diff --git a/README.md b/README.md index 4ba94c2..8842781 100644 --- a/README.md +++ b/README.md @@ -1,22 +1,67 @@ -[![Test](https://github.com/csdms/standard_names/actions/workflows/test.yml/badge.svg)](https://github.com/csdms/standard_names/actions/workflows/test.yml) -[![Documentation Status](https://readthedocs.org/projects/standard-names/badge/?version=latest)](http://standard-names.readthedocs.io/en/latest/?badge=latest) -[![Coverage Status](https://coveralls.io/repos/github/csdms/standard_names/badge.svg?branch=master)](https://coveralls.io/github/csdms/standard_names?branch=master) -[![Conda Version](https://img.shields.io/conda/vn/conda-forge/standard_names.svg)](https://anaconda.org/conda-forge/standard_names) -[![PyPI](https://img.shields.io/pypi/v/standard_names)](https://pypi.org/project/standard_names) +![[Python][pypi-link]][python-badge] +![[Build Status][build-link]][build-badge] +![[PyPI][pypi-link]][pypi-badge] +![[Build Status][anaconda-link]][anaconda-badge] -standard_names -============== +[anaconda-badge]: https://anaconda.org/conda-forge/standard_names/badges/version.svg +[anaconda-link]: https://anaconda.org/conda-forge/standard_names +[build-badge]: https://github.com/csdms/standard_names/actions/workflows/test.yml/badge.svg +[build-link]: https://github.com/csdms/standard_names/actions/workflows/test.yml +[csdms-workbench]: https://csdms.colorado.edu/wiki/Workbench +[pypi-badge]: https://badge.fury.io/py/standard_names.svg +[pypi-link]: https://pypi.org/project/standard_names/ +[python-badge]: https://img.shields.io/pypi/pyversions/standard_names.svg + +# standard_names Python utilities for working with CSDMS Standard Names. -CSDMS Standard Names is an element of the [CSDMS Workbench](https://csdms.colorado.edu/wiki/Workbench), +CSDMS Standard Names is an element of the [CSDMS Workbench][csdms-workbench], an integrated system of software tools, technologies, and standards for building and coupling models. +## As Regular Expression + +``` +^ # Start of the object name +[a-z]+ # Starts with one or more lowercase letters +(?: # Start of a non-capturing group for subsequent parts + [-~_]? # Optional separator: hyphen, tilde, or underscore + [a-zA-Z0-9]+ # One or more alphanumeric characters +)* # Zero or more repetitions of the group +__ # Double underscore separator +[a-z]+ # Start of the quantity +(?: # Start of a non-capturing group for subsequent parts + [-~_]? # Optional separator: hyphen, tilde, or underscore + [a-zA-Z0-9]+ # One or more alphanumeric characters +)* # Zero or more repetitions of the group +$ # End of the name +``` + +## As Parsing Expression Grammar + +```peg +Start + = LowercaseWord UnderscoreSeparator LowercaseWord + +LowercaseWord + = [a-z] AdditionalCharacters* + +AdditionalCharacters + = Separator? Alphanumeric+ + +Separator + = "-" / "~" / "_" + +Alphanumeric + = [a-zA-Z0-9] + +UnderscoreSeparator + = "__" +``` -Links ------ +# Links * [Source code](http://github.com/csdms/standard_names): The *standard_names* source code repository. diff --git a/noxfile.py b/noxfile.py index 6cdd230..2aa98e8 100644 --- a/noxfile.py +++ b/noxfile.py @@ -14,7 +14,7 @@ @nox.session(python=PYTHON_VERSION, venv_backend="conda") def test(session: nox.Session) -> None: """Run the tests.""" - session.install(".[testing]") + session.install(".[peg,testing]") args = ["--cov", PROJECT, "-vvv"] + session.posargs diff --git a/pyproject.toml b/pyproject.toml index cf6498a..70cb3ab 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -38,7 +38,6 @@ dynamic = [ ] dependencies = [ "packaging", - "pyyaml", ] [project.license] @@ -51,6 +50,9 @@ Issues = "https://github.com/csdms/standard_names/issues" Repository = "https://github.com/csdms/standard_names" [project.optional-dependencies] +peg = [ + "pyparsing", +] dev = [ "nox", ] @@ -64,11 +66,7 @@ docs = [ ] [project.scripts] -snbuild = "standard_names.cmd.snbuild:run" -sndump = "standard_names.cmd.sndump:run" -snscrape = "standard_names.cmd.snscrape:run" -snsql = "standard_names.cmd.snsql:run" -snvalidate = "standard_names.cmd.snvalidate:run" +"standard-names" = "standard_names.cmd.main:main" [build-system] requires = [ diff --git a/src/standard_names/__main__.py b/src/standard_names/__main__.py new file mode 100644 index 0000000..e4fceaa --- /dev/null +++ b/src/standard_names/__main__.py @@ -0,0 +1,6 @@ +from __future__ import annotations + +from standard_names.cli.main import main + +if __name__ == "__main__": + raise SystemExit(main()) diff --git a/src/standard_names/_format.py b/src/standard_names/_format.py new file mode 100644 index 0000000..e92fba6 --- /dev/null +++ b/src/standard_names/_format.py @@ -0,0 +1,117 @@ +from collections.abc import Iterable + + +def as_wiki_list( + items: Iterable[str], heading: str | None = None, level: int = 1 +) -> str: + """ + Examples + -------- + >>> from standard_names._format import as_wiki_list + + >>> print(as_wiki_list(["line 1", "line 2"], heading="Lines")) + = Lines = + + line 1
+ line 2
+ + """ + newline = "\n" + + if heading is not None: + formatted_lines = [f"{'=' * level} {heading} {'=' * level}"] + else: + formatted_lines = [] + + formatted_lines += [""] + [item.strip() + "
" for item in items] + [""] + + return newline.join(formatted_lines) + + +def as_yaml_list( + items: Iterable[str], heading: str | None = None, level: int = 1 +) -> str: + """ + + Examples + -------- + >>> from standard_names._format import as_yaml_list + + >>> print(as_yaml_list(["line 1", "line 2"], heading="Lines")) + Lines: + - line 1 + - line 2 + """ + newline = "\n" + indent = 2 if heading else 0 + formatted_lines = [f"{heading}:"] if heading else [] + + if heading is None: + formatted_lines = [] + indent = 0 + else: + formatted_lines = [f"{heading}:"] + indent = 2 + + stripped_items = [stripped for item in items if (stripped := item.strip())] + + if stripped_items: + formatted_lines += [f"{' ' * indent}- {item}" for item in stripped_items] + else: + formatted_lines += [f"{' ' * indent}[]"] + + return newline.join(formatted_lines) + + +def as_myst_list( + items: Iterable[str], heading: str | None = None, level: int = 1 +) -> str: + """ + + Examples + -------- + >>> from standard_names._format import as_myst_list + + >>> print(as_myst_list(["line 1", "line 2"], heading="Lines")) + # Lines + * line 1 + * line 2 + """ + newline = "\n" + + formatted_lines = ([f"# {heading}"] if heading else []) + [ + f"* {stripped}" for item in items if (stripped := item.strip()) + ] + + return newline.join(formatted_lines) + + +def as_text_list( + items: Iterable[str], heading: str | None = None, level: int = 1 +) -> str: + """ + + Examples + -------- + >>> from standard_names._format import as_text_list + + >>> print(as_text_list(["line 1", "line 2"], heading="# Lines")) + # Lines + line 1 + line 2 + """ + newline = "\n" + + formatted_lines = ([heading] if heading else []) + [ + stripped for item in items if (stripped := item.strip()) + ] + + return newline.join(formatted_lines) + + +FORMATTERS = { + "wiki": as_wiki_list, + "yaml": as_yaml_list, + "text": as_text_list, + "myst": as_myst_list, +} diff --git a/src/standard_names/cmd/__init__.py b/src/standard_names/cli/__init__.py similarity index 100% rename from src/standard_names/cmd/__init__.py rename to src/standard_names/cli/__init__.py diff --git a/src/standard_names/cli/_scrape.py b/src/standard_names/cli/_scrape.py new file mode 100644 index 0000000..deade5b --- /dev/null +++ b/src/standard_names/cli/_scrape.py @@ -0,0 +1,82 @@ +#! /usr/bin/env python +""" +Example usage: + +```bash +snscrape http://csdms.colorado.edu/wiki/CSN_Quantity_Templates \ + http://csdms.colorado.edu/wiki/CSN_Object_Templates \ + http://csdms.colorado.edu/wiki/CSN_Operation_Templates \ + > data/scraped.yaml +``` +""" +from __future__ import annotations + +from collections.abc import Iterable +from urllib.request import urlopen + +from standard_names.registry import NamesRegistry + + +def scrape_names(files: Iterable[str]) -> NamesRegistry: + """Scrape standard names from a file or URL. + + Parameters + ---------- + files : iterable of str + Files to search for names. + + Returns + ------- + NamesRegistry + A registry of the names found in the files. + """ + registry = NamesRegistry([]) + for file in files: + registry |= NamesRegistry(search_file_for_names(file)) + return registry + + +def find_all_names(lines: Iterable[str], engine: str = "regex") -> set[str]: + """Find standard names. + + Examples + -------- + >>> from standard_names.cli._scrape import find_all_names + + >>> contents = ''' + ... A file with text and names (air__temperature) mixed in. Some names + ... have double underscores (like, Water__Temperature) by are