From b1f0c5ee3df2357c8ddb905cfbc8371912c4297f Mon Sep 17 00:00:00 2001 From: John Franklin Crenshaw <41785729+jfcrenshaw@users.noreply.github.com> Date: Fri, 4 Nov 2022 16:09:37 -0700 Subject: [PATCH] Fixed renameDict error in model instantiation. (#8) --- .github/workflows/main.yml | 2 +- README.md | 7 + photerr/euclid.py | 2 +- photerr/lsst.py | 2 +- photerr/model.py | 2 +- photerr/params.py | 2 +- photerr/roman.py | 2 +- poetry.lock | 1289 +++++++++++++++++++----------------- pyproject.toml | 2 +- tests/test_models.py | 31 +- 10 files changed, 709 insertions(+), 632 deletions(-) diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index 302ede1..aaca91d 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -101,7 +101,7 @@ jobs: # (requires CODECOV_TOKEN in repository secrets) #---------------------------------------------- - name: Upload coverage - uses: codecov/codecov-action@v1 + uses: codecov/codecov-action@v3 with: token: ${{ secrets.CODECOV_TOKEN }} # Only required for private repositories file: ./coverage.xml diff --git a/README.md b/README.md index c0d152b..a037c77 100644 --- a/README.md +++ b/README.md @@ -77,6 +77,13 @@ errModel = LsstErrorModel(renameDict={"u": "lsst_u", "g": "lsst_g", ...}) This tells `LsstErrorModel` to use all of the default parameters, but just change the names it gave to all of the bands. If you are changing other dictionary-parameters at the same time (e.g. `nVisYr`, which sets the number of visits in each band per year), you can supply those parameters using *either* the new or old naming scheme! +### *Directly setting limiting magnitudes* + +By default, PhotErr tries to use the provided information to calculate limiting magnitudes for you. +If you would like to directly supply your own $5\sigma$ limits, you can do so using the `m5` parameter. +Note that PhotErr assumes these are single-visit limiting magnitudes. +If you want to supply coadded depths, you should also set `nYrObs=1` and `nVisYr={u: 1, g: 1, ...}`, so that the calculated coadded depths are equal to those you provided. + ### *Handling non-detections* The other big thing you may want to change is how the error model identifies and handles non-detections. diff --git a/photerr/euclid.py b/photerr/euclid.py index 689aec0..134b42d 100644 --- a/photerr/euclid.py +++ b/photerr/euclid.py @@ -49,4 +49,4 @@ def __init__(self, **kwargs: Any) -> None: Keyword arguments override default values in EuclidErrorParams. """ - super().__init__(EuclidErrorParams(), **kwargs) + super().__init__(EuclidErrorParams(**kwargs)) diff --git a/photerr/lsst.py b/photerr/lsst.py index d4c16b9..bddca94 100644 --- a/photerr/lsst.py +++ b/photerr/lsst.py @@ -89,4 +89,4 @@ def __init__(self, **kwargs: Any) -> None: Keyword arguments override default values in LsstErrorParams. """ - super().__init__(LsstErrorParams(), **kwargs) + super().__init__(LsstErrorParams(**kwargs)) diff --git a/photerr/model.py b/photerr/model.py index 1f4d6c1..f0a6349 100644 --- a/photerr/model.py +++ b/photerr/model.py @@ -45,7 +45,7 @@ def __init__(self, *args: ErrorParams, **kwargs: Any) -> None: elif len(args) > 0 and len(kwargs) == 0: self._params = args[0] elif len(args) == 0 and len(kwargs) > 0: - self._params = ErrorParams(**kwargs) # pragma: no cover + self._params = ErrorParams(**kwargs) else: self._params = args[0].copy() self._params.update(**kwargs) diff --git a/photerr/params.py b/photerr/params.py index ffc6109..4ef930c 100644 --- a/photerr/params.py +++ b/photerr/params.py @@ -325,7 +325,7 @@ def update(self, *args: dict, **kwargs: Any) -> None: # make sure that all of the keywords are in the class for key in kwargs: - if key not in self.__dict__: + if key not in self.__dict__ and key not in ["renameDict", "validate"]: raise ValueError( f"'{key}' is not a valid parameter name. " "Please check the docstring." diff --git a/photerr/roman.py b/photerr/roman.py index 14734ff..1bcc7fd 100644 --- a/photerr/roman.py +++ b/photerr/roman.py @@ -52,4 +52,4 @@ def __init__(self, **kwargs: Any) -> None: Keyword arguments override default values in RomanErrorParams. """ - super().