diff --git a/.flake8 b/.flake8 index cb16334c..8f7da60a 100644 --- a/.flake8 +++ b/.flake8 @@ -1,7 +1,7 @@ [flake8] select = B,B9,C,D,DAR,E,F,N,RST,S,W ignore = E203,E501,RST201,RST203,RST301,W503 -max-line-length = 80 +max-line-length = 88 max-complexity = 10 docstring-convention = google rst-roles = class,const,func,meth,mod,ref diff --git a/.gitignore b/.gitignore index 9381963c..0b4901ab 100644 --- a/.gitignore +++ b/.gitignore @@ -9,3 +9,4 @@ docs/_build/ src/*.egg-info/ __pycache__/ .idea/ +.venv/ diff --git a/poetry.lock b/poetry.lock index 2e2af736..7bf5910d 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,10 +1,9 @@ -# This file is automatically @generated by Poetry 1.4.2 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.5.1 and should not be changed by hand. 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hash = "sha256:62642358adc77ffa87233bc4d2354c4b2682d214048f500964dbe760ccedf102"}, ] [package.extras] 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-lint", "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 = ["build[virtualenv]", "filelock (>=3.4.0)", "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-mypy (>=0.9.1)", "pytest-perf", "pytest-ruff", "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 = "simpervisor" -version = "0.4" +version = "1.0.0" description = "Simple async process supervisor" -category = "dev" optional = false -python-versions = "*" +python-versions = ">=3.8" files = [ - {file = "simpervisor-0.4-py3-none-any.whl", hash = "sha256:8af72599d089efcfff30a86266de44b874b689611baa1345213795624fbd74fa"}, - {file = "simpervisor-0.4.tar.gz", hash = "sha256:cec79e13cdbd6edb04a5c98c1ff8d4bd9713e706c069226909a1ef0e89d393c5"}, + {file = "simpervisor-1.0.0-py3-none-any.whl", hash = "sha256:3e313318264559beea3f475ead202bc1cd58a2f1288363abb5657d306c5b8388"}, + {file = "simpervisor-1.0.0.tar.gz", hash = "sha256:7eb87ca86d5e276976f5bb0290975a05d452c6a7b7f58062daea7d8369c823c1"}, ] +[package.extras] +test = ["aiohttp", "psutil", "pytest", "pytest-asyncio", "pytest-cov"] + [[package]] name = "six" version = "1.16.0" description = "Python 2 and 3 compatibility utilities" -category = "main" optional = false python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*" files = [ @@ -4718,7 +4533,6 @@ files = [ name = "smmap" version = "5.0.0" description = "A pure Python implementation of a sliding window memory map manager" -category = "dev" optional = false python-versions = ">=3.6" files = [ @@ -4730,7 +4544,6 @@ files = [ name = "sniffio" version = "1.3.0" description = "Sniff out which async library your code is running under" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -4742,7 +4555,6 @@ files = [ name = "snowballstemmer" version = "2.2.0" description = "This package provides 29 stemmers for 28 languages generated from Snowball algorithms." -category = "dev" optional = false python-versions = "*" files = [ @@ -4754,7 +4566,6 @@ files = [ name = "sortedcontainers" version = "2.4.0" description = "Sorted Containers -- Sorted List, Sorted Dict, Sorted Set" -category = "main" optional = false python-versions = "*" files = [ @@ -4766,7 +4577,6 @@ files = [ name = "soupsieve" version = "2.4.1" description = "A modern CSS selector implementation for Beautiful Soup." -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -4778,7 +4588,6 @@ files = [ name = "sphinx" version = "5.3.0" description = "Python documentation generator" -category = "dev" optional = false python-versions = ">=3.6" files = [ @@ -4814,7 +4623,6 @@ test = ["cython", "html5lib", "pytest (>=4.6)", "typed_ast"] name = "sphinx-autobuild" version = "2021.3.14" description = "Rebuild Sphinx documentation on changes, with live-reload in the browser." -category = "dev" optional = false python-versions = ">=3.6" files = [ @@ -4834,7 +4642,6 @@ test = ["pytest", "pytest-cov"] name = "sphinx-basic-ng" version = "1.0.0b1" description = "A modern skeleton for Sphinx themes." -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -4852,7 +4659,6 @@ docs = ["furo", "ipython", "myst-parser", "sphinx-copybutton", "sphinx-inline-ta name = "sphinx-click" version = "4.4.0" description = "Sphinx extension that automatically documents click applications" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -4869,7 +4675,6 @@ sphinx = ">=2.0" name = "sphinx-copybutton" version = "0.5.2" description = "Add a copy button to each of your code cells." -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -4888,7 +4693,6 @@ rtd = ["ipython", "myst-nb", "sphinx", "sphinx-book-theme", "sphinx-examples"] name = "sphinxcontrib-applehelp" version = "1.0.4" description = "sphinxcontrib-applehelp is a Sphinx extension which outputs Apple help books" -category = "dev" optional = false python-versions = ">=3.8" files = [ @@ -4904,7 +4708,6 @@ test = ["pytest"] name = "sphinxcontrib-devhelp" version = "1.0.2" description = "sphinxcontrib-devhelp is a sphinx extension which outputs Devhelp document." -category = "dev" optional = false python-versions = ">=3.5" files = [ @@ -4920,7 +4723,6 @@ test = ["pytest"] name = "sphinxcontrib-htmlhelp" version = "2.0.1" description = "sphinxcontrib-htmlhelp is a sphinx extension which renders HTML help files" -category = "dev" optional = false python-versions = ">=3.8" files = [ @@ -4936,7 +4738,6 @@ test = ["html5lib", "pytest"] name = "sphinxcontrib-jsmath" version = "1.0.1" description = "A sphinx extension which renders display math in HTML via JavaScript" -category = "dev" optional = false python-versions = ">=3.5" files = [ @@ -4951,7 +4752,6 @@ test = ["flake8", "mypy", "pytest"] name = "sphinxcontrib-qthelp" version = "1.0.3" description = "sphinxcontrib-qthelp is a sphinx extension which outputs QtHelp document." -category = "dev" optional = false python-versions = ">=3.5" files = [ @@ -4967,7 +4767,6 @@ test = ["pytest"] name = "sphinxcontrib-serializinghtml" version = "1.1.5" description = "sphinxcontrib-serializinghtml is a sphinx extension which outputs \"serialized\" HTML files (json and pickle)." -category = "dev" optional = false python-versions = ">=3.5" files = [ @@ -4983,7 +4782,6 @@ test = ["pytest"] name = "stack-data" version = "0.6.2" description = "Extract data from python stack frames and tracebacks for informative displays" -category = "dev" optional = false python-versions = "*" files = [ @@ -5003,7 +4801,6 @@ tests = ["cython", "littleutils", "pygments", "pytest", "typeguard"] name = "stevedore" version = "5.1.0" description = "Manage dynamic plugins for Python applications" -category = "dev" optional = false python-versions = ">=3.8" files = [ @@ -5018,7 +4815,6 @@ pbr = ">=2.0.0,<2.1.0 || >2.1.0" name = "tblib" version = "1.7.0" description = "Traceback serialization library." -category = "main" optional = false python-versions = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" files = [ @@ -5030,7 +4826,6 @@ files = [ name = "terminado" version = "0.17.1" description = "Tornado websocket backend for the Xterm.js Javascript terminal emulator library." -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5051,7 +4846,6 @@ test = ["pre-commit", "pytest (>=7.0)", "pytest-timeout"] name = "tinycss2" version = "1.2.1" description = "A tiny CSS parser" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5070,7 +4864,6 @@ test = ["flake8", "isort", "pytest"] name = "tokenize-rt" version = "4.2.1" description = "A wrapper around the stdlib `tokenize` which roundtrips." -category = "dev" optional = false python-versions = ">=3.6.1" files = [ @@ -5082,7 +4875,6 @@ files = [ name = "toml" version = "0.10.2" description = "Python Library for Tom's Obvious, Minimal Language" -category = "dev" optional = false python-versions = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" files = [ @@ -5094,7 +4886,6 @@ files = [ name = "tomli" version = "2.0.1" description = "A lil' TOML parser" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5106,7 +4897,6 @@ files = [ name = "toolz" version = "0.12.0" description = "List processing tools and functional utilities" -category = "main" optional = false python-versions = ">=3.5" files = [ @@ -5118,7 +4908,6 @@ files = [ name = "tornado" version = "6.3.2" description = "Tornado is a Python web framework and asynchronous networking library, originally developed at FriendFeed." -category = "main" optional = false python-versions = ">= 3.8" files = [ @@ -5139,7 +4928,6 @@ files = [ name = "tqdm" version = "4.65.0" description = "Fast, Extensible Progress Meter" -category = "main" optional = false python-versions = ">=3.7" files = [ @@ -5160,7 +4948,6 @@ telegram = ["requests"] name = "traitlets" version = "5.9.0" description = "Traitlets Python configuration system" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5176,7 +4963,6 @@ test = ["argcomplete (>=2.0)", "pre-commit", "pytest", "pytest-mock"] name = "typeguard" version = "2.13.3" description = "Run-time type checker for Python" -category = "dev" optional = false python-versions = ">=3.5.3" files = [ @@ -5190,21 +4976,19 @@ test = ["mypy", "pytest", "typing-extensions"] [[package]] name = "typing-extensions" -version = "4.5.0" +version = "4.6.3" description = "Backported and Experimental Type Hints for Python 3.7+" -category = "main" optional = false python-versions = ">=3.7" files = [ - {file = "typing_extensions-4.5.0-py3-none-any.whl", hash = "sha256:fb33085c39dd998ac16d1431ebc293a8b3eedd00fd4a32de0ff79002c19511b4"}, - {file = "typing_extensions-4.5.0.tar.gz", hash = "sha256:5cb5f4a79139d699607b3ef622a1dedafa84e115ab0024e0d9c044a9479ca7cb"}, + {file = "typing_extensions-4.6.3-py3-none-any.whl", hash = "sha256:88a4153d8505aabbb4e13aacb7c486c2b4a33ca3b3f807914a9b4c844c471c26"}, + {file = "typing_extensions-4.6.3.tar.gz", hash = "sha256:d91d5919357fe7f681a9f2b5b4cb2a5f1ef0a1e9f59c4d8ff0d3491e05c0ffd5"}, ] [[package]] name = "uri-template" version = "1.2.0" description = "RFC 6570 URI Template Processor" -category = "dev" optional = false python-versions = ">=3.6" files = [ @@ -5217,14 +5001,13 @@ dev = ["flake8 (<4.0.0)", "flake8-annotations", "flake8-bugbear", "flake8-commas [[package]] name = "urllib3" -version = "1.26.15" +version = "1.26.16" 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.*, !=3.5.*" files = [ - {file = "urllib3-1.26.15-py2.py3-none-any.whl", hash = "sha256:aa751d169e23c7479ce47a0cb0da579e3ede798f994f5816a74e4f4500dcea42"}, - {file = "urllib3-1.26.15.tar.gz", hash = "sha256:8a388717b9476f934a21484e8c8e61875ab60644d29b9b39e11e4b9dc1c6b305"}, + {file = "urllib3-1.26.16-py2.py3-none-any.whl", hash = "sha256:8d36afa7616d8ab714608411b4a3b13e58f463aee519024578e062e141dce20f"}, + {file = "urllib3-1.26.16.tar.gz", hash = "sha256:8f135f6502756bde6b2a9b28989df5fbe87c9970cecaa69041edcce7f0589b14"}, ] [package.extras] @@ -5234,19 +5017,16 @@ socks = ["PySocks (>=1.5.6,!