"
+]
+class-attribute-naming-style = "any"
+class-naming-style = "PascalCase"
+const-naming-style = "UPPER_CASE"
+docstring-min-length = -1
+function-naming-style = "snake_case"
+god-names = [
+    "i",
+    "j",
+    "k",
+    "ex",
+    "Run",
+    "_",
+    "x"
+]
+include-naming-hint = "yes"
+inlinevar-naming-style = "any"
+method-naming-style = "snake_case"
+module-naming-style = "any"
+no-docstring-rgx = "^_"
+property-class = "abc.abstractproperty"
+variable-naming-style = "snake_case"
+
+[tool.pylint.'FORMAT']
+ignore-long-lines = "^\\s*(# )?.*['\"]?<?https?://\\S+>?"
+indent-after-paren = 4
+indent-string = '    '
+max-line-length = 120
+max-module-lines = 1000
+no-space-check = [
+    "trailing-comma",
+    "dict-separator"
+]
+single-line-class-stmt = "no"
+single-line-if-stmt = "no"
+
+[tool.pylint.'LOGGING']
+logging-format-style = "old"
+logging-modules = "logging"
+
+[tool.pylint.'MISCELLANEOUS']
+notes = [
+    "FIXME",
+    "XXX",
+    "TODO"
+]
+
+[tool.pylint.'SIMILARITIES']
+ignore-comments = "yes"
+ignore-docstrings = "yes"
+ignore-imports = "yes"
+min-similarity-lines = 7
+
+[tool.pylint.'SPELLING']
+max-spelling-suggestions = 4
+spelling-store-unknown-words = "no"
+
+[tool.pylint.'STRING']
+check-str-concat-over-line-jumps = "no"
+
+[tool.pylint.'TYPECHECK']
+contextmanager-decorators = "contextlib.contextmanager"
+generated-members = "numpy.*, np.*, pyspark.sql.functions, collect_list"
+ignore-mixin-members = "yes"
+ignore-none = "yes"
+ignore-on-opaque-inference = "yes"
+ignore-classes = "optparse.Values,thread._local, _thread._local,numpy,torch,swagger_client"
+ignore-modules = "numpy,torch,swagger_client,netCDF4,scipy"
+missing-member-hint = "yes"
+missing-member-hint-distance = 1
+missing-member-max-choice = 1
+
+[tool.pylint.'VARIABLES']
+additional-builtins = "dbutils"
+allow-global-unused-variables = "yes"
+callbacks = [
+    "cb_",
+    "_cb"
+]
+dummy-variable-rgx = "_+$|(_[a-zA-Z0-9_]*[a-zA-Z0-9]+?$)|dummy|^ignored_|^unused_"
+ignored-argument-names = "_.*|^ignored_|^unused_"
+init-import = "no"
+redefining-builtins-modules = "six.moves,past.builtins,future.builtins,builtins,io"
+
+[tool.pylint.'CLASSES']
+defining-attr-methods= [
+    "__init__",
+    "__new__",
+    "setUp",
+    "__post_init__"
+]
+exclude-protected= [
+    "_asdict",
+    "_fields",
+    "_replace",
+    "_source",
+    "_make"
+]
+valid-classmethod-first-arg="cls"
+valid-metaclass-classmethod-first-arg="cls"
+
+[tool.pylint.'DESIGN']
+max-args=5
+max-attributes=7
+max-bool-expr=5
+max-branches=12
+max-locals=15
+max-parents=7
+max-public-methods=20
+max-returns=6
+max-statements=50
+min-public-methods=2
+
+[tool.pylint.'IMPORTS']
+allow-wildcard-with-all="no"
+analyse-fallback-blocks="no"
+deprecated-modules="optparse,tkinter.tix"
+
+[tool.pylint.'EXCEPTIONS']
+overgeneral-exceptions= [
+    "BaseException",
+    "Exception"
+]