__init__(RomanErrorParams(), **kwargs) + super().__init__(RomanErrorParams(**kwargs)) diff --git a/poetry.lock b/poetry.lock index a1b576f..3eb2ef6 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,6 +1,6 @@ [[package]] name = "anyio" -version = "3.6.1" +version = "3.6.2" description = "High level compatibility layer for multiple asynchronous event loop implementations" category = "dev" optional = false @@ -13,7 +13,7 @@ sniffio = ">=1.1" [package.extras] doc = ["packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"] test = ["contextlib2", "coverage[toml] (>=4.5)", "hypothesis (>=4.0)", "mock (>=4)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (<0.15)", "uvloop (>=0.15)"] -trio = ["trio (>=0.16)"] +trio = ["trio (>=0.16,<0.22)"] [[package]] name = "appnope" @@ -64,7 +64,7 @@ python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,>=2.7" [[package]] name = "asttokens" -version = "2.0.8" +version = "2.1.0" description = "Annotate AST trees with source code positions" category = "dev" optional = false @@ -92,7 +92,7 @@ tests_no_zope = ["cloudpickle", "coverage[toml] (>=5.0.2)", "hypothesis", "mypy [[package]] name = "Babel" -version = "2.10.3" +version = "2.11.0" description = "Internationalization utilities" category = "dev" optional = false @@ -126,11 +126,11 @@ lxml = ["lxml"] [[package]] name = "black" -version = "22.8.0" +version = "22.10.0" description = "The uncompromising code formatter." category = "dev" optional = false -python-versions = ">=3.6.2" +python-versions = ">=3.7" [package.dependencies] click = ">=8.0.0" @@ -164,7 +164,7 @@ dev = ["Sphinx (==4.3.2)", "black (==22.3.0)", "build (==0.8.0)", "flake8 (==4.0 [[package]] name = "certifi" -version = "2022.6.15.1" +version = "2022.9.24" description = "Python package for providing Mozilla's CA Bundle." category = "dev" optional = false @@ -213,15 +213,33 @@ colorama = {version = "*", markers = "platform_system == \"Windows\""} [[package]] name = "colorama" -version = "0.4.5" +version = "0.4.6" description = "Cross-platform colored terminal text." category = "dev" optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" +python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,!=3.5.*,!=3.6.*,>=2.7" + +[[package]] +name = "contourpy" +version = "1.0.6" +description = "Python library for calculating contours of 2D quadrilateral grids" +category = "dev" +optional = false +python-versions = ">=3.7" + +[package.dependencies] +numpy = ">=1.16" + +[package.extras] +bokeh = ["bokeh", "selenium"] +docs = ["docutils (<0.18)", "sphinx (<=5.2.0)", "sphinx-rtd-theme"] +test = ["Pillow", "flake8", "isort", "matplotlib", "pytest"] +test-minimal = ["pytest"] +test-no-codebase = ["Pillow", "matplotlib", "pytest"] [[package]] name = "coverage" -version = "6.4.4" +version = "6.5.0" description = "Code coverage measurement for Python" category = "dev" optional = false @@ -289,17 +307,31 @@ category = "dev" optional = false python-versions = "*" +[[package]] +name = "exceptiongroup" +version = "1.0.1" +description = "Backport of PEP 654 (exception groups)" +category = "dev" +optional = false +python-versions = ">=3.7" + +[package.extras] +test = ["pytest (>=6)"] + [[package]] name = "executing" -version = "1.0.0" +version = "1.2.0" description = "Get the currently executing AST node of a frame, and other information" category = "dev" optional = false python-versions = "*" +[package.extras] +tests = ["asttokens", "littleutils", "pytest", "rich"] + [[package]] name = "fastjsonschema" -version = "2.16.1" +version = "2.16.2" description = "Fastest Python implementation of JSON schema" category = "dev" optional = false @@ -359,18 +391,18 @@ flake8 = ">=3.5,<6" [[package]] name = "flake8-bugbear" -version = "22.9.11" +version = "22.10.27" description = "A plugin for flake8 finding likely bugs and design problems in your program. Contains warnings that don't belong in pyflakes