=1.5.7,<2.0)"] [[package]] name = "validators" -version = "0.18.2" +version = "0.20.0" description = "Python Data Validation for Humans™." -category = "main" optional = false python-versions = ">=3.4" files = [ - {file = "validators-0.18.2-py3-none-any.whl", hash = "sha256:0143dcca8a386498edaf5780cbd5960da1a4c85e0719f3ee5c9b41249c4fefbd"}, - {file = "validators-0.18.2.tar.gz", hash = "sha256:37cd9a9213278538ad09b5b9f9134266e7c226ab1fede1d500e29e0a8fbb9ea6"}, + {file = "validators-0.20.0.tar.gz", hash = "sha256:24148ce4e64100a2d5e267233e23e7afeb55316b47d30faae7eb6e7292bc226a"}, ] [package.dependencies] decorator = ">=3.4.0" -six = ">=1.4.0" [package.extras] test = ["flake8 (>=2.4.0)", "isort (>=4.2.2)", "pytest (>=2.2.3)"] @@ -5255,7 +5035,6 @@ test = ["flake8 (>=2.4.0)", "isort (>=4.2.2)", "pytest (>=2.2.3)"] name = "virtualenv" version = "20.23.0" description = "Virtual Python Environment builder" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5276,7 +5055,6 @@ test = ["covdefaults (>=2.3)", "coverage (>=7.2.3)", "coverage-enable-subprocess name = "wcwidth" version = "0.2.6" description = "Measures the displayed width of unicode strings in a terminal" -category = "dev" optional = false python-versions = "*" files = [ @@ -5288,7 +5066,6 @@ files = [ name = "webcolors" version = "1.13" description = "A library for working with the color formats defined by HTML and CSS." -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5304,7 +5081,6 @@ tests = ["pytest", "pytest-cov"] name = "webencodings" version = "0.5.1" description = "Character encoding aliases for legacy web content" -category = "dev" optional = false python-versions = "*" files = [ @@ -5314,14 +5090,13 @@ files = [ [[package]] name = "websocket-client" -version = "1.5.1" +version = "1.5.2" description = "WebSocket client for Python with low level API options" -category = "dev" optional = false python-versions = ">=3.7" files = [ - {file = "websocket-client-1.5.1.tar.gz", hash = "sha256:3f09e6d8230892547132177f575a4e3e73cfdf06526e20cc02aa1c3b47184d40"}, - {file = "websocket_client-1.5.1-py3-none-any.whl", hash = "sha256:cdf5877568b7e83aa7cf2244ab56a3213de587bbe0ce9d8b9600fc77b455d89e"}, + {file = "websocket-client-1.5.2.tar.gz", hash = "sha256:c7d67c13b928645f259d9b847ab5b57fd2d127213ca41ebd880de1f553b7c23b"}, + {file = "websocket_client-1.5.2-py3-none-any.whl", hash = "sha256:f8c64e28cd700e7ba1f04350d66422b6833b82a796b525a51e740b8cc8dab4b1"}, ] [package.extras] @@ -5333,7 +5108,6 @@ test = ["websockets"] name = "widgetsnbextension" version = "4.0.7" description = "Jupyter interactive widgets for Jupyter Notebook" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5345,7 +5119,6 @@ files = [ name = "wrapt" version = "1.15.0" description = "Module for decorators, wrappers and monkey patching." -category = "main" optional = true python-versions = "!=3.0.*,!=3.1.*,!=3.2.*,!=3.3.*,!=3.4.*,>=2.7" files = [ @@ -5430,7 +5203,6 @@ files = [ name = "xdoctest" version = "1.1.1" description = "A rewrite of the builtin doctest module" -category = "dev" optional = false python-versions = ">=3.6" files = [ @@ -5460,7 +5232,6 @@ tests-strict = ["codecov (==2.0.15)", "pytest (==4.6.0)", "pytest (==4.6.0)", "p name = "y-py" version = "0.5.9" description = "Python bindings for the Y-CRDT built from yrs (Rust)" -category = "dev" optional = false python-versions = "*" files = [ @@ -5536,7 +5307,6 @@ files = [ name = "yarl" version = "1.9.2" description = "Yet another URL library" -category = "main" optional = false python-versions = ">=3.7" files = [ @@ -5624,7 +5394,6 @@ multidict = ">=4.0" name = "ypy-websocket" version = "0.8.2" description = "WebSocket connector for Ypy" -category = "dev" optional = false python-versions = ">=3.7" files = [ @@ -5644,7 +5413,6 @@ test = ["mypy", "pre-commit", "pytest", "pytest-asyncio", "websockets (>=10.0)"] name = "zarr" version = "2.14.2" description = "An implementation of chunked, compressed, N-dimensional arrays for Python" -category = "main" optional = false python-versions = ">=3.8" files = [ @@ -5665,7 +5433,6 @@ jupyter = ["ipytree (>=0.2.2)", "ipywidgets (>=8.0.0)", "notebook"] name = "zfpy" version = "0.5.5" description = "zfp compression in Python" -category = "main" optional = true python-versions = "*" files = [ @@ -5706,7 +5473,6 @@ files = [ name = "zict" version = "3.0.0" description = "Mutable mapping tools" -category = "main" optional = false python-versions = ">=3.8" files = [ @@ -5718,7 +5484,6 @@ files = [ name = "zipp" version = "3.15.0" description = "Backport of pathlib-compatible object wrapper for zip files" -category = "main" optional = false python-versions = ">=3.7" files = [ @@ -5738,4 +5503,4 @@ lossy = ["zfpy"] [metadata] lock-version = "2.0" python-versions = ">=3.8,<3.12" -content-hash = "b7e52b1a3b482557884818ba4260794e6455e28c57f4430b0cc2fdf2bd139399" +content-hash = "64951972280800f8661df7988127285324843b2b49033b9986a8599a3f6e1c41" diff --git a/src/mdio/commands/segy.py b/src/mdio/commands/segy.py index f97d7268..b187e007 100644 --- a/src/mdio/commands/segy.py +++ b/src/mdio/commands/segy.py @@ -147,6 +147,13 @@ type=click.BOOL, show_default=True, ) +@click.option( + "-grid-overrides", + "--grid-overrides", + required=False, + help="Option to add grid overrides.", + type=click_params.JSON, +) def segy_import( input_segy_path, output_mdio_file, @@ -159,6 +166,7 @@ def segy_import( compression_tolerance, storage_options, overwrite, + grid_overrides, ): """Ingest SEG-Y file to MDIO. @@ -261,6 +269,46 @@ def segy_import( --header-names shot,cable,chan --header-lengths 4,2,4 --chunk-size 8,2,256,512 + + We can override the dataset grid by the `grid_overrides` parameter. + This allows us to ingest files that don't conform to the true + geometry of the seismic acquisition. + + For example if we are ingesting 3D seismic shots that don't have + a cable number and channel numbers are sequential (i.e. each