not + ... valid names. Others, like water__temperature, or "wind__speed" are good. + ... ''' + >>> sorted(find_all_names(contents.splitlines(), engine="regex")) + ['air__temperature', 'water__temperature', 'wind__speed'] + + >>> sorted(find_all_names(contents.splitlines(), engine="peg")) + ['air__temperature', 'water__temperature', 'wind__speed'] + """ + if engine == "regex": + from standard_names.regex import findall + elif engine == "peg": + from standard_names.peg import findall + else: + raise ValueError( + "engine not understood: {engine!r} is not one of 'regex', 'peg'" + ) + + names = set() + for line in lines: + names |= set(findall(line.strip())) + + return names + + +def search_file_for_names(path: str) -> set[str]: + names = set() + if path.startswith(("http://", "https://")): + with urlopen(path) as response: + names = find_all_names(line.decode("utf-8") for line in response) + else: + with open(path) as fp: + names = find_all_names(fp) + + return names diff --git a/src/standard_names/cmd/snsql.py b/src/standard_names/cli/_sql.py similarity index 81% rename from src/standard_names/cmd/snsql.py rename to src/standard_names/cli/_sql.py index 2e1f8ef..1aacf45 100644 --- a/src/standard_names/cmd/snsql.py +++ b/src/standard_names/cli/_sql.py @@ -1,4 +1,4 @@ -#! /usr/bin/env python +from __future__ import annotations import os @@ -46,7 +46,7 @@ def as_sql_commands(names: NamesRegistry, newline: str = os.linesep) -> str: Examples -------- >>> from standard_names.registry import NamesRegistry - >>> from standard_names.cmd.snsql import as_sql_commands + >>> from standard_names.cli._sql import as_sql_commands >>> names = NamesRegistry() >>> names.add("air__temperature") @@ -99,25 +99,3 @@ def as_sql_commands(names: NamesRegistry, newline: str = os.linesep) -> str: commands = newline.join(db.iterdump()) return commands - - -def main() -> str: - """ - Build a database of CSDMS standard names from a list. - """ - import argparse - - parser = argparse.ArgumentParser( - description="Build an sqlite database from a list of names" - ) - parser.add_argument( - "file", nargs="+", type=argparse.FileType("r"), help="List of names" - ) - args = parser.parse_args() - - names = NamesRegistry(args.file) - return as_sql_commands(names) - - -def run() -> None: - print(main()) diff --git a/src/standard_names/cli/_validate.py b/src/standard_names/cli/_validate.py new file mode 100644 index 0000000..af15606 --- /dev/null +++ b/src/standard_names/cli/_validate.py @@ -0,0 +1,43 @@ +#! /usr/bin/env python +"""Validate a list of names.""" +from __future__ import annotations + +from collections.abc import Iterator + +from standard_names.error import BadRegistryError +from standard_names.registry import NamesRegistry + + +def validate_names(names: Iterator[str]) -> set[str]: + """Find invalid names. + + Examples + -------- + >>> import os + >>> import tempfile + >>> from standard_names.registry import _get_latest_names_file + >>> from standard_names.cli._validate import validate_names + + >>> (fname, _) = _get_latest_names_file() + >>> with open(fname) as fp: + ... invalid_names = validate_names(fp) + >>> len(invalid_names) + 0 + + >>> names = [ + ... "air__temperature", + ... "Water__temperature", + ... "water_temperature", + ... ] + >>> invalid_names = validate_names(names) + >>> sorted(invalid_names) + ['Water__temperature', 'water_temperature'] + """ + try: + NamesRegistry(names) + except BadRegistryError as err: + invalid_names = set(err.names) + else: + invalid_names = set() + + return invalid_names diff --git a/src/standard_names/cli/main.py b/src/standard_names/cli/main.py new file mode 100644 index 0000000..239fa58 --- /dev/null +++ b/src/standard_names/cli/main.py @@ -0,0 +1,162 @@ +from __future__ import annotations + +import argparse +import os +import sys + +from standard_names._format import FORMATTERS +from standard_names._version import __version__ +from standard_names.cli._scrape import scrape_names +from standard_names.cli._sql import as_sql_commands +from standard_names.cli._validate import validate_names +from standard_names.registry import NamesRegistry + +VALID_FIELDS = { + "op": "operators", + "q": "quantities", + "o": "objects", + "n": "names", +} + + +class FatalError(RuntimeError): + def __init__(self, msg: str): + self._msg = msg + + def __str__(self) -> str: + return self._msg + + +def main(argv: tuple[str] | None = None) -> int: + parser = argparse.ArgumentParser() + parser.add_argument( + "--version", action="version", version=f"standard-names {__version__}" + ) + subparsers = parser.add_subparsers(dest="command") + + def _add_cmd(name: str, *, help: str) -> argparse.ArgumentParser: + parser = subparsers.add_parser(name, help=help) + parser.add_argument( + "-v", + "--verbose", + action="count", + help="Also emit status messages to stderr", + ) + parser.add_argument( + "--silent", action="store_true", help="Suppress status messages" + ) + return parser + + build_parser = _add_cmd( + "build", help="Scan a model description file for CSDMS standard names" + ) + build_parser.add_argument( + "file", + nargs="*", + type=argparse.FileType("r"), + help="YAML file describing model exchange items", + ) + build_parser.set_defaults(func=build) + + dump_parser = _add_cmd("dump", help="Dump known standard names") + dump_parser.add_argument( + "file", type=argparse.FileType("r"), nargs="*", help="Read names from a file" + ) + dump_parser.add_argument( + "--field", "-f", action="append", help="Fields to print", choices=VALID_FIELDS + ) + dump_parser.add_argument( + "--sort", action=argparse.BooleanOptionalAction, help="Sort/don't sort names" + ) + dump_parser.add_argument( + "--format", choices=FORMATTERS, default="text", help="Output format" + ) + dump_parser.set_defaults(func=dump) + + scrape_parser = _add_cmd("scrape", help="Scrape standard names from a file or URL") + scrape_parser.add_argument( + "file", nargs="*", metavar="FILE", help="URL or file to scrape" + ) + scrape_parser.set_defaults(func=scrape) + + sql_parser = _add_cmd("sql", help="Build an sqlite database from a list of names") + sql_parser.add_argument( + "file", nargs="*", type=argparse.FileType("r"), help="List of names" + ) + sql_parser.set_defaults(func=sql) + + validate_parser = _add_cmd("validate", help="Validate a list of standard names") + validate_parser.add_argument( + "file", + type=argparse.FileType("r"), + nargs="*", + help="Read names from a file", + ) + validate_parser.set_defaults(func=validate) + + args = parser.parse_args(argv) + + try: + return args.func(args) + except FatalError as err: + print(err, file=sys.stderr) + return 1 + + +def build(args: argparse.Namespace) -> int: + registry = NamesRegistry() + for file in args.file: + registry |= NamesRegistry(file) + + print( + registry.dumps( + format_="yaml", + fields=("names", "objects", "quantities", "operators"), + sort=True, + ) + ) + + return 0 + + +def dump(args: argparse.Namespace) -> int: + fields = [VALID_FIELDS[field] for field in args.field] or None + + registry = NamesRegistry([]) + for file in args.file: + registry |= NamesRegistry(file) + print(registry.dumps(format_=args.format, sort=args.sort, fields=fields)) + + return 0 + + +def scrape(args: argparse.Namespace) -> int: + registry = scrape_names(args.file) + print(registry.dumps(format_="text", fields=("names",))) + + return 0 + + +def sql(args: argparse.Namespace) -> int: + registry = NamesRegistry() + for file in args.file: + registry |= NamesRegistry(file) + + print(as_sql_commands(registry)) + + return 0 + + +def validate(args: argparse.Namespace) -> int: + invalid_names = set() + for file in args.file: + invalid_names |= validate_names(file) + + if invalid_names: + print(os.linesep.join(invalid_names)) + + return len(invalid_names) + + +if __name__ == "__main__": + SystemExit(main()) diff --git a/src/standard_names/cmd/snbuild.py b/src/standard_names/cmd/snbuild.py deleted file mode 100644 index 35c02d2..0000000 --- a/src/standard_names/cmd/snbuild.py +++ /dev/null @@ -1,102 +0,0 @@ -#! /usr/bin/env python -""" -Example usage: - snbuild data/models.yaml data/scraped.yaml \ - > standard_names/data/standard_names.yaml -""" - -import os - -from standard_names.registry import NamesRegistry -from standard_names.utilities.io import FORMATTERS - - -def snbuild(file: str, newline: str | None = None) -> str: - """Build a YAML-formatted database of names. - - Parameters - ---------- - file : str - Text file of names. - newline : str, optional - Newline character to use for output. - - Returns - ------- - str - YAML-formatted text of the names database. - - Examples - -------- - >>> import os - >>> from io import StringIO - >>> from standard_names.cmd.snbuild