and pycodestyle." category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] attrs = ">=19.2.0" flake8 = ">=3.0.0" [package.extras] -dev = ["coverage", "hypothesis", "hypothesmith (>=0.2)", "pre-commit"] +dev = ["coverage", "hypothesis", "hypothesmith (>=0.2)", "pre-commit", "tox"] [[package]] name = "flake8-builtins" @@ -388,7 +420,7 @@ test = ["coverage", "coveralls", "mock", "pytest", "pytest-cov"] [[package]] name = "flake8-comprehensions" -version = "3.10.0" +version = "3.10.1" description = "A flake8 plugin to help you write better list/set/dict comprehensions." category = "dev" optional = false @@ -411,17 +443,16 @@ pydocstyle = ">=2.1" [[package]] name = "flake8-eradicate" -version = "1.3.0" +version = "1.4.0" description = "Flake8 plugin to find commented out code" category = "dev" optional = false -python-versions = ">=3.6,<4.0" +python-versions = ">=3.7,<4.0" [package.dependencies] attrs = "*" eradicate = ">=2.0,<3.0" flake8 = ">=3.5,<6" -setuptools = "*" [[package]] name = "flake8-isort" @@ -494,7 +525,7 @@ flake8 = ">=3.8.0" [[package]] name = "fonttools" -version = "4.37.1" +version = "4.38.0" description = "Tools to manipulate font files" category = "dev" optional = false @@ -516,7 +547,7 @@ woff = ["brotli (>=1.0.1)", "brotlicffi (>=0.8.0)", "zopfli (>=0.1.4)"] [[package]] name = "identify" -version = "2.5.5" +version = "2.5.8" description = "File identification library for Python" category = "dev" optional = false @@ -527,7 +558,7 @@ license = ["ukkonen"] [[package]] name = "idna" -version = "3.3" +version = "3.4" description = "Internationalized Domain Names in Applications (IDNA)" category = "dev" optional = false @@ -535,7 +566,7 @@ python-versions = ">=3.5" [[package]] name = "importlib-metadata" -version = "4.12.0" +version = "5.0.0" description = "Read metadata from Python packages" category = "dev" optional = false @@ -545,13 +576,13 @@ python-versions = ">=3.7" zipp = ">=0.5" [package.extras] -docs = ["jaraco.packaging (>=9)", "rst.linker (>=1.9)", "sphinx"] +docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"] perf = ["ipython"] -testing = ["flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)"] +testing = ["flake8 (<5)", "flufl.flake8", "importlib-resources (>=1.3)", "packaging", "pyfakefs", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf (>=0.9.2)"] [[package]] name = "importlib-resources" -version = "5.9.0" +version = "5.10.0" description = "Read resources from Python packages" category = "dev" optional = false @@ -561,8 +592,8 @@ python-versions = ">=3.7" zipp = {version = ">=3.1.0", markers = "python_version < \"3.10\""} [package.extras] -docs = ["jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx"] -testing = ["pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"] +docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"] +testing = ["flake8 (<5)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"] [[package]] name = "iniconfig" @@ -574,11 +605,11 @@ python-versions = "*" [[package]] name = "ipykernel" -version = "6.15.3" +version = "6.17.0" description = "IPython Kernel for Jupyter" category = "dev" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] appnope = {version = "*", markers = "platform_system == \"Darwin\""} @@ -594,11 +625,12 @@ tornado = ">=6.1" traitlets = ">=5.1.0" [package.extras] -test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=6.0)", "pytest-cov", "pytest-timeout"] +docs = ["myst-parser", "pydata-sphinx-theme", "sphinx", "sphinxcontrib-github-alt"] +test = ["flaky", "ipyparallel", "pre-commit", "pytest (>=7.0)", "pytest-cov", "pytest-timeout"] [[package]] name = "ipython" -version = "8.5.0" +version = "8.6.0" description = "IPython: Productive Interactive Computing" category = "dev" optional = false @@ -619,9 +651,9 @@ stack-data = "*" traitlets = ">=5" [package.extras] -all = ["Sphinx (>=1.3)", "black", "curio", "ipykernel", "ipyparallel", "ipywidgets", "matplotlib (!