cable + doesn't start with channel number 1; we can tell MDIO to ingest + this with the correct geometry by calculating cable numbers and + wrapped channel numbers. Note the missing byte location and word + length for the "cable" index. + + + Usage: + 3D Seismic Shot Data (Byte Locations Vary): + Let's assume streamer number does not exist but there are + 800 channels per cable. + Chunks: 8 shots x 2 cables x 256 channels x 512 samples + --header-locations 9,None,13 + --header-names shot,cable,chan + --header-lengths 4,None,4 + --chunk-size 8,2,256,512 + --grid-overrides '{"ChannelWrap": True, "ChannelsPerCable": 800, + "CalculateCable": True}' + + \b + If we do have cable numbers in the headers, but channels are still + sequential (aka. unwrapped), we can still ingest it like this. + --header-locations 9,213,13 + --header-names shot,cable,chan + --header-lengths 4,2,4 + --chunk-size 8,2,256,512 + --grid-overrides '{"ChannelWrap":True, "ChannelsPerCable": 800}' + \b + For shot gathers with channel numbers and wrapped channels, no + grid overrides are necessary. + + In cases where the user does not know if the input has unwrapped + channels but desires to store with wrapped channel index use: + --grid-overrides '{"AutoChannelWrap": True}' """ mdio.segy_to_mdio( segy_path=input_segy_path, @@ -274,6 +322,7 @@ def segy_import( compression_tolerance=compression_tolerance, storage_options=storage_options, overwrite=overwrite, + grid_overrides=grid_overrides, ) diff --git a/src/mdio/converters/segy.py b/src/mdio/converters/segy.py index effcd4d0..aae6a4fb 100644 --- a/src/mdio/converters/segy.py +++ b/src/mdio/converters/segy.py @@ -206,6 +206,11 @@ def segy_to_mdio( For shot gathers with channel numbers and wrapped channels, no grid overrides are necessary. + + In cases where the user does not know if the input has unwrapped + channels but desires to store with wrapped channel index use: + >>> grid_overrides={"AutoChannelWrap": True, + "AutoChannelTraceQC": 1000000} """ num_index = len(index_bytes) diff --git a/src/mdio/segy/_workers.py b/src/mdio/segy/_workers.py index 754eb4c9..f69b6715 100644 --- a/src/mdio/segy/_workers.py +++ b/src/mdio/segy/_workers.py @@ -45,7 +45,9 @@ def header_scan_worker( segy_endian: Endianness of the input SEG-Y. Rev.2 allows little endian Returns: - Numpy array of parsed headers for the current block. + dictionary with headers: keys are the index names, values are numpy + arrays of parsed headers for the current block. Array is of type + byte_type with the exception of IBM32 which is mapped to FLOAT32. Raises: TypeError: if segy_path_or_handle is incorrect / unsupported. @@ -59,7 +61,6 @@ def header_scan_worker( ignore_geometry=True, endian=segy_endian, ) as segy_handle: - block_headers = [ segy_handle.header[trc_idx] for trc_idx in range(start, stop) ] @@ -109,7 +110,8 @@ def header_scan_worker( out_dtype.append((name, native_dtype)) - out_array = np.empty(n_traces, out_dtype) + # out_array = np.empty(n_traces, out_dtype) + out_array = {} # TODO: Add strict=True and remove noqa when minimum Python is 3.10 for name, loc, type_ in zip(index_names, byte_locs, byte_types): # noqa: B905 diff --git a/src/mdio/segy/exceptions.py b/src/mdio/segy/exceptions.py index cf3a0a8e..21be01c3 100644 --- a/src/mdio/segy/exceptions.py +++ b/src/mdio/segy/exceptions.py @@ -7,4 +7,49 @@ class InvalidSEGYFileError(MDIOError): """Raised when there is an IOError from segyio.""" - pass + +class GridOverrideInputError(MDIOError): + """Raised when grid override parameters are not correct.""" + + +class GridOverrideUnknownError(GridOverrideInputError): + """Raised when grid override parameter is unknown.""" + + def __init__(self, command_name): + """Initialize with custom message.""" + self.command_name = command_name + self.message = f"Unknown grid override: {command_name}" + super().__init__(self.message) + + +class GridOverrideKeysError(GridOverrideInputError): + """Raised when grid override is not compatible with required keys.""" + + def __init__(self, command_name, required_keys): + """Initialize with custom message.""" + self.command_name = command_name + self.required_keys = required_keys + self.message = f"{command_name} can only be used with {required_keys} keys." + super().__init__(self.message) + + +class GridOverrideMissingParameterError(GridOverrideInputError): + """Raised when grid override parameters are not correct.""" + + def __init__(self, command_name, missing_parameter): + """Initialize with custom message.""" + self.command_name = command_name + self.missing_parameter = missing_parameter + self.message = f"{command_name} requires {missing_parameter} parameter." + super().__init__(self.message) + + +class GridOverrideIncompatibleError(GridOverrideInputError): + """Raised when two grid overrides are incompatible.""" + + def __init__(self, first_command, second_command): + """Initialize with custom message.""" + self.first_command = first_command + self.second_command = second_command + self.message = f"{first_command} can't be used together with {second_command}." + super().__init__(self.message) diff --git a/src/mdio/segy/geometry.py b/src/mdio/segy/geometry.py new file mode 100644 index 00000000..cb1f3fa6 --- /dev/null +++ b/src/mdio/segy/geometry.py @@ -0,0 +1,310 @@ +"""SEG-Y geometry handling functions.""" + + +from __future__ import annotations + +import logging +from abc import ABC +from abc import abstractmethod +from enum import Enum +from enum import auto + +import numpy as np +import numpy.typing as npt + +from mdio.segy.exceptions import GridOverrideIncompatibleError +from mdio.segy.exceptions import GridOverrideKeysError +from mdio.segy.exceptions import GridOverrideMissingParameterError +from mdio.segy.exceptions import GridOverrideUnknownError + + +logger = logging.getLogger(__name__) + + +class StreamerShotGeometryType(Enum): + r"""Shot geometry template types for streamer acquisition. + + Configuration A: + Cable 1 -> 1------------------20 + Cable 2 -> 1-----------------20 + . 