import snbuild - - >>> lines = os.linesep.join(['air__temperature', 'water__temperature']) - >>> names = StringIO(lines) - - >>> print(snbuild(names, newline='\\n')) - %YAML 1.2 - --- - names: - - air__temperature - - water__temperature - --- - objects: - - air - - water - --- - quantities: - - temperature - --- - operators: - [] - ... - """ - newline = newline or os.linesep - if isinstance(file, str) and os.path.isfile(file): - names = NamesRegistry.from_path(file) - else: - names = NamesRegistry(file) - - formatter = FORMATTERS["yaml"] - - lines = [ - "%YAML 1.2", - "---", - formatter(names.names, sorted=True, heading="names", newline=newline), - "---", - formatter(names.objects, sorted=True, heading="objects", newline=newline), - "---", - formatter(names.quantities, sorted=True, heading="quantities", newline=newline), - "---", - formatter(names.operators, sorted=True, heading="operators", newline=newline), - "...", - ] - return newline.join(lines) - - -def main(argv: tuple[str] | None = None) -> str: - """Build a list of CSDMS standard names for YAML description files.""" - import argparse - - parser = argparse.ArgumentParser( - "Scan a model description file for CSDMS standard names" - ) - parser.add_argument( - "file", - nargs="+", - type=argparse.FileType("r"), - help="YAML file describing model exchange items", - ) - - if argv is None: - args = parser.parse_args() - else: - args = parser.parse_args(argv) - - return snbuild(args.file) - - -def run() -> None: - print(main()) diff --git a/src/standard_names/cmd/sndump.py b/src/standard_names/cmd/sndump.py deleted file mode 100644 index 0ef722a..0000000 --- a/src/standard_names/cmd/sndump.py +++ /dev/null @@ -1,180 +0,0 @@ -#! /usr/bin/env python -""" -Example usage: - sndump -n -o -q -op --format=wiki > standard_names.wiki -""" - -import argparse -import os -from collections.abc import Iterable -from collections.abc import Sequence -from typing import Any - -from standard_names.registry import NamesRegistry -from standard_names.utilities.io import FORMATTERS - -_FORMATS = FORMATTERS.keys() - - -def sndump( - file: str | None = None, - format: str = "plain", - sorted: bool = True, - keys: str | Iterable[str] | None = None, - newline: str | None = None, -) -> str: - """Dump a registry to different formats. - - Parameters - ---------- - file : str, optional - Name of a registry file of names. - format : {'plain'}, optional - Output format. - sorted : bool, optional - Sort results. - keys : {'names, 'objects', 'quantities', 'operators'} or iterable - Standard Name element or elements to print. - newline : str, optional - Specify the newline character to use for output. - - Examples - -------- - >>> import os - >>> from io import StringIO - >>> from standard_names.cmd.sndump import sndump - - >>> lines = os.linesep.join(['air__temperature', 'water__temperature']) - >>> names = StringIO(lines) - - >>> print(sndump(names, newline='\\n')) - ... # doctest: +REPORT_NDIFF - air__temperature - water__temperature - """ - newline = newline or os.linesep - if isinstance(keys, str): - keys = (keys,) - keys = keys or ("names",) - - if file is None: - names = NamesRegistry.from_latest() - elif isinstance(file, str) and os.path.isfile(file): - names = NamesRegistry.from_path(file) - else: - names = NamesRegistry(file) - - lines = [] - formatter = FORMATTERS[format] - for key in keys: - list_to_print = getattr(names, key) - lines.append( - formatter( - list_to_print, sorted=sorted, heading=key, level=2, newline=newline - ) - ) - - return newline.join(lines) - - -class CustomAction(argparse.Action): - """Keep track of the order of options are given on the command line.""" - - def __call__( - self, - parser: argparse.ArgumentParser, - namespace: argparse.Namespace, - values: str | Sequence[Any] | None, - option_string: str | None = None, - ) -> None: - if "ordered_args" not in namespace: - namespace.ordered_args = [] - previous = namespace.ordered_args - previous.append(self.dest) - namespace.ordered_args = previous - - -def main(argv: tuple[str] | None = None) -> str: - """Dump a list of known standard names. - - Parameters - ---------- - args : iterable of str, optional - Arguments to pass to *parse_args*. If not provided, use ``sys.argv``. - - Examples - -------- - >>> import os - >>> from standard_names.registry import NamesRegistry - >>> from standard_names.registry import _get_latest_names_file - >>> from standard_names.cmd.sndump import main - - >>> (fname, _) = _get_latest_names_file() - >>> registry = NamesRegistry.from_path(fname) - - >>> names = main(['-n', fname]).split(os.linesep) - >>> len(names) == len(registry) - True - - >>> objects = main(['-o', fname]).split(os.linesep) - >>> len(objects) == len(registry.objects) - True - - >>> names = main(['-n', '-o', fname]).split(os.linesep) - >>> len(names) == len(registry) + len(registry.objects) - True - """ - parser = argparse.ArgumentParser("Dump known standard names") - - parser.add_argument( - "-n", nargs=0, dest="names", help="Print standard names", action=CustomAction - ) - parser.add_argument( - "-o", - nargs=0, - dest="objects", - help="Print standard objects", - action=CustomAction, - ) - parser.add_argument( - "-q", - nargs=0, - dest="quantities", - help="Print standard quantities", - action=CustomAction, - ) - parser.add_argument( - "-op", - nargs=0, - dest="operators", - help="Print standard operators", - action=CustomAction, - ) - - parser.add_argument( - "file", type=argparse.FileType("r"), default=None, help="Read names from a file" - ) - parser.add_argument( - "--unsorted", action="store_true", default=False, help="Do not sort names" - ) - parser.add_argument( - "--format", choices=_FORMATS, default="plain", help="Output format" - ) - - if argv is None: - args = parser.parse_args() - else: - args = parser.parse_args(argv) - - try: - keys = args.ordered_args - except AttributeError: - keys = ["names"] - - return sndump( - file=args.file, format=args.format, sorted=not args.unsorted, keys=keys - ) - - -def run() -> None: - print(main()) diff --git a/src/standard_names/cmd/snscrape.py b/src/standard_names/cmd/snscrape.py deleted file mode 100644 index 2861f1d..0000000 --- a/src/standard_names/cmd/snscrape.py +++ /dev/null @@ -1,141 +0,0 @@ -#! /usr/bin/env python -""" -Example usage: - -```bash -snscrape http://csdms.colorado.edu/wiki/CSN_Quantity_Templates \ - http://csdms.colorado.edu/wiki/CSN_Object_Templates \ - http://csdms.colorado.edu/wiki/CSN_Operation_Templates \ - > data/scraped.yaml -``` -""" - -import os -from collections.abc import Iterable - -from standard_names.utilities.io import FORMATTERS -from standard_names.utilities.io import SCRAPERS -from standard_names.utilities.io import scrape - -_AS_TXT = FORMATTERS["txt"] - -_DEFAULT_SEARCH = r"\b[\w~-]+__[\w~-]+" - - -def snscrape( - files: Iterable[str], - with_headers: bool = False, - regex: str = _DEFAULT_SEARCH, - format: str = "url", - newline: str = os.linesep, -) -> str: - """Scrape names from a URL. - - Parameters - ---------- - files : iterable of str - List of files or URL to scrape. - with_headers : bool, optional - Include headers in the output that indicate the name of the source. - regex : str, optional - A regular expression that defines what a Standard Name is. - format : {'url', 'plain_text'}, optional - The format of the target that's being scraped. - newline : str, optional - Newline character to use for output. - - Returns - ------- - str - The scraped names. - - Examples - -------- - >>> from io import StringIO - >>> from standard_names.cmd.snscrape import snscrape - - >>> file1 = StringIO(\"\"\" - ... A file is one name, which is air__temperature. - ... \"\"\") - >>> file2 = StringIO(\"\"\" - ... A file is two names: air__temperature, and water__temperature. - ... \"\"\") - - >>> lines = snscrape([file1, file2], format='plain_text') - >>> sorted(lines.split(os.linesep)) - ['air__temperature', 'air__temperature', 'water__temperature'] - """ - docs = { - file_name: scrape(file_name, regex=regex, format=format) for file_name in files - } - - documents = [] - for name, name_list in docs.items(): - if with_headers: - heading = "Scraped from %s" % name - else: - heading = None - documents.append(_AS_TXT(name_list, sorted=True, heading=heading)) - - return newline.join(documents) - - -def main(argv: tuple[str] | None = None) -> str: - """Scrape standard names from a file or URL. - - Examples - -------- - >>> import os - >>> import tempfile - >>> import standard_names as csn - - >>> contents = \"\"\" - ... A file with text and names (air__temperature) mixed in. Some names - ... have double underscores (like, Water__Temperature) by are not - ... valid