=3.2.0)", "nbconvert", "nbformat", "notebook", "numpy (>=1.19)", "pandas", "pytest (<7.1)", "pytest-asyncio", "qtconsole", "testpath", "trio"] +all = ["black", "curio", "docrepr", "ipykernel", "ipyparallel", "ipywidgets", "matplotlib", "matplotlib (!=3.2.0)", "nbconvert", "nbformat", "notebook", "numpy (>=1.20)", "pandas", "pytest (<7)", "pytest (<7.1)", "pytest-asyncio", "qtconsole", "setuptools (>=18.5)", "sphinx (>=1.3)", "sphinx-rtd-theme", "stack-data", "testpath", "trio", "typing-extensions"] black = ["black"] -doc = ["Sphinx (>=1.3)"] +doc = ["docrepr", "ipykernel", "matplotlib", "pytest (<7)", "pytest (<7.1)", "pytest-asyncio", "setuptools (>=18.5)", "sphinx (>=1.3)", "sphinx-rtd-theme", "stack-data", "testpath", "typing-extensions"] kernel = ["ipykernel"] nbconvert = ["nbconvert"] nbformat = ["nbformat"] @@ -629,7 +661,7 @@ notebook = ["ipywidgets", "notebook"] parallel = ["ipyparallel"] qtconsole = ["qtconsole"] test = ["pytest (<7.1)", "pytest-asyncio", "testpath"] -test_extra = ["curio", "matplotlib (!=3.2.0)", "nbformat", "numpy (>=1.19)", "pandas", "pytest (<7.1)", "pytest-asyncio", "testpath", "trio"] +test_extra = ["curio", "matplotlib (!=3.2.0)", "nbformat", "numpy (>=1.20)", "pandas", "pytest (<7.1)", "pytest-asyncio", "testpath", "trio"] [[package]] name = "ipython_genutils" @@ -695,7 +727,7 @@ dev = ["hypothesis"] [[package]] name = "jsonschema" -version = "4.16.0" +version = "4.17.0" description = "An implementation of JSON Schema validation for Python" category = "dev" optional = false @@ -713,7 +745,7 @@ format-nongpl = ["fqdn", "idna", "isoduration", "jsonpointer (>1.13)", "rfc3339- [[package]] name = "jupyter-client" -version = "7.3.5" +version = "7.4.4" description = "Jupyter protocol implementation and client libraries" category = "dev" optional = false @@ -730,11 +762,11 @@ traitlets = "*" [package.extras] doc = ["ipykernel", "myst-parser", "sphinx (>=1.3.6)", "sphinx-rtd-theme", "sphinxcontrib-github-alt"] -test = ["codecov", "coverage", "ipykernel (>=6.5)", "ipython", "mypy", "pre-commit", "pytest", "pytest-asyncio (>=0.18)", "pytest-cov", "pytest-timeout"] +test = ["codecov", "coverage", "ipykernel (>=6.12)", "ipython", "mypy", "pre-commit", "pytest", "pytest-asyncio (>=0.18)", "pytest-cov", "pytest-timeout"] [[package]] name = "jupyter-core" -version = "4.11.1" +version = "4.11.2" description = "Jupyter core package. A base package on which Jupyter projects rely." category = "dev" optional = false @@ -749,7 +781,7 @@ test = ["ipykernel", "pre-commit", "pytest", "pytest-cov", "pytest-timeout"] [[package]] name = "jupyter-server" -version = "1.18.1" +version = "1.21.0" description = "The backend—i.e. core services, APIs, and REST endpoints—to Jupyter web applications." category = "dev" optional = false @@ -774,11 +806,11 @@ traitlets = ">=5.1" websocket-client = "*" [package.extras] -test = ["coverage", "ipykernel", "pre-commit", "pytest (>=6.0)", "pytest-console-scripts", "pytest-cov", "pytest-mock", "pytest-timeout", "pytest-tornasync", "requests"] +test = ["coverage", "ipykernel", "pre-commit", "pytest (>=7.0)", "pytest-console-scripts", "pytest-cov", "pytest-mock", "pytest-timeout", "pytest-tornasync", "requests"] [[package]] name = "jupyterlab" -version = "3.4.7" +version = "3.5.0" description = "JupyterLab computational environment" category = "dev" optional = false @@ -788,7 +820,7 @@ python-versions = ">=3.7" ipython = "*" jinja2 = ">=2.1" jupyter-core = "*" -jupyter-server = ">=1.16,<2.0" +jupyter-server = ">=1.16.0,<3" jupyterlab-server = ">=2.10,<3.0" nbclassic = "*" notebook = "<7" @@ -810,7 +842,7 @@ python-versions = ">=3.7" [[package]] name = "jupyterlab-server" -version = "2.15.1" +version = "2.16.2" description = "A set of server components for JupyterLab and JupyterLab like applications." category = "dev" optional = false @@ -818,17 +850,18 @@ python-versions = ">=3.7" [package.dependencies] babel = "*" -importlib-metadata = {version = ">=3.6", markers = "python_version < \"3.10\""} +importlib-metadata = {version = ">=4.8.3", markers = "python_version < \"3.10\""} jinja2 = ">=3.0.3" json5 = "*" jsonschema = ">=3.0.1" -jupyter-server = ">=1.8,<2" +jupyter-server = ">=1.8,<3" packaging = "*" requests = "*" [package.extras] +docs = ["autodoc-traits", "docutils (<0.19)", "jinja2 (<3.1.0)", "mistune (<1)", "myst-parser", "pydata-sphinx-theme", "sphinx", "sphinx-copybutton", "sphinxcontrib-openapi"] openapi = ["openapi-core (>=0.14.2)", "ruamel-yaml"] -test = ["codecov", "ipykernel", "jupyter-server[test]", "openapi-core (>=0.14.2)", "openapi-spec-validator (<0.5)", "pytest (>=5.3.2)", "pytest-console-scripts", "pytest-cov", "ruamel-yaml", "strict-rfc3339"] +test = ["codecov", "ipykernel", "jupyter-server[test]", "openapi-core (>=0.14.2,<0.15.0)", "openapi-spec-validator (<0.5)", "pytest (>=7.0)", "pytest-console-scripts", "pytest-cov", "ruamel-yaml", "strict-rfc3339"] [[package]] name = "kiwisolver" @@ -838,20 +871,6 @@ category = "dev" optional = false python-versions = ">=3.7" -[[package]] -name = "lxml" -version = "4.9.1" -description = "Powerful and Pythonic XML processing library combining libxml2/libxslt with the ElementTree API." -category = "dev" -optional = false -python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, != 3.4.*" - -[package.extras] -cssselect = ["cssselect (>=0.7)"] -html5 = ["html5lib"] -htmlsoup = ["BeautifulSoup4"] -source = ["Cython (>=0.29.7)"] - [[package]] name = "MarkupSafe" version = "2.1.1" @@ -862,22 +881,23 @@ python-versions = ">=3.7" [[package]] name = "matplotlib" -version = "3.5.3" +version = "3.6.2" description = "Python plotting package" category = "dev" optional = false -python-versions = ">=3.7" +python-versions = ">=3.8" [package.dependencies] +contourpy = ">=1.0.1" cycler = ">=0.10" fonttools = ">=4.22.0" kiwisolver = ">=1.0.1" -numpy = ">=1.17" +numpy = ">=1.19" packaging = ">=20.0" pillow = ">=6.2.0" pyparsing = ">=2.2.1" python-dateutil = ">=2.7" -setuptools_scm = ">=4,<7" +setuptools_scm = ">=7" [[package]] name = "matplotlib-inline" @@ -934,7 +954,7 @@ python-versions = "*" [[package]] name = "nbclassic" -version = "0.4.3" +version = "0.4.8" description = "A web-based notebook environment for interactive computing" category = "dev" optional = false @@ -962,11 +982,11 @@ traitlets = ">=4.2.1" [package.extras] docs = ["myst-parser", "nbsphinx", "sphinx", "sphinx-rtd-theme", "sphinxcontrib-github-alt"] json-logging = ["json-logging"] -test = ["coverage", "nbval", "pytest", "pytest-cov", "pytest-tornasync", "requests", "requests-unixsocket", "selenium (==4.1.5)", "testpath"] +test = ["coverage", "nbval", "pytest", "pytest-cov", "pytest-playwright", "pytest-tornasync", "requests", "requests-unixsocket", "testpath"] [[package]] name = "nbclient" -version = "0.6.8" +version = "0.7.0" description = "A client library for executing notebooks. Formerly nbconvert's ExecutePreprocessor." category = "dev" optional = false @@ -984,7 +1004,7 @@ test = ["black", "check-manifest", "flake8", "ipykernel", "ipython", "ipywidgets [[package]] name = "nbconvert" -version = "7.0.0" +version = "7.2.3" description = "Converting Jupyter Notebooks" category = "dev" optional = false @@ -998,7 +1018,6 @@ importlib-metadata = {version = ">=3.6", markers = "python_version < \"3.10\""} jinja2 = ">=3.0" jupyter-core = ">=4.7" jupyterlab-pygments = "*" -lxml = "*" markupsafe = ">=2.0" mistune = ">=2.0.3,<3" nbclient = ">=0.5.0" @@ -1010,8 +1029,8 @@ tinycss2 = "*" traitlets = ">=5.0" [package.extras] -all = ["ipykernel", "ipython", "ipywidgets (>=7)", "nbsphinx (>=0.2.12)", "pre-commit", "pyppeteer (>=1,<1.1)", "pyqtwebengine (>=5.15)", "pytest", "pytest-cov", "pytest-dependency", "sphinx (==5.0.2)", "sphinx-rtd-theme", "tornado (>=6.1)"] -docs = ["ipython", "nbsphinx (>=0.2.12)", "sphinx (==5.0.2)", "sphinx-rtd-theme"] +all = ["ipykernel", "ipython", "ipywidgets (>=7)", "myst-parser", "nbsphinx (>=0.2.12)", "pre-commit", "pyppeteer (>=1,<1.1)", "pyqtwebengine (>=5.15)", "pytest", "pytest-cov", "pytest-dependency", "sphinx (==5.0.2)", "sphinx-rtd-theme", "tornado (>=6.1)"] +docs = ["ipython", "myst-parser", "nbsphinx (>=0.2.12)", "sphinx (==5.0.2)", "sphinx-rtd-theme"] qtpdf = ["pyqtwebengine (>=5.15)"] qtpng = ["pyqtwebengine (>=5.15)"] serve = ["tornado (>=6.1)"] @@ -1020,7 +1039,7 @@ webpdf = ["pyppeteer (>=1,<1.1)"] [[package]] name = "nbformat" -version = "5.5.0" +version = "5.7.0" description = "The Jupyter Notebook format" category = "dev" optional = false @@ -1029,7 +1048,7 @@ python-versions = ">=3.7" [package.dependencies] fastjsonschema = "*" jsonschema = ">=2.6" -jupyter_core = "*" +jupyter-core = "*" traitlets = ">=5.1" [package.extras] @@ -1037,7 +1056,7 @@ test = ["check-manifest", "pep440", "pre-commit", "pytest", "testpath"] [[package]] name = "nest-asyncio" -version = "1.5.5" +version = "1.5.6" description = "Patch asyncio to allow nested event loops" category = "dev" optional = false @@ -1056,7 +1075,7 @@ setuptools = "*" [[package]] name = "notebook" -version = "6.4.12" +version = "6.5.2" description = "A web-based notebook environment for interactive computing" category = "dev" optional = false @@ -1069,6 +1088,7 @@ ipython-genutils = "*" jinja2 = "*" jupyter-client = ">=5.3.4" jupyter-core = ">=4.6.1" +nbclassic = ">=0.4.7" nbconvert = ">=5" nbformat = "*" nest-asyncio = ">=1.5" @@ -1082,25 +1102,25 @@ traitlets = ">=4.2.1" [package.extras] docs = ["myst-parser", "nbsphinx", "sphinx", "sphinx-rtd-theme", "sphinxcontrib-github-alt"] json-logging = ["json-logging"] -test = ["coverage", "nbval", "pytest", "pytest-cov", "requests", "requests-unixsocket", "selenium", "testpath"] +test = ["coverage", "nbval", "pytest", "pytest-cov", "requests", "requests-unixsocket", "selenium (==4.1.5)", "testpath"] [[package]] name = "notebook-shim" -version = "0.1.0" +version = "0.2.2" description = "A shim layer for notebook traits and config" category = "dev" optional = false python-versions = ">=3.7" [package.dependencies] -jupyter-server = ">=1.8,<2.0" +jupyter-server = ">=1.8,<3" [package.extras] test = ["pytest", "pytest-console-scripts", "pytest-tornasync"] [[package]] name = "numpy" -version = "1.23.3" +version = "1.23.4" description = "NumPy is the fundamental package for array computing with Python." category = "main" optional = false @@ -1119,7 +1139,7 @@ pyparsing = ">=2.0.2,<3.0.5 || >3.0.5" [[package]] name = "pandas" -version = "1.4.4" +version = "1.5.1" description = "Powerful data structures for data analysis, time series, and statistics" category = "main" optional = false @@ -1127,9 +1147,7 @@ python-versions = ">=3.8" [package.dependencies] numpy = [ - {version = ">=1.18.5", markers = "platform_machine != \"aarch64\" and platform_machine != \"arm64\" and python_version < \"3.10\""}, - {version = ">=1.19.2", markers = "platform_machine == \"aarch64\" and python_version < \"3.10\""}, - {version = ">=1.20.0", markers = "platform_machine == \"arm64\" and python_version < \"3.10\""}, + {version = ">=1.20.3", markers = "python_version < \"3.10\""}, {version = ">=1.21.0", markers = "python_version >= \"3.10\""}, ] python-dateutil = ">=2.8.1" @@ -1187,7 +1205,7 @@ python-versions = "*" [[package]] name = "Pillow" -version = "9.2.0" +version = "9.3.0" description = "Python Imaging Library (Fork)" category = "dev" optional = false @@ -1247,7 +1265,7 @@ virtualenv = ">=20.0.8" [[package]] name = "prometheus-client" -version = "0.14.1" +version = "0.15.0" description = "Python client for the Prometheus monitoring system." category = "dev" optional = false @@ -1258,7 +1276,7 @@ twisted = ["twisted"] [[package]] name = "prompt-toolkit" -version = "3.0.31" +version = "3.0.32" description = "Library for building powerful interactive command lines in Python" category = "dev" optional = false @@ -1269,7 +1287,7 @@ wcwidth = "*" [[package]] name = "psutil" -version = "5.9.2" +version = "5.9.3" description = "Cross-platform lib for process and system monitoring in Python." category = "dev" optional = false @@ -1367,7 +1385,7 @@ diagrams = ["jinja2", "railroad-diagrams"] [[package]] name = "pyrsistent" -version = "0.18.1" +version = "0.19.2" description = "Persistent/Functional/Immutable data structures" category = "dev" optional = false @@ -1375,7 +1393,7 @@ python-versions = ">=3.7" [[package]] name = "pytest" -version = "7.1.3" +version = "7.2.0" description = "pytest: simple powerful testing with Python" category = "dev" optional = false @@ -1384,11 +1402,11 @@ python-versions = ">=3.7" [package.dependencies] attrs = ">=19.2.0" colorama = {version = "*", markers = "sys_platform == \"win32\""} +exceptiongroup = {version = ">=1.0.0rc8", markers = "python_version < \"3.11\""} iniconfig = "*" packaging = "*" pluggy = ">=0.12,<2.0" -py = ">=1.8.2" -tomli = ">=1.0.0" +tomli = {version = ">=1.0.0", markers = "python_version < \"3.11\""} [package.extras] testing = ["argcomplete", "hypothesis (>=3.56)", "mock", "nose", "pygments (>=2.7.2)", "requests", "xmlschema"] @@ -1421,7 +1439,7 @@ six = ">=1.5" [[package]] name = "pytz" -version = "2022.2.1" +version = "2022.6" description = "World timezone definitions, modern and historical" category = "main" optional = false @@ -1437,7 +1455,7 @@ python-versions = "*" [[package]] name = "pywinpty" -version = "2.0.7" +version = "2.0.9" description = "Pseudo terminal support for Windows from Python." category = "dev" optional = false @@ -1453,7 +1471,7 @@ python-versions = ">=3.6" [[package]] name = "pyzmq" -version = "23.2.1" +version = "24.0.1" description = "Python bindings for 0MQ" category = "dev" optional = false @@ -1496,29 +1514,30 @@ win32 = ["pywin32"] [[package]] name = "setuptools" -version = "65.3.0" +version = "65.5.1" description = "Easily download, build, install, upgrade, and uninstall Python packages" category = "dev" optional = false python-versions = ">=3.7" [package.extras] -docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"] -testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8 (<5)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "mock", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"] +docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "pygments-github-lexers (==0.0.5)", "rst.linker (>=1.9)", "sphinx (>=3.5)", "sphinx-favicon", "sphinx-hoverxref (<2)", "sphinx-inline-tabs", "sphinx-notfound-page (==0.8.3)", "sphinx-reredirects", "sphinxcontrib-towncrier"] +testing = ["build[virtualenv]", "filelock (>=3.4.0)", "flake8 (<5)", "flake8-2020", "ini2toml[lite] (>=0.9)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pip (>=19.1)", "pip-run (>=8.8)", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)", "pytest-perf", "pytest-timeout", "pytest-xdist", "tomli-w (>=1.0.0)", "virtualenv (>=13.0.0)", "wheel"] testing-integration = ["build[virtualenv]", "filelock (>=3.4.0)", "jaraco.envs (>=2.2)", "jaraco.path (>=3.2.0)", "pytest", "pytest-enabler", "pytest-xdist", "tomli", "virtualenv (>=13.0.0)", "wheel"] [[package]] name = "setuptools-scm" -version = "6.4.2" +version = "7.0.5" description = "the blessed package to manage your versions by scm tags" category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] packaging = ">=20.0" setuptools = "*" tomli = ">=1.0.0" +typing-extensions = "*" [package.extras] test = ["pytest (>=6.2)", "virtualenv (>20)"] @@ -1558,15 +1577,15 @@ python-versions = ">=3.6" [[package]] name = "stack-data" -version = "0.5.0" +version = "0.6.0" description = "Extract data from python stack frames and tracebacks for informative displays" category = "dev" optional = false python-versions = "*" [package.dependencies] -asttokens = "*" -executing = "*" +asttokens = ">=2.1.0" +executing = ">=1.2.0" pure-eval = "*" [package.extras] @@ -1574,7 +1593,7 @@ tests = ["cython", "littleutils", "pygments", "pytest", "typeguard"] [[package]] name = "terminado" -version = "0.15.0" +version = "0.17.0" description = "Tornado websocket backend for the Xterm.js Javascript terminal emulator library." category = "dev" optional = false @@ -1586,22 +1605,23 @@ pywinpty = {version = ">=1.1.0", markers = "os_name == \"nt\""} tornado = ">=6.1.0" [package.extras] -test = ["pre-commit", "pytest (>=6.0)", "pytest-timeout"] +docs = ["pydata-sphinx-theme", "sphinx"] +test = ["pre-commit", "pytest (>=7.0)", "pytest-timeout"] [[package]] name = "tinycss2" -version = "1.1.1" +version = "1.2.1" description = "A tiny CSS parser" category = "dev" optional = false -python-versions = ">=3.6" +python-versions = ">=3.7" [package.dependencies] webencodings = ">=0.4" [package.extras] doc = ["sphinx", "sphinx_rtd_theme"] -test = ["coverage[toml]", "pytest", "pytest-cov", "pytest-flake8", "pytest-isort"] +test = ["flake8", "isort", "pytest"] [[package]] name = "toml" @@ -1629,18 +1649,19 @@ python-versions = ">= 3.7" [[package]] name = "traitlets" -version = "5.4.0" +version = "5.5.0" description = "" category = "dev" optional = false python-versions = ">=3.7" [package.extras] +docs = ["myst-parser", "pydata-sphinx-theme", "sphinx"] test = ["pre-commit", "pytest"] [[package]] name = "typing-extensions" -version = "4.3.0" +version = "4.4.0" description = "Backported and Experimental Type Hints for Python 3.7+" category = "dev" optional = false @@ -1661,19 +1682,19 @@ socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] [[package]] name = "virtualenv" -version = "20.16.5" +version = "20.16.6" description = "Virtual Python Environment builder" category = "dev" optional = false python-versions = ">=3.6" [package.dependencies] -distlib = ">=0.3.5,<1" +distlib = ">=0.3.6,<1" filelock = ">=3.4.1,<4" platformdirs = ">=2.4,<3" [package.extras] -docs = ["proselint (>=0.13)", "sphinx (>=5.1.1)", "sphinx-argparse (>=0.3.1)", "sphinx-rtd-theme (>=1)", "towncrier (>=21.9)"] +docs = ["proselint (>=0.13)", "sphinx (>=5.3)", "sphinx-argparse (>=0.3.2)", "sphinx-rtd-theme (>=1)", "towncrier (>=22.8)"] testing = ["coverage (>=6.2)", "coverage-enable-subprocess (>=1)", "flaky (>=3.7)", "packaging (>=21.3)", "pytest (>=7.0.1)", "pytest-env (>=0.6.2)", "pytest-freezegun (>=0.4.2)", "pytest-mock (>=3.6.1)", "pytest-randomly (>=3.10.3)", "pytest-timeout (>=2.1)"] [[package]] @@ -1694,7 +1715,7 @@ python-versions = "*" [[package]] name = "websocket-client" -version = "1.4.1" +version = "1.4.2" description = "WebSocket client for Python with low level API options" category = "dev" optional = false @@ -1707,15 +1728,15 @@ test = ["websockets"] [[package]] name = "zipp" -version = "3.8.1" +version = "3.10.0" description = "Backport of pathlib-compatible object wrapper for zip files" category = "dev" optional = false python-versions = ">=3.7" [package.extras] -docs = ["jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx"] -testing = ["func-timeout", "jaraco.itertools", "pytest (>=6)", "pytest-black (>=0.3.7)", "pytest-checkdocs (>=2.4)", "pytest-cov", "pytest-enabler (>=1.3)", "pytest-flake8", "pytest-mypy (>=0.9.1)"] +docs = ["furo", "jaraco.packaging (>=9)", "jaraco.tidelift (>=1.4)", "rst.linker (>=1.9)", "sphinx (>=3.5)"] +testing = ["flake8 (<5)", "func-timeout", "jaraco.functools", "jaraco.itertools", "more-itertools", "pytest (>=6)", 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-> None: romanData = RomanErrorModel()(data, 0) assert romanData.shape == (data.shape[0], data.shape[1] + 2) + + +def test_rename_bands() -> None: + """Test renaming the bands in the error model. + + This failure was noticed by Sam Schmidt. + """ + LsstErrorModel(renameDict={"y": "y_lsst"}) + EuclidErrorModel(renameDict={"Y": "y_euclid"}) + RomanErrorModel(renameDict={"Y": "y_roman"}) + + +def test_alternate_instantiation() -> None: + """Test alternate ways of instantiating models.""" + # test that all arguments works and gives me same effect as Params object + errM1 = ErrorModel(LsstErrorParams()) + errM2 = ErrorModel(**LsstErrorParams().__dict__) + assert errM1.params.__dict__ == errM2.params.__dict__ + + # test that I can update params inside or outside the param object + errM1 = ErrorModel(LsstErrorParams(), nYrObs=2) + errM2 = ErrorModel(LsstErrorParams(nYrObs=2)) + assert errM1.params == errM2.params