1-----------------20 + . ⛴ ☆ 1-----------------20 + . 1-----------------20 + Cable 6 -> 1-----------------20 + Cable 7 -> 1-----------------20 + + + Configuration B: + Cable 1 -> 1------------------20 + Cable 2 -> 21-----------------40 + . 41-----------------60 + . ⛴ ☆ 61-----------------80 + . 81----------------100 + Cable 6 -> 101---------------120 + Cable 7 -> 121---------------140 + + Configuration C: + Cable ? -> / 1------------------20 + Cable ? -> / 21-----------------40 + . / 41-----------------60 + . ⛴ ☆ - 61-----------------80 + . \ 81----------------100 + Cable ? -> \ 101---------------120 + Cable ? -> \ 121---------------140 + """ + + A = auto() + B = auto() + C = auto() + + +def analyze_streamer_headers( + index_headers: npt.NDArray, +) -> tuple[npt.NDArray, npt.NDArray, npt.NDArray, StreamerShotGeometryType]: + """Check input headers for SEG-Y input to help determine geometry. + + This function reads in trace_qc_count headers and finds the unique cable values. + The function then checks to make sure channel numbers for different cables do + not overlap. + + Args: + index_headers: numpy array with index headers + + Returns: + tuple of unique_cables, cable_chan_min, cable_chan_max, geom_type + """ + # Find unique cable ids + unique_cables = np.sort(np.unique(index_headers["cable"])) + + # Find channel min and max values for each cable + cable_chan_min = np.empty(unique_cables.shape) + cable_chan_max = np.empty(unique_cables.shape) + + for idx, cable in enumerate(unique_cables): + cable_mask = index_headers["cable"] == cable + current_cable = index_headers["channel"][cable_mask] + + cable_chan_min[idx] = np.min(current_cable) + cable_chan_max[idx] = np.max(current_cable) + + # Check channel numbers do not overlap for case B + geom_type = StreamerShotGeometryType.B + for idx, cable in enumerate(unique_cables): + min_val = cable_chan_min[idx] + max_val = cable_chan_max[idx] + for idx2, cable2 in enumerate(unique_cables): + if cable2 == cable: + continue + + if cable_chan_min[idx2] < max_val and cable_chan_max[idx2] > min_val: + geom_type = StreamerShotGeometryType.A + + return unique_cables, cable_chan_min, cable_chan_max, geom_type + + +class GridOverrideCommand(ABC): + """Abstract base class for grid override commands.""" + + @property + @abstractmethod + def required_keys(self) -> set: + """Get the set of required keys for the grid override command.""" + + @property + @abstractmethod + def required_parameters(self) -> set: + """Get the set of required parameters for the grid override command.""" + + @abstractmethod + def validate( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> None: + """Validate if this transform should run on the type of data.""" + + @abstractmethod + def transform( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> dict[str, npt.NDArray]: + """Perform the grid transform.""" + + @property + def name(self) -> str: + """Convenience property to get the name of the command.""" + return self.__class__.__name__ + + def check_required_keys(self, index_headers: npt.NDArray) -> None: + """Check if all required keys are present in the index headers.""" + index_names = index_headers.keys() + if not self.required_keys.issubset(index_names): + raise GridOverrideKeysError(self.name, self.required_keys) + + def check_required_params(self, grid_overrides: dict[str, str | int]) -> None: + """Check if all required keys are present in the index headers.""" + if self.required_parameters is None: + return + + passed_parameters = set(grid_overrides.keys()) + + if not self.required_parameters.issubset(passed_parameters): + missing_params = self.required_parameters - passed_parameters + raise GridOverrideMissingParameterError(self.name, missing_params) + + +class AutoChannelWrap(GridOverrideCommand): + """Automatically determine Streamer acquisition type.""" + + required_keys = {"shot", "cable", "channel"} + required_parameters = None + + def validate( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> None: + """Validate if this transform should run on the type of data.""" + if "ChannelWrap" in grid_overrides: + raise GridOverrideIncompatibleError(self.name, "ChannelWrap") + + if "CalculateCable" in grid_overrides: + raise GridOverrideIncompatibleError(self.name, "CalculateCable") + + self.check_required_keys(index_headers) + self.check_required_params(grid_overrides) + + def transform( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> dict[str, npt.NDArray]: + """Perform the grid transform.""" + self.validate(index_headers, grid_overrides) + + result = analyze_streamer_headers(index_headers) + unique_cables, cable_chan_min, cable_chan_max, geom_type = result + logger.info(f"Ingesting dataset as {geom_type.name}") + + # TODO: Add strict=True and remove noqa when min Python is 3.10 + for cable, chan_min, chan_max in zip( # noqa: B905 + unique_cables, cable_chan_min, cable_chan_max + ): + logger.info( + f"Cable: {cable} has min chan: {chan_min} and max chan: {chan_max}" + ) + + # This might be slow and potentially could be improved with a rewrite + # to prevent so many lookups + if geom_type == StreamerShotGeometryType.B: + for idx, cable in enumerate(unique_cables): + cable_idxs = np.where(index_headers["cable"][:] == cable) + cc_min = cable_chan_min[idx] + + index_headers["channel"][cable_idxs] = ( + index_headers["channel"][cable_idxs] - cc_min + 1 + ) + + return index_headers + + +class ChannelWrap(GridOverrideCommand): + """Wrap channels to start from one at cable boundaries.""" + + required_keys = {"shot", "cable", "channel"} + required_parameters = {"ChannelsPerCable"} + + def validate( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> None: + """Validate if this transform should run on the type of data.""" + if "AutoChannelWrap" in grid_overrides: + raise GridOverrideIncompatibleError(self.name, "AutoCableChannel") + + self.check_required_keys(index_headers) + self.check_required_params(grid_overrides) + + def transform( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> dict[str, npt.NDArray]: + """Perform the grid transform.""" + self.validate(index_headers, grid_overrides) + + channels_per_cable = grid_overrides["ChannelsPerCable"] + index_headers["channel"] = ( + index_headers["channel"] - 1 + ) % channels_per_cable + 1 + + return index_headers + + +class CalculateCable(GridOverrideCommand): + """Calculate cable numbers from unwrapped channels.""" + + required_keys = {"shot", "cable", "channel"} + required_parameters = {"ChannelsPerCable"} + + def validate( + self, index_headers: npt.NDArray, grid_overrides: dict[str, bool | int] + ) -> None: + """Validate if this transform should run on the type of data.""" + if "AutoChannelWrap" in grid_overrides: + raise GridOverrideIncompatibleError(self.name, "AutoCableChannel") + + self.check_required_keys(index_headers) + self.check_required_params(grid_overrides) + + def transform( + self, index_headers, grid_overrides: dict[str, bool | int] + ) -> dict[str, npt.NDArray]: + """Perform the grid transform.""" + self.validate(index_headers, grid_overrides) + + channels_per_cable = grid_overrides["ChannelsPerCable"] + index_headers["cable"] = ( + index_headers["channel"] - 1 + ) // channels_per_cable + 1 + + return index_headers + + +class GridOverrider: + """Executor for grid overrides. + + We support a certain type of grid overrides, and they have to be + implemented following the ABC's in this module. + + This class applies the grid overrides if needed. + """ + + def __init__(self): + """Define allowed overrides and parameters here.""" + self.commands = { + "AutoChannelWrap": AutoChannelWrap(), + "CalculateCable": CalculateCable(), + "ChannelWrap": ChannelWrap(), + } + + self.parameters = self.get_allowed_parameters() + + def get_allowed_parameters(self) -> set: + """Get list of allowed parameters from the allowed commands.""" + parameters = set() + for command in self.commands.values(): + if command.required_parameters is None: + continue + + parameters.update(command.required_parameters) + + return parameters + + def run( + self, + index_headers: npt.NDArray, + grid_overrides: dict[str, bool], + ) -> npt.NDArray: + """Run grid overrides and return result.""" + for override in grid_overrides: + if override in self.parameters: + continue + + if override not in self.commands: + raise GridOverrideUnknownError(override) + + function = self.commands[override].transform + index_headers = function(index_headers, grid_overrides=grid_overrides) + + return index_headers diff --git a/src/mdio/segy/parsers.py b/src/mdio/segy/parsers.py index 017e7507..20bbf785 100644 --- a/src/mdio/segy/parsers.py +++ b/src/mdio/segy/parsers.py @@ -94,7 +94,10 @@ def parse_trace_headers( progress_bar: Enable or disable progress bar. Default is True. Returns: - Numpy array of parsed trace headers. + dictionary with headers: keys are the index names, values are numpy + arrays of parsed headers for the current block. Array is of type + byte_type with the exception of IBM32 which is mapped to FLOAT32. + """ trace_count = get_trace_count(segy_path, segy_endian) n_blocks = int(ceil(trace_count / block_size)) @@ -133,9 +136,13 @@ def parse_trace_headers( # This executes the lazy work. headers = list(lazy_work) - + final_headers = {} + for header_name in index_names: + final_headers[header_name] = np.concatenate( + [header[header_name] for header in headers] + ) # Merge blocks before return - return np.concatenate(headers) + return final_headers def parse_sample_axis(binary_header: dict) -> Dimension: diff --git a/src/mdio/segy/utilities.py b/src/mdio/segy/utilities.py index 19135bf4..a922eef5 100644 --- a/src/mdio/segy/utilities.py +++ b/src/mdio/segy/utilities.py @@ -11,11 +11,12 @@ from mdio.core import Dimension from mdio.segy.byte_utils import Dtype +from mdio.segy.geometry import GridOverrider from mdio.segy.parsers import parse_sample_axis from mdio.segy.parsers import parse_trace_headers -def get_grid_plan( +def get_grid_plan( # noqa: C901 segy_path: str, segy_endian: str, index_bytes: Sequence[int], @@ -46,9 +47,6 @@ def get_grid_plan( Returns: All index dimensions or dimensions together with header values. - - Raises: - ValueError: If appropriate grid override parameters are not provided. """ if grid_overrides is None: grid_overrides = {} @@ -68,24 +66,9 @@ def get_grid_plan( dims = [] - if "CalculateCable" in grid_overrides: - if "ChannelsPerCable" in grid_overrides: - channels_per_cable = grid_overrides["ChannelsPerCable"] - index_headers["cable"] = ( - index_headers["channel"] - 1 - ) // channels_per_cable + 1 - else: - raise ValueError("'ChannelsPerCable' must be specified to calculate cable.") - - if "ChannelWrap" in grid_overrides: - if grid_overrides["ChannelWrap"] is True: - if "ChannelsPerCable" in grid_overrides: - channels_per_cable = grid_overrides["ChannelsPerCable"] - index_headers["channel"] = ( - index_headers["channel"] - 1 - ) % channels_per_cable + 1 - else: - raise ValueError("'ChannelsPerCable' must be specified to wrap channels.") + # Handle grid overrides. + override_handler = GridOverrider() + index_headers = override_handler.run(index_headers, grid_overrides) for index_name in index_names: dim_unique = np.unique(index_headers[index_name]) diff --git a/tests/conftest.py b/tests/conftest.py index 733e6fce..9015bd95 100644 --- a/tests/conftest.py +++ b/tests/conftest.py @@ -7,6 +7,13 @@ import pytest +@pytest.fixture(scope="session") +def fake_segy_tmp(tmp_path_factory): + """Make a temp file for the fake SEG-Y files we are going to create.""" + tmp_dir = tmp_path_factory.mktemp(r"fake_segy") + return tmp_dir + + @pytest.fixture(scope="session") def segy_input(tmp_path_factory): """Download teapot dome dataset for testing.""" diff --git a/tests/integration/conftest.py b/tests/integration/conftest.py new file mode 100644 index 00000000..735bd3a7 --- /dev/null +++ b/tests/integration/conftest.py @@ -0,0 +1,102 @@ +"""Test configuration before everything runs.""" + + +from __future__ import annotations + +import os + +import numpy as np +import pytest +import segyio + + +def create_segy_mock_4d( + fake_segy_tmp: str, + num_samples: int, + shots: list, + cables: list, + receivers_per_cable: list, + chan_header_type: str = "a", +) -> str: + """Dummy 4D SEG-Y file for use in tests.""" + spec = segyio.spec() + segy_file = os.path.join(fake_segy_tmp, f"4d_type_{chan_header_type}.sgy") + + shot_count = len(shots) + total_chan = np.sum(receivers_per_cable) + trace_count = shot_count * total_chan + + spec.format = 1 + spec.samples = range(num_samples) + spec.tracecount = trace_count + spec.endian = "big" + + # Calculate shot, cable, channel/receiver numbers and header values + cable_headers = [] + channel_headers = [] + + # TODO: Add strict=True and remove noqa when minimum Python is 3.10 + for cable, num_rec in zip(cables, receivers_per_cable): # noqa: B905 + cable_headers.append(np.repeat(cable, num_rec)) + + channel_headers.append(np.arange(num_rec) + 1) + + cable_headers = np.hstack(cable_headers) + channel_headers = np.hstack(channel_headers) + + if chan_header_type == "b": + channel_headers = np.arange(total_chan) + 1 + + shot_headers = np.hstack([np.repeat(shot, total_chan) for shot in shots]) + cable_headers = np.tile(cable_headers, shot_count) + channel_headers = np.tile(channel_headers, shot_count) + + with segyio.create(segy_file, spec) as f: + for trc_idx in range(trace_count): + shot = shot_headers[trc_idx] + cable = cable_headers[trc_idx] + channel = channel_headers[trc_idx] + + # offset is byte location 37 - offset 4 bytes + # fldr is byte location 9 - shot 4 byte + # ep is byte location 17 - shot 4 byte + # stae is byte location 137 - cable 2 byte + # tracf is byte location 13 - channel 4 byte + + f.header[trc_idx].update( + offset=0, + fldr=shot, + ep=shot, + stae=cable, + tracf=channel, + ) + + samples = np.linspace(start=shot, stop=shot + 1, num=num_samples) + f.trace[trc_idx] = samples.astype("float32") + + f.bin.update() + + return segy_file + + +@pytest.fixture(scope="module") +def segy_mock_4d_shots(fake_segy_tmp: str) -> dict[str, str]: + """Generate mock 4D shot SEG-Y files.""" + num_samples = 25 + shots = [2, 3, 5] + cables = [0, 101, 201, 301] + receivers_per_cable = [1, 5, 7, 5] + + segy_paths = {} + + for type_ in ["a", "b"]: + segy_paths[type_] = create_segy_mock_4d( + fake_segy_tmp, + num_samples=num_samples, + shots=shots, + cables=cables, + receivers_per_cable=receivers_per_cable, + chan_header_type=type_, + ) + + return segy_paths diff --git a/tests/integration/test_segy_import_export.py b/tests/integration/test_segy_import_export.py index 7c423bc9..e2e60853 100644 --- a/tests/integration/test_segy_import_export.py +++ b/tests/integration/test_segy_import_export.py @@ -1,6 +1,5 @@ """End to end testing for SEG-Y to MDIO conversion and back.""" - from os.path import getsize import dask @@ -18,6 +17,70 @@ dask.config.set(scheduler="synchronous") +@pytest.mark.parametrize("header_locations", [(17, 137, 13)]) +@pytest.mark.parametrize("header_names", [("shot", "cable", "channel")]) +@pytest.mark.parametrize("header_types", [("int32", "int16", "int32")]) +@pytest.mark.parametrize("endian", ["big"]) +@pytest.mark.parametrize("grid_overrides", [{"AutoChannelWrap": True}, None]) +@pytest.mark.parametrize("chan_header_type", ["a", "b"]) +class TestImport4D: + """Test for 4D segy import with grid overrides.""" + + def test_import_4d_segy( + self, + segy_mock_4d_shots, + zarr_tmp, + header_locations, + header_names, + header_types, + endian, + grid_overrides, + chan_header_type, + ): + """Test importing a SEG-Y file to MDIO.""" + segy_path = segy_mock_4d_shots[chan_header_type] + + segy_to_mdio( + segy_path=segy_path, + mdio_path_or_buffer=zarr_tmp.__str__(), + index_bytes=header_locations, + index_names=header_names, + index_types=header_types, + chunksize=(8, 2, 128, 1024), + overwrite=True, + endian=endian, + grid_overrides=grid_overrides, + ) + + # Expected values + num_samples = 25 + shots = [2, 3, 5] + cables = [0, 101, 201, 301] + receivers_per_cable = [1, 5, 7, 5] + + # QC mdio output + mdio = MDIOReader(zarr_tmp.__str__(), access_pattern="0123") + assert mdio.binary_header["Samples"] == num_samples + grid = mdio.grid + + assert grid.select_dim(header_names[0]) == Dimension(shots, header_names[0]) + assert grid.select_dim(header_names[1]) == Dimension(cables, header_names[1]) + + if "b" in chan_header_type and grid_overrides is None: + print() + print(grid.select_dim(header_names[2])) + assert grid.select_dim(header_names[2]) == Dimension( + range(1, np.sum(receivers_per_cable) + 1), header_names[2] + ) + else: + assert grid.select_dim(header_names[2]) == Dimension( + range(1, np.amax(receivers_per_cable) + 1), header_names[2] + ) + + samples_exp = Dimension(range(0, num_samples, 1), "sample") + assert grid.select_dim("sample") == samples_exp + + @pytest.mark.parametrize("header_locations", [(17, 13)]) @pytest.mark.parametrize("header_names", [("inline", "crossline")]) @pytest.mark.parametrize("endian", ["big"]) diff --git a/tests/unit/test_segy_grid_overrides.py b/tests/unit/test_segy_grid_overrides.py new file mode 100644 index 00000000..c86aae2d --- /dev/null +++ b/tests/unit/test_segy_grid_overrides.py @@ -0,0 +1,137 @@ +"""Check grid overrides.""" + + +from __future__ import annotations + +import numpy.typing as npt +import pytest +from numpy import arange +from numpy import column_stack +from numpy import meshgrid +from numpy import unique +from numpy.testing import assert_array_equal + +from mdio.core import Dimension +from mdio.segy.exceptions import GridOverrideIncompatibleError +from mdio.segy.exceptions import GridOverrideMissingParameterError +from mdio.segy.exceptions import GridOverrideUnknownError +from mdio.segy.geometry import GridOverrider + + +SHOTS = arange(100, 104, dtype="int32") +CABLES = arange(11, 15, dtype="int32") +RECEIVERS = arange(1, 6, dtype="int32") + + +@pytest.fixture +def mock_streamer_headers() -> dict[str, npt.NDArray]: + """Generate dictionary of mocked streamer index headers.""" + grids = meshgrid(SHOTS, CABLES, RECEIVERS, indexing="ij") + permutations = column_stack([grid.ravel() for grid in grids]) + + # Make channel from receiver ids + for shot in SHOTS: + shot_mask = permutations[:, 0] == shot + permutations[shot_mask, -1] = arange(1, len(CABLES) * len(RECEIVERS) + 1) + + result = dict( + shot=permutations[:, 0], + cable=permutations[:, 1], + channel=permutations[:, 2], + ) + + return result + + +class TestStreamerGridOverrides: + """Check grid overrides for shot data with streamer acquisition.""" + + def test_channel_wrap(self, mock_streamer_headers: npt.NDArray) -> None: + """Test the ChannelWrap command.""" + grid_overrides = {"ChannelWrap": True, "ChannelsPerCable": len(RECEIVERS)} + + overrider = GridOverrider() + results = overrider.run(mock_streamer_headers, grid_overrides) + + dims = [] + for index_name, index_coords in results.items(): + dim_unique = unique(index_coords) + dims.append(Dimension(coords=dim_unique, name=index_name)) + + assert_array_equal(dims[0], SHOTS) + assert_array_equal(dims[1], CABLES) + assert_array_equal(dims[2], RECEIVERS) + + def test_calculate_cable(self, mock_streamer_headers: npt.NDArray) -> None: + """Test the CalculateCable command.""" + grid_overrides = { + "CalculateCable": True, + "ChannelsPerCable": len(RECEIVERS), + } + + overrider = GridOverrider() + results = overrider.run(mock_streamer_headers, grid_overrides) + + dims = [] + for index_name, index_coords in results.items(): + dim_unique = unique(index_coords) + dims.append(Dimension(coords=dim_unique, name=index_name)) + + # We need channels because unwrap isn't done here + channels = unique(mock_streamer_headers["channel"]) + + # We reset the cables to start from 1. + cables = arange(1, len(CABLES) + 1, dtype="uint32") + + assert_array_equal(dims[0], SHOTS) + assert_array_equal(dims[1], cables) + assert_array_equal(dims[2], channels) + + def test_wrap_and_calc_cable(self, mock_streamer_headers: npt.NDArray) -> None: + """Test the combined ChannelWrap and CalculateCable commands.""" + grid_overrides = { + "CalculateCable": True, + "ChannelWrap": True, + "ChannelsPerCable": len(RECEIVERS), + } + + overrider = GridOverrider() + results = overrider.run(mock_streamer_headers, grid_overrides) + + dims = [] + for index_name, index_coords in results.items(): + dim_unique = unique(index_coords) + dims.append(Dimension(coords=dim_unique, name=index_name)) + + # We reset the cables to start from 1. + cables = arange(1, len(CABLES) + 1, dtype="uint32") + + assert_array_equal(dims[0], SHOTS) + assert_array_equal(dims[1], cables) + assert_array_equal(dims[2], RECEIVERS) + + def test_missing_param(self, mock_streamer_headers: npt.NDArray) -> None: + """Test missing parameters for the commands.""" + overrider = GridOverrider() + with pytest.raises(GridOverrideMissingParameterError): + overrider.run(mock_streamer_headers, {"ChannelWrap": True}) + + with pytest.raises(GridOverrideMissingParameterError): + overrider.run(mock_streamer_headers, {"CalculateCable": True}) + + def test_incompatible_overrides(self, mock_streamer_headers: npt.NDArray) -> None: + """Test commands that can't be run together.""" + overrider = GridOverrider() + with pytest.raises(GridOverrideIncompatibleError): + grid_overrides = {"ChannelWrap": True, "AutoChannelWrap": True} + overrider.run(mock_streamer_headers, grid_overrides) + + with pytest.raises(GridOverrideIncompatibleError): + grid_overrides = {"CalculateCable": True, "AutoChannelWrap": True} + overrider.run(mock_streamer_headers, grid_overrides) + + def test_unknown_override(self, mock_streamer_headers: npt.NDArray) -> None: + """Test exception if user provides a command that's not allowed.""" + overrider = GridOverrider() + with pytest.raises(GridOverrideUnknownError): + overrider.run(mock_streamer_headers, {"WrongCommand": True})