names. Others, like water__temperature, are good. - ... \"\"\" - - >>> (fd, fname) = tempfile.mkstemp() - >>> os.close(fd) - - >>> with open(fname, 'w') as fp: - ... print(contents, file=fp) - - >>> names = csn.cmd.snscrape.main( - ... [fp.name, '--reader=plain_text', '--no-headers']) - >>> names.split(os.linesep) - ['air__temperature', 'water__temperature'] - - >>> os.remove(fname) - """ - import argparse - - parser = argparse.ArgumentParser("Scrape standard names from a file or URL") - parser.add_argument("file", nargs="+", metavar="FILE", help="URL or file to scrape") - parser.add_argument( - "--reader", choices=SCRAPERS.keys(), default="url", help="Name of reader" - ) - parser.add_argument( - "--regex", - default=_DEFAULT_SEARCH, - help="Regular expression describing " "a standard name (%s)" % _DEFAULT_SEARCH, - ) - parser.add_argument( - "--no-headers", action="store_true", help="Do not print headers between scrapes" - ) - - if argv is None: - args = parser.parse_args() - else: - args = parser.parse_args(argv) - - return snscrape( - args.file, - with_headers=not args.no_headers, - regex=args.regex, - format=args.reader, - ) - - -def run() -> None: - print(main()) diff --git a/src/standard_names/cmd/snvalidate.py b/src/standard_names/cmd/snvalidate.py deleted file mode 100644 index d544e99..0000000 --- a/src/standard_names/cmd/snvalidate.py +++ /dev/null @@ -1,65 +0,0 @@ -#! /usr/bin/env python -"""Validate a list of names.""" - -import argparse -import os -import sys - -from standard_names.error import BadRegistryError -from standard_names.registry import NamesRegistry - - -def main(argv: tuple[str] | None = None) -> int: - """Validate a list of names. - - Examples - -------- - >>> import os - >>> from standard_names.registry import _get_latest_names_file - >>> from standard_names.cmd.snvalidate import main - - >>> (fname, _) = _get_latest_names_file() - >>> main([fname]) - 0 - - >>> import tempfile - >>> (fd, fname) = tempfile.mkstemp() - >>> os.close(fd) - - >>> with open(fname, 'w') as fp: - ... print('air__temperature', file=fp) - ... print('Water__temperature', file=fp) - ... print('water_temperature', file=fp) - - >>> main([fp.name]) - 2 - - >>> os.remove(fname) - """ - parser = argparse.ArgumentParser("Validate a list of standard names") - - parser.add_argument( - "file", - type=argparse.FileType("r"), - nargs="+", - default=None, - help="Read names from a file", - ) - - if argv is None: - args = parser.parse_args() - else: - args = parser.parse_args(argv) - - error_count = 0 - for file in args.file: - try: - NamesRegistry(file) - except BadRegistryError as err: - print(os.linesep.join(err.names), file=sys.stderr) - error_count += len(err.names) - return error_count - - -def run() -> None: - sys.exit(main()) diff --git a/src/standard_names/data/names-0.8.6.txt b/src/standard_names/data/names-0.8.6.txt new file mode 100644 index 0000000..443c988 --- /dev/null +++ b/src/standard_names/data/names-0.8.6.txt @@ -0,0 +1,3405 @@ +air__daily_max_of_temperature +air__daily_min_of_temperature +air__dielectric_constant +air__dynamic_shear_viscosity +air__dynamic_volume_viscosity +air__kinematic_shear_viscosity +air__kinematic_volume_viscosity +air__temperature +air__volume-specific_isochoric_heat_capacity +air__yearly_average_of_temperature +air_helium-plume__richardson_number +air_radiation~visible__speed +air_water~vapor__dew_point_temperature +air_water~vapor__saturated_partial_pressure +aircraft__flight_duration +airfoil__drag_coefficient +airfoil__lift_coefficient +airfoil_curve~enclosing__circulation +airplane__altitude +airplane__mach_number +airplane_wing__span +air~dry__mass-specific_gas_constant +air~dry_water~vapor__gas_constant_ratio +aluminum__mass-specific_isobaric_heat_capacity +ammonia-as-nitrogen__average_of_mass_volatilization_rate +ammonia-as-nitrogen__mass-per-area_volatilization_density +ammonium-as-nitrogen__average_of_mass_leaching_rate +ammonium-as-nitrogen__mass-per-area_nitrification_density +anvil__isobaric_heat_capacity +appliance~electric__voltage +aquifer~left_channel~stream_reach_water__baseflow_volume_flux +aquifer~right_channel~stream_reach_water__baseflow_volume_flux +atmosphere_aerosol_dust__reduction_of_transmittance +atmosphere_aerosol_radiation~incoming~shortwave__absorbed_energy_flux +atmosphere_aerosol_radiation~incoming~shortwave__absorptance +atmosphere_aerosol_radiation~incoming~shortwave__reflectance +atmosphere_aerosol_radiation~incoming~shortwave__reflected_energy_flux +atmosphere_aerosol_radiation~incoming~shortwave__transmittance +atmosphere_aerosol_radiation~incoming~shortwave__transmitted_energy_flux +atmosphere_aerosol_radiation~outgoing~longwave__emittance +atmosphere_aerosol_radiation~outgoing~longwave~downward__energy_flux +atmosphere_aerosol_radiation~outgoing~longwave~upward__energy_flux +atmosphere_air-column_acetic-acid__mass-per-area_density +atmosphere_air-column_aceto-nitrile__mass-per-area_density +atmosphere_air-column_aerosol~dry_ammonium__mass-per-area_density +atmosphere_air-column_alkanes__mass-per-area_density +atmosphere_air-column_alkenes__mass-per-area_density +atmosphere_air-column_alpha-hexachlorocyclohexane__mass-per-area_density +atmosphere_air-column_alpha-pinene__mass-per-area_density +atmosphere_air-column_ammonia__mass-per-area_density +atmosphere_air-column_clox-as-chlorine__mass-per-area_density +atmosphere_air-column_hox-as-hydrogen__mass-per-area_density +atmosphere_air-column_nox-as-nitrogen__mass-per-area_density +atmosphere_air-column_water~vapor__liquid-equivalent_depth +atmosphere_air-column_water~vapor__mass-per-area_density +atmosphere_air__anomaly_of_pressure +atmosphere_air__anomaly_of_temperature +atmosphere_air__azimuth_angle_of_gradient_of_temperature +atmosphere_air__convective_available_potential_energy +atmosphere_air__daily_max_of_temperature +atmosphere_air__daily_min_of_temperature +atmosphere_air__east_derivative_of_temperature +atmosphere_air__elevation_angle_of_gradient_of_temperature +atmosphere_air__equivalent_potential_temperature +atmosphere_air__equivalent_temperature +atmosphere_air__heat_capacity_ratio +atmosphere_air__increment_of_pressure +atmosphere_air__increment_of_temperature +atmosphere_air__isentropic_compressibility +atmosphere_air__isothermal_compressibility +atmosphere_air__magnitude_of_gradient_of_temperature +atmosphere_air__mass-per-volume_density +atmosphere_air__mass-specific_isobaric_heat_capacity +atmosphere_air__mass-specific_isochoric_heat_capacity +atmosphere_air__north_derivative_of_temperature +atmosphere_air__potential_temperature +atmosphere_air__static_pressure +atmosphere_air__static_pressure_environmental_lapse_rate +atmosphere_air__temperature +atmosphere_air__temperature_dry_adiabatic_lapse_rate +atmosphere_air__temperature_environmental_lapse_rate +atmosphere_air__temperature_lapse_rate +atmosphere_air__temperature_saturated_adiabatic_lapse_rate +atmosphere_air__thermal_conductivity +atmosphere_air__thermal_diffusivity +atmosphere_air__thermal_inertia +atmosphere_air__thermal_resistivity +atmosphere_air__volume-specific_isobaric_heat_capacity +atmosphere_air__volume-specific_isochoric_heat_capacity +atmosphere_air__x_derivative_of_temperature +atmosphere_air__y_derivative_of_temperature +atmosphere_air__z_derivative_of_temperature +atmosphere_air_carbon-dioxide__equilibrium_partial_pressure +atmosphere_air_carbon-dioxide__partial_pressure +atmosphere_air_carbon-dioxide__relative_saturation +atmosphere_air_carbon-dioxide__saturated_partial_pressure +atmosphere_air_flow__azimuth_angle_of_bolus_velocity +atmosphere_air_flow__azimuth_angle_of_gradient_of_potential_vorticity +atmosphere_air_flow__azimuth_angle_of_gradient_of_pressure +atmosphere_air_flow__azimuth_angle_of_momentum +atmosphere_air_flow__azimuth_angle_of_velocity +atmosphere_air_flow__azimuth_angle_of_vorticity +atmosphere_air_flow__curl_of_velocity +atmosphere_air_flow__dynamic_pressure +atmosphere_air_flow__east_component_of_bolus_velocity +atmosphere_air_flow__east_component_of_momentum +atmosphere_air_flow__east_component_of_velocity +atmosphere_air_flow__east_component_of_vorticity +atmosphere_air_flow__east_derivative_of_potential_vorticity +atmosphere_air_flow__east_derivative_of_pressure +atmosphere_air_flow__east_east_component_of_reynolds_stress +atmosphere_air_flow__east_east_component_of_stress +atmosphere_air_flow__east_north_component_of_reynolds_stress +atmosphere_air_flow__east_north_component_of_stress +atmosphere_air_flow__east_up_component_of_reynolds_stress +atmosphere_air_flow__east_up_component_of_stress +atmosphere_air_flow__elevation_angle_of_bolus_velocity +atmosphere_air_flow__elevation_angle_of_gradient_of_potential_vorticity +atmosphere_air_flow__elevation_angle_of_gradient_of_pressure +atmosphere_air_flow__elevation_angle_of_momentum +atmosphere_air_flow__elevation_angle_of_velocity +atmosphere_air_flow__elevation_angle_of_vorticity +atmosphere_air_flow__gradient_of_pressure +atmosphere_air_flow__magnitude_of_bolus_velocity +atmosphere_air_flow__magnitude_of_bolus_vorticity +atmosphere_air_flow__magnitude_of_gradient_of_potential_vorticity +atmosphere_air_flow__magnitude_of_gradient_of_pressure +atmosphere_air_flow__magnitude_of_momentum +atmosphere_air_flow__magnitude_of_stress +atmosphere_air_flow__magnitude_of_velocity +atmosphere_air_flow__north_component_of_bolus_velocity +atmosphere_air_flow__north_component_of_momentum +atmosphere_air_flow__north_component_of_velocity +atmosphere_air_flow__north_component_of_vorticity +atmosphere_air_flow__north_derivative_of_potential_vorticity +atmosphere_air_flow__north_derivative_of_pressure +atmosphere_air_flow__north_north_component_of_reynolds_stress +atmosphere_air_flow__north_north_component_of_stress +atmosphere_air_flow__north_up_component_of_reynolds_stress +atmosphere_air_flow__north_up_component_of_stress +atmosphere_air_flow__obukhov_length +atmosphere_air_flow__potential_vorticity +atmosphere_air_flow__time_derivative_of_potential_vorticity +atmosphere_air_flow__total_pressure +atmosphere_air_flow__up_component_of_bolus_velocity +atmosphere_air_flow__up_component_of_momentum +atmosphere_air_flow__up_up_component_of_reynolds_stress +atmosphere_air_flow__up_up_component_of_stress +atmosphere_air_flow__x_component_of_bolus_velocity +atmosphere_air_flow__x_component_of_momentum +atmosphere_air_flow__x_component_of_velocity +atmosphere_air_flow__x_component_of_vorticity +atmosphere_air_flow__x_derivative_of_potential_vorticity +atmosphere_air_flow__x_derivative_of_pressure +atmosphere_air_flow__x_x_component_of_reynolds_stress +atmosphere_air_flow__x_x_component_of_stress +atmosphere_air_flow__x_y_component_of_reynolds_stress +atmosphere_air_flow__x_y_component_of_stress +atmosphere_air_flow__x_z_component_of_reynolds_stress +atmosphere_air_flow__x_z_component_of_stress +atmosphere_air_flow__y_component_of_bolus_velocity +atmosphere_air_flow__y_component_of_momentum +atmosphere_air_flow__y_component_of_velocity +atmosphere_air_flow__y_component_of_vorticity +atmosphere_air_flow__y_derivative_of_potential_vorticity +atmosphere_air_flow__y_derivative_of_pressure +atmosphere_air_flow__y_y_component_of_reynolds_stress +atmosphere_air_flow__y_y_component_of_stress +atmosphere_air_flow__y_z_component_of_reynolds_stress +atmosphere_air_flow__y_z_component_of_stress +atmosphere_air_flow__z_component_of_bolus_velocity +atmosphere_air_flow__z_component_of_momentum +atmosphere_air_flow__z_component_of_velocity +atmosphere_air_flow__z_component_of_vorticity +atmosphere_air_flow__z_derivative_of_potential_vorticity +atmosphere_air_flow__z_derivative_of_pressure +atmosphere_air_flow__z_integral_of_u_component_of_momentum +atmosphere_air_flow__z_integral_of_v_component_of_momentum +atmosphere_air_flow__z_z_component_of_reynolds_stress +atmosphere_air_flow__z_z_component_of_stress +atmosphere_air_flow_sediment~suspended__mass_concentration +atmosphere_air_flow_sediment~suspended__volume_concentration +atmosphere_air_flow_snow~suspended__mass_concentration +atmosphere_air_flow_snow~suspended__volume_concentration +atmosphere_air_mercury~gaseous~divalent__mole_concentration +atmosphere_air_mercury~gaseous~elemental__mole_concentration +atmosphere_air_mercury~gaseous~monovalent__mole_concentration +atmosphere_air_nitrogen~atomic__mole_concentration +atmosphere_air_nmvoc~anthropogenic_carbon__mole_concentration +atmosphere_air_nmvoc~biogenic_carbon__mole_concentration +atmosphere_air_radiation__beer_lambert_law_attenuation_coefficient +atmosphere_air_radiation__standard_refraction_index +atmosphere_air_radiation_optical-path__length +atmosphere_air_radiation~incoming~longwave__absorptance +atmosphere_air_radiation~incoming~longwave__reflectance +atmosphere_air_radiation~incoming~longwave__transmittance +atmosphere_air_radiation~incoming~shortwave__energy_intensity +atmosphere_air_water~vapor__bubble_point_temperature +atmosphere_air_water~vapor__dew_point_temperature +atmosphere_air_water~vapor__equilibrium_partial_pressure +atmosphere_air_water~vapor__frost_point_temperature +atmosphere_air_water~vapor__mass-per-volume_density +atmosphere_air_water~vapor__max_of_relative_saturation +atmosphere_air_water~vapor__min_of_relative_saturation +atmosphere_air_water~vapor__mixing_ratio +atmosphere_air_water~vapor__partial_pressure +atmosphere_air_water~vapor__psychrometric_constant +atmosphere_air_water~vapor__relative_saturation +atmosphere_air_water~vapor__saturated_partial_pressure +atmosphere_air_water~vapor__specific_saturation +atmosphere_air_water~vapor__virtual_potential_temperature +atmosphere_air_water~vapor__virtual_temperature +atmosphere_ball__fall_speed +atmosphere_ball__terminal_fall_speed +atmosphere_bottom_air__average_of_temperature +atmosphere_bottom_air__brutsaert_emissivity_canopy_factor +atmosphere_bottom_air__brutsaert_emissivity_cloud_factor +atmosphere_bottom_air__bulk_latent_heat_aerodynamic_conductance +atmosphere_bottom_air__bulk_latent_heat_transfer_coefficient +atmosphere_bottom_air__bulk_momentum_aerodynamic_conductance +atmosphere_bottom_air__bulk_momentum_transfer_coefficient +atmosphere_bottom_air__bulk_sensible_heat_aerodynamic_conductance +atmosphere_bottom_air__bulk_sensible_heat_transfer_coefficient +atmosphere_bottom_air__emissivity +atmosphere_bottom_air__mass-per-volume_density +atmosphere_bottom_air__mass-specific_isobaric_heat_capacity +atmosphere_bottom_air__max_of_temperature +atmosphere_bottom_air__min_of_temperature +atmosphere_bottom_air__neutral_bulk_latent_heat_transfer_coefficient +atmosphere_bottom_air__neutral_bulk_momentum_transfer_coefficient +atmosphere_bottom_air__neutral_bulk_sensible_heat_transfer_coefficient +atmosphere_bottom_air__pressure +atmosphere_bottom_air__static_pressure +atmosphere_bottom_air__temperature +atmosphere_bottom_air_carbon-dioxide__equilibrium_partial_pressure +atmosphere_bottom_air_carbon-dioxide__partial_pressure +atmosphere_bottom_air_carbon-dioxide__relative_saturation +atmosphere_bottom_air_carbon-dioxide__saturated_partial_pressure +atmosphere_bottom_air_flow__bulk_richardson_number +atmosphere_bottom_air_flow__dynamic_pressure +atmosphere_bottom_air_flow__flux_richardson_number +atmosphere_bottom_air_flow__gradient_richardson_number +atmosphere_bottom_air_flow__log_law_displacement_length +atmosphere_bottom_air_flow__log_law_roughness_length +atmosphere_bottom_air_flow__reference_height_speed +atmosphere_bottom_air_flow__speed_reference_height +atmosphere_bottom_air_flow__total_pressure +atmosphere_bottom_air_flow__x_component_of_velocity +atmosphere_bottom_air_flow__y_component_of_velocity +atmosphere_bottom_air_flow__z_component_of_velocity +atmosphere_bottom_air_flow_buildings__log_law_roughness_length +atmosphere_bottom_air_flow_snowpack__log_law_roughness_length +atmosphere_bottom_air_flow_terrain__log_law_roughness_length +atmosphere_bottom_air_flow_vegetation__log_law_roughness_length +atmosphere_bottom_air_heat_flow__log_law_roughness_length +atmosphere_bottom_air_heat~advection__energy_flux +atmosphere_bottom_air_heat~convection__energy_flux +atmosphere_bottom_air_heat~diffusion__energy_flux +atmosphere_bottom_air_land_heat~incoming~latent__energy_flux +atmosphere_bottom_air_land_heat~incoming~sensible__energy_flux +atmosphere_bottom_air_land_heat~net~latent__energy_flux +atmosphere_bottom_air_land_heat~net~sensible__energy_flux +atmosphere_bottom_air_water~vapor__bulk_mass_aerodynamic_conductance +atmosphere_bottom_air_water~vapor__bulk_mass_transfer_coefficient +atmosphere_bottom_air_water~vapor__dew_point_temperature +atmosphere_bottom_air_water~vapor__equilibrium_partial_pressure +atmosphere_bottom_air_water~vapor__frost_point_temperature +atmosphere_bottom_air_water~vapor__mass-per-volume_density +atmosphere_bottom_air_water~vapor__neutral_bulk_mass_transfer_coefficient +atmosphere_bottom_air_water~vapor__partial_pressure +atmosphere_bottom_air_water~vapor__relative_saturation +atmosphere_bottom_air_water~vapor__saturated_partial_pressure +atmosphere_bottom_air_water~vapor_flow__log_law_roughness_length +atmosphere_carbon-dioxide__partial_pressure +atmosphere_clouds_radiation~incoming~shortwave__absorbed_energy_flux +atmosphere_clouds_radiation~incoming~shortwave__absorptance +atmosphere_clouds_radiation~incoming~shortwave__reflectance +atmosphere_clouds_radiation~incoming~shortwave__reflected_energy_flux +atmosphere_clouds_radiation~incoming~shortwave__transmittance +atmosphere_clouds_radiation~incoming~shortwave__transmitted_energy_flux +atmosphere_clouds_radiation~outgoing~longwave__emittance +atmosphere_clouds_radiation~outgoing~longwave~downward__energy_flux +atmosphere_clouds_radiation~outgoing~longwave~upward__energy_flux +atmosphere_datum~vertical~tidal~msl_air__static_pressure +atmosphere_datum~vertical~tidal~msl_air_flow__dynamic_pressure +atmosphere_datum~vertical~tidal~msl_air_flow__total_pressure +atmosphere_graupel__mass-per-volume_density +atmosphere_graupel__precipitation_duration +atmosphere_graupel__precipitation_volume_flux +atmosphere_hail__mass-per-volume_density +atmosphere_hail__precipitation_duration +atmosphere_hail__precipitation_volume_flux +atmosphere_hydrometeor__diameter +atmosphere_hydrometeor__fall_speed +atmosphere_hydrometeor__mass +atmosphere_hydrometeor__mass-per-volume_density +atmosphere_hydrometeor__temperature +atmosphere_hydrometeor__terminal_fall_speed +atmosphere_hydrometeor__volume +atmosphere_ice__mass-per-volume_density +atmosphere_ice__precipitation_duration +atmosphere_ice__precipitation_volume_flux +atmosphere_radiation~incoming~shortwave__absorbed_energy_flux +atmosphere_radiation~incoming~shortwave__absorptance +atmosphere_radiation~incoming~shortwave__reflectance +atmosphere_radiation~incoming~shortwave__reflected_energy_flux +atmosphere_radiation~incoming~shortwave__transmittance +atmosphere_radiation~incoming~shortwave__transmitted_energy_flux +atmosphere_raindrop__fall_speed +atmosphere_raindrop__terminal_fall_speed +atmosphere_sleet__mass-per-volume_density +atmosphere_sleet__precipitation_duration +atmosphere_sleet__precipitation_volume_flux +atmosphere_snow__mass-per-volume_density +atmosphere_snow__precipitation_duration +atmosphere_snow__precipitation_volume_flux +atmosphere_soil_water__thornthwaite_potential_evapotranspiration_volume +atmosphere_top_air__temperature +atmosphere_top_radiation~incoming~longwave__energy_flux +atmosphere_top_radiation~incoming~shortwave__energy_flux +atmosphere_top_radiation~incoming~total__energy_flux +atmosphere_top_radiation~outgoing~longwave__energy_flux +atmosphere_top_radiation~outgoing~shortwave__energy_flux +atmosphere_top_radiation~outgoing~total__energy_flux +atmosphere_top_surface_radiation~incoming~longwave__energy_flux 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+atmosphere_water__one-year_time_integral_of_precipitation_leq-volume_flux +atmosphere_water__precipitation_duration +atmosphere_water__precipitation_leq-volume_flux +atmosphere_water__precipitation_leq_volume_flux +atmosphere_water__precipitation_mass_flux +atmosphere_water__precipitation_volume_flux +atmosphere_water__rainfall_mass_flux +atmosphere_water__rainfall_volume_flux +atmosphere_water__second_dekad_time_integral_of_precipitation_leq_volume_flux +atmosphere_water__snowfall_leq-volume_flux +atmosphere_water__snowfall_mass-per-volume_density +atmosphere_water__snowfall_mass_flux +atmosphere_water__standardized_precipitation_wetness_index +atmosphere_water__third_dekad_time_integral_of_precipitation_leq_volume_flux +atmosphere_water__time_integral_of_precipitation_leq_volume_flux +atmosphere_water~vapor__dew_point_temperature +atmosphere_water~vapor__frost_point_temperature +atmosphere_water~vapor__partial_pressure +atmosphere_water~vapor__saturated_partial_pressure +automobile__0-to-60mph_acceleration_time +automobile__acceleration +automobile__braking_distance +automobile__braking_force +automobile__cargo_capacity +automobile__drag_coefficient +automobile__fuel-economy +automobile__fuel_economy +automobile__kelley-blue-book_price +automobile__length +automobile__lifetime_travel_distance +automobile__lift_coefficient +automobile__manufacture_year +automobile__mass +automobile__msrp_price +automobile__new_price +automobile__safety_rating +automobile__seating_capacity +automobile__speed +automobile__top_speed +automobile__total_stopping_distance +automobile__total_stopping_time +automobile__total_travel_distance +automobile__turning_radius +automobile__vehicle_identification_number +automobile__weight +automobile__wheelbase_length +automobile__width +automobile__x_component_of_velocity +automobile__y_component_of_velocity +automobile__z_component_of_velocity +automobile_axis~vertical__rotational_inertia +automobile_battery__height 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+channel_bottom_surface__y_derivative_of_elevation +channel_bottom_water__static_pressure +channel_bottom_water__temperature +channel_bottom_water_flow__domain_max_of_log_law_roughness_length +channel_bottom_water_flow__domain_min_of_log_law_roughness_length +channel_bottom_water_flow__dynamic_pressure +channel_bottom_water_flow__log_law_roughness_length +channel_bottom_water_flow__magnitude_of_shear_stress +channel_bottom_water_flow__relative_roughness_ratio +channel_bottom_water_flow__relative_smoothness_ratio +channel_bottom_water_flow__shear_speed +channel_bottom_water_flow__speed +channel_bottom_water_flow__total_pressure +channel_bottom_water_flow__x_component_of_shear_velocity +channel_bottom_water_flow__x_component_of_velocity +channel_bottom_water_flow__y_component_of_shear_velocity +channel_bottom_water_flow__y_component_of_velocity +channel_bottom_water_flow_sediment__shields_parameter +channel_bottom_water_flow_sediment_grain__shields_critical_shear_stress +channel_bottom_water_flow_sediment_grain__shields_number +channel_centerline__downvalley_sinuosity +channel_centerline__length +channel_centerline__sinuosity +channel_centerline_endpoints__difference_of_elevation +channel_centerline_endpoints__separation_distance +channel_entrance_basin__total_contributing_area +channel_entrance_center__elevation +channel_entrance_center__latitude +channel_entrance_center__longitude +channel_entrance_water_x-section__volume_flow_rate +channel_entrance_water_x-section__volume_flux +channel_exit_basin__total_contributing_area +channel_exit_center__elevation +channel_exit_center__latitude +channel_exit_center__longitude +channel_exit_water_x-section__volume-per-width_flow_rate +channel_exit_water_x-section__volume_flow_rate +channel_exit_water_x-section__volume_flow_rate_law_area_exponent +channel_exit_water_x-section__volume_flow_rate_law_coefficient +channel_exit_water_x-section_sediment~suspended__mass_flow_rate +channel_valley_centerline__sinuosity +channel_water__depth-times-bottom-surface-slope +channel_water__discharge_coefficient +channel_water__dynamic_shear_viscosity +channel_water__dynamic_volume_viscosity +channel_water__initial_volume +channel_water__kinematic_shear_viscosity +channel_water__kinematic_volume_viscosity +channel_water__mass-per-volume_density +channel_water__mass_flow_rate +channel_water__mean_depth +channel_water__peak_time_of_volume_flow_rate +channel_water__ph +channel_water__power +channel_water__reaeration_coefficient +channel_water__static_pressure +channel_water__temperature +channel_water__time_derivative_of_volume +channel_water__volume +channel_water_flow__chezy_formula_coefficient +channel_water_flow__cross-stream_component_of_velocity +channel_water_flow__darcy_friction_factor +channel_water_flow__domain_max_of_manning_n_parameter +channel_water_flow__domain_min_of_manning_n_parameter +channel_water_flow__downstream_component_of_velocity +channel_water_flow__dynamic_pressure +channel_water_flow__energy-per-volume_dissipation_rate +channel_water_flow__fanning_friction_factor +channel_water_flow__froude_number +channel_water_flow__half_of_fanning_friction_factor +channel_water_flow__manning_k_parameter +channel_water_flow__manning_n_parameter +channel_water_flow__reynolds_number +channel_water_flow__speed +channel_water_flow__total_pressure +channel_water_flow__x_component_of_velocity +channel_water_flow__x_component_of_vorticity +channel_water_flow__x_x_component_of_stress +channel_water_flow__x_y_component_of_stress +channel_water_flow__x_z_component_of_stress +channel_water_flow__y_component_of_velocity +channel_water_flow__y_component_of_vorticity +channel_water_flow__z_component_of_velocity +channel_water_flow__z_component_of_vorticity +channel_water_hydraulic-jump__height +channel_water_hydraulic-jump__loss_of_energy +channel_water_oxygen~photosynthetic__production_rate +channel_water_sediment_grain__stokes_settling_speed +channel_water_sediment~bedload__mass-per-volume_density +channel_water_sediment~bedload__mass_flow_rate +channel_water_sediment~bedload__volume_flow_rate +channel_water_sediment~bedload_grain__immersed_weight +channel_water_sediment~suspended__mass_concentration +channel_water_sediment~suspended__mass_flow_rate +channel_water_sediment~suspended__rouse_number +channel_water_sediment~suspended__volume_flow_rate +channel_water_sediment~suspended__volume_flow_rate_law_area_exponent +channel_water_sediment~total__volume_flow_rate +channel_water_sediment~total__volume_flow_rate_law_area_exponent +channel_water_sediment~total__volume_flow_rate_law_coefficient +channel_water_sediment~total__volume_flow_rate_law_slope_exponent +channel_water_sediment~washload__mass_concentration +channel_water_sediment~washload__mass_flow_rate +channel_water_sediment~washload__volume_flow_rate +channel_water_surface__cross-stream_derivative_of_elevation +channel_water_surface__downstream_derivative_of_elevation +channel_water_surface__elevation +channel_water_surface__slope +channel_water_surface__x_derivative_of_elevation +channel_water_surface__y_derivative_of_elevation +channel_water_surface_air__temperature +channel_water_surface_water__temperature +channel_water_x-section__depth-vs-half-width_coefficient +channel_water_x-section__depth-vs-half-width_exponent +channel_water_x-section__domain_max_of_mean_depth +channel_water_x-section__domain_max_of_volume_flow_rate +channel_water_x-section__domain_max_of_volume_flux +channel_water_x-section__domain_min_of_mean_depth +channel_water_x-section__domain_min_of_volume_flow_rate +channel_water_x-section__domain_min_of_volume_flux +channel_water_x-section__hydraulic_radius +channel_water_x-section__initial_mean_depth +channel_water_x-section__max_of_depth +channel_water_x-section__mean_depth +channel_water_x-section__time_derivative_of_mean_depth +channel_water_x-section__volume_flow_rate +channel_water_x-section__volume_flow_rate_law_area_exponent +channel_water_x-section__volume_flow_rate_law_coefficient +channel_water_x-section__volume_flux +channel_water_x-section__wetted_area +channel_water_x-section__wetted_perimeter +channel_water_x-section__width-to-depth_ratio +channel_water_x-section_top__width +channel_weir__discharge_coefficient +channel_x-section__area +channel_x-section__depth-vs-half-width_coefficient +channel_x-section__depth-vs-half-width_exponent +channel_x-section__diameter +channel_x-section__max_of_depth +channel_x-section__max_of_elevation +channel_x-section__min_of_elevation +channel_x-section__perimeter +channel_x-section__width-to-depth_ratio +channel_x-section_parabola__coefficient +channel_x-section_top__width +channel_x-section_trapezoid_bottom__width +channel_x-section_trapezoid_side__flare_angle +channel_x-section_trapezoid_side~left__flare_angle +channel_x-section_trapezoid_side~right__flare_angle +channel~river__stage_height 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+water~liquid~20C_air__surface_tension +water~vapor__mass-specific_gas_constant +water~vapor_air~dry__relative_molecular_mass_ratio +wave~airy__amplitude +wave~airy__wavelength +wave~airy__wavenumber +wave~cnoidal__amplitude +wave~cnoidal__wavelength +wave~cnoidal__wavenumber +wave~electromagnetic__amplitude +wave~electromagnetic__wavenumber +wave~seismic__amplitude +wave~seismic__wavenumber +wave~sine__crest_factor +wave~sine__wavelength +wave~stokes__amplitude +wave~stokes__wavelength +wave~stokes__wavenumber +weather-station__identification_number +weather-station__latitude +weather-station__longitude +wind__speed +wood~dry__thermal_energy_content diff --git a/src/standard_names/data/names-2.0.0.txt b/src/standard_names/data/names-2.0.0.txt new file mode 100644 index 0000000..9762c1d --- /dev/null +++ b/src/standard_names/data/names-2.0.0.txt @@ -0,0 +1,3337 @@ +above-ground_biomass~harvested_grain__mass_fraction +above-ground_crop_biomass~dry__mass-per-area_density +above-ground_crop_nitrogen__mass-per-area_density +above-ground_crop_nitrogen__mass_fraction +above-ground_crop_residue-as-carbon_decomposition__mass +above-ground_crop_residue_pool-as-carbon_decomposition__one-year_time_integral_of_mass_flux +above-ground_crop_residue~retained__mass-per-area_density +above-ground_crop_roots-and-rhizodeposits-as-carbon_decomposition__mass +above-ground_residue~remaining_at-harvest__mass-per-area_density +above-ground_soil_residue_pool_crop_residue_addition__mass-per-area_density +air__one-day_max_of_temperature +air__one-day_min_of_temperature +air__one-year_average_of_temperature +air__relative_permittivity +air__shear_dynamic_viscosity +air__shear_kinematic_viscosity +air__temperature +air__volume_dynamic_viscosity +air__volume_kinematic_viscosity +air_helium_plume__richardson_number +air_isochoric-process__volume-specific_heat_capacity +air_radiation~visible__speed +air_water~vapor~dew-point__temperature +aircraft_flight__duration 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+projectile_trajectory_target__z_component_of_velocity +projectile_trajectory_target_land_surface__aspect_angle +projectile_trajectory_target_land_surface__slope +projectile_trajectory_target_land_surface__slope_angle +projectile_x-section__area +pump__hydraulic_head +radiation~solar__energy_flux +railway_curve__min_of_radius +river-bank_sediment~saturated_water__hydraulic_conductivity +river-bank_water_flowing__volume-per-length_rate +river-delta-front-toe__mean_of_elevation +river-delta__mass +river-delta__volume +river-delta_apex__elevation +river-delta_apex__latitude +river-delta_apex__longitude +river-delta_apex__opening_angle +river-delta_apex_shoreline__min_of_distance +river-delta_bottomset-beds_sediment_clay__volume_fraction +river-delta_bottomset-beds_sediment_sand__volume_fraction +river-delta_bottomset-beds_sediment_silt__volume_fraction +river-delta_channel~main_entrance__azimuth_angle_of_velocity +river-delta_channel~main_entrance__elevation_angle_of_velocity +river-delta_channel~main_entrance__max_of_depth +river-delta_channel~main_entrance__mean_of_depth +river-delta_channel~main_entrance__width +river-delta_channel~main_entrance_center__elevation +river-delta_channel~main_entrance_center__latitude +river-delta_channel~main_entrance_center__longitude +river-delta_channel~main_entrance_water_flowing_x-section__volume_rate +river-delta_channel~main_entrance_water_sediment_clay__volume_fraction +river-delta_channel~main_entrance_water_sediment_sand__volume_fraction +river-delta_channel~main_entrance_water_sediment_sand_grain__mean_of_diameter +river-delta_channel~main_entrance_water_sediment_silt__volume_fraction +river-delta_channel~main_entrance_water_sediment~suspended__mass_concentration +river-delta_channel~main_entrance_water_sediment~suspended__volume_concentration +river-delta_channel~main_entrance_water_sediment~suspended_flowing__mass_rate +river-delta_channel~main_entrance_water_sediment~suspended_transport__mass_rate +river-delta_channel~main_entrance_water_x-section__volume_flux +river-delta_channel~main_entrance_water_x-section__wetted_area +river-delta_channel~main_entrance_water_x-section__wetted_perimeter +river-delta_channel~main_entrance_water_x-section__width-to-depth_ratio +river-delta_channel~main_entrance_water_x-section_top__width +river-delta_channel~main_entrance_x-section__area +river-delta_channel~main_entrance_x-section_top__width +river-delta_distributary-network__drainage_density +river-delta_distributary-network__length +river-delta_distributary-network_water__max_of_depth +river-delta_distributary__length +river-delta_distributary__slope +river-delta_distributary_outlet__count +river-delta_distributary_outlet_center__elevation +river-delta_distributary_outlet_center__latitude +river-delta_distributary_outlet_center__longitude +river-delta_distributary_outlet_side~left__elevation +river-delta_distributary_outlet_side~left__latitude 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+sea_bottom_water_debris_flowing__yield_stress +sea_bottom_water_debris_flowing_plug-layer__thickness +sea_bottom_water_debris_flowing_shear-layer__speed +sea_bottom_water_debris_flowing_shear-layer__thickness +sea_bottom_water_debris_flowing_top__speed +sea_ice__age +sea_ice__albedo +sea_ice__area +sea_ice__area_fraction +sea_ice__draft_depth +sea_ice__emissivity +sea_ice__extent +sea_ice__freeboard_height +sea_ice__heat_capacity_ratio +sea_ice__mass-per-volume_density +sea_ice__relative_permittivity +sea_ice__salinity +sea_ice__shear_dynamic_viscosity +sea_ice__shear_kinematic_viscosity +sea_ice__thermal_conductivity +sea_ice__thermal_diffusivity +sea_ice__thermal_inertia +sea_ice__thermal_resistivity +sea_ice__thermal_volume_expansion_coefficient +sea_ice__thickness +sea_ice__time_derivative_of_area_fraction +sea_ice__time_derivative_of_extent +sea_ice__time_derivative_of_thickness +sea_ice__time_derivative_of_volume +sea_ice__volume +sea_ice__volume_dynamic_viscosity +sea_ice__volume_kinematic_viscosity +sea_ice_bottom_water__salinity +sea_ice_bottom_water__temperature +sea_ice_bottom_water_salt__mass_flux +sea_ice_fusion__mass-specific_latent_heat +sea_ice_isentropic-process__compressibility +sea_ice_isobaric-process__mass-specific_heat_capacity +sea_ice_isobaric-process__volume-specific_heat_capacity +sea_ice_isochoric-process__mass-specific_heat_capacity +sea_ice_isochoric-process__volume-specific_heat_capacity +sea_ice_isothermal-process__compressibility +sea_ice_meltwater__mass_flux +sea_ice_meltwater__volume_flux +sea_ice_radiation~incoming_absorption__absorptance +sea_ice_radiation~incoming_reflection__reflectance +sea_ice_radiation~incoming_transmission__transmittance +sea_ice_radiation~incoming~absorbed__energy_flux +sea_ice_radiation~incoming~longwave_absorption__absorptance +sea_ice_radiation~incoming~longwave_reflection__reflectance +sea_ice_radiation~incoming~longwave_transmission__transmittance 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+sea_shoreline_deepwater-wave~incoming__period +sea_shoreline_deepwater-wave~incoming__significant_height +sea_shoreline_water_wave~incoming__azimuth_angle_of_group_velocity +sea_shoreline_water_wave~incoming__azimuth_angle_of_left_normal_of_phase_velocity +sea_shoreline_water_wave~incoming__azimuth_angle_of_phase_velocity +sea_surface__elevation +sea_surface__latitude +sea_surface__longitude +sea_surface__slope +sea_surface_air__magnitude_of_shear_stress +sea_surface_air__pressure +sea_surface_air__reference_pressure +sea_surface_air__reference_temperature +sea_surface_air__temperature +sea_surface_air_carbon-dioxide__partial_pressure +sea_surface_air_flowing__magnitude_of_shear_velocity +sea_surface_air_flowing__shear_speed +sea_surface_air_flowing__speed +sea_surface_air_flowing__x_component_of_shear_velocity +sea_surface_air_flowing__x_component_of_velocity +sea_surface_air_flowing__y_component_of_shear_velocity +sea_surface_air_flowing__y_component_of_velocity 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+sea_surface_water_breaking-wave__height-to-depth_ratio +sea_surface_water_breaking-wave__volume_fraction +sea_surface_water_carbon-dioxide__partial_pressure +sea_surface_water_evaporation__mass_flux +sea_surface_water_evaporation__volume_flux +sea_surface_water_precipitation__leq_volume_flux +sea_surface_water_precipitation__mass_flux +sea_surface_water_tide_constituent-2mk3__amplitude +sea_surface_water_tide_constituent-2mk3__angular_speed +sea_surface_water_tide_constituent-2mk3__period +sea_surface_water_tide_constituent-2mk3__phase_angle +sea_surface_water_tide_constituent-2mk3_amphidromic-points__latitude +sea_surface_water_tide_constituent-2mk3_amphidromic-points__longitude +sea_surface_water_tide_constituent-2n2__amplitude +sea_surface_water_tide_constituent-2n2__angular_speed +sea_surface_water_tide_constituent-2n2__period +sea_surface_water_tide_constituent-2n2__phase_angle +sea_surface_water_tide_constituent-2q1__amplitude 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+soil_layer_matter~organic~stabilized_carbon__mass_fraction +soil_layer_water__initial_volume_fraction +soil_layer~1_water__volume_fraction +soil_layer~topmost__porosity +soil_layer~topmost__thickness +soil_layer~topmost_water_infiltration__thickness +soil_layer~topmost~saturated__thickness +soil_loam__mass_fraction +soil_loam__volume_fraction +soil_macropores__cutoff_depth +soil_macropores__volume_fraction +soil_macropores_below-land_surface__depth +soil_macropores_water__vertical_component_of_hydraulic_conductivity +soil_macropores~saturated__horizontal_component_of_hydraulic_conductivity +soil_macropores~saturated__vertical_component_of_hydraulic_conductivity +soil_matter~organic__mass_fraction +soil_matter~organic__volume_fraction +soil_nitrification_nitrogen__average_of_mass_rate +soil_nitrification_nitrous-oxide-as-nitrogen_emission__average_of_mass_rate +soil_nitrification_nitrous-oxide-as-nitrogen_emission__mass-per-area_density +soil_nitrous-oxide-as-nitrogen_emission__average_of_mass_rate +soil_particle__mass-per-volume_density +soil_permafrost__thickness +soil_permafrost_bottom__depth +soil_permafrost_top__depth +soil_phreatic-zone_top__depth +soil_phreatic-zone_top_water_recharge__domain_time_integral_of_volume_flux +soil_phreatic-zone_top_water_recharge__mass_flux +soil_phreatic-zone_top_water_recharge__time_integral_of_volume_flux +soil_phreatic-zone_top_water_recharge__volume_flux +soil_plant_residue_water_evaporation__volume_flux +soil_pool-and-pool~microbial_carbon~decomposed_addition__mass +soil_pool~stabilized_carbon__change_of_mass +soil_profile_ammonium-as-nitrogen__mass-per-area_density +soil_profile_bottom_water_drainage__volume_flux +soil_profile_bottom_water_drainage_ammonium_leaching__time_integral_of_mass_flux +soil_profile_bottom_water_drainage_nitrate_leaching__time_integral_of_mass_flux +soil_profile_nitrate-as-nitrogen__mass-per-area_density +soil_regolith-layer__thickness +soil_rhizosphere__thickness +soil_rhizosphere_water__mass-per-area_density +soil_rock__volume_fraction +soil_sand__mass_fraction +soil_sand__volume_fraction +soil_silt__mass_fraction +soil_silt__volume_fraction +soil_surface_residue~standing_carbon_nitrogen__mass_ratio +soil_surface_water__volume_fraction +soil_surface_water_evaporation__time_integral_of_volume_flux +soil_surface_water_evaporation__volume_flux +soil_surface_water_infiltration__domain_time_integral_of_volume_flux +soil_surface_water_infiltration__mass_flux +soil_surface_water_infiltration__potential_volume_flux +soil_surface_water_infiltration__time_integral_of_volume_flux +soil_surface_water_infiltration__volume_flux +soil_surface_water_irrigation__volume_flux +soil_surface_water_runoff__volume_flux +soil_thawing__depth +soil_vadose-zone_water__volume-per-area_storage_density +soil_void__volume_ratio +soil_water__atterberg_activity_index +soil_water__atterberg_liquidity_index +soil_water__atterberg_plasticity_index +soil_water__brooks-corey-smith_c_parameter +soil_water__brooks-corey-smith_pressure_head_offset_parameter +soil_water__brooks-corey_b_parameter +soil_water__brooks-corey_eta_parameter +soil_water__brooks-corey_lambda_parameter +soil_water__bubbling_pressure_head +soil_water__effective_hydraulic_conductivity +soil_water__green-ampt_capillary_length +soil_water__hydraulic_conductivity +soil_water__hygroscopic_pressure_head +soil_water__hygroscopic_volume_fraction +soil_water__initial_hydraulic_conductivity +soil_water__initial_normalized_volume_fraction +soil_water__initial_volume_fraction +soil_water__lower_limit_of_volume_fraction +soil_water__mass_diffusivity +soil_water__mass_fraction +soil_water__normalized_hydraulic_conductivity +soil_water__normalized_volume_fraction +soil_water__philip_sorptivity +soil_water__pressure_head +soil_water__relative_hydraulic_conductivity +soil_water__residual_volume_fraction +soil_water__smith-parlange_gamma_parameter +soil_water__van-genuchten_alpha_parameter +soil_water__van-genuchten_m_parameter +soil_water__van-genuchten_n_parameter +soil_water__volume-per-area_concentration +soil_water__volume_fraction +soil_water_at-field_capacity__pressure_head +soil_water_at-field_capacity__volume_fraction +soil_water_at-pressure-head__reference_depth +soil_water_at-reference-depth__pressure_head +soil_water_atterberg-liquid-limit__volume_fraction +soil_water_atterberg-plastic-limit__volume_fraction +soil_water_atterberg-shrinkage-limit__volume_fraction +soil_water_flowing__azimuth_angle_of_darcy_velocity +soil_water_flowing__elevation_angle_of_darcy_velocity +soil_water_flowing__x_component_of_darcy_velocity +soil_water_flowing__y_component_of_darcy_velocity +soil_water_flowing__z_component_of_darcy_velocity +soil_water_frost-front__depth +soil_water_infiltration__mass_flux +soil_water_infiltration__potential_volume_flux +soil_water_infiltration__volume_flux +soil_water_interception__volume-per-area_storage_capacity +soil_water_phreatic-zone__thickness +soil_water_phreatic-zone_top__depth +soil_water_phreatic-zone_top__offset_depth +soil_water_phreatic-zone_top_surface__elevation +soil_water_phreatic-zone_top_surface__initial_elevation +soil_water_phreatic-zone_top_surface__slope +soil_water_phreatic-zone_top_surface__x_derivative_of_elevation +soil_water_phreatic-zone_top_surface__y_derivative_of_elevation +soil_water_vadose-zone__thickness +soil_water_wetting-front__depth +soil_water~wilting-point__pressure_head +soil_water~wilting-point__volume_fraction +soil_x-section~horizontal_macropores__area_fraction +soil_x-section~vertical_macropores__area_fraction +soil~air-dried_water__pressure_head +soil~drained_water__upper_limit_of_volume_fraction +soil~dry_ammonium-as-nitrogen~elemental__mass_fraction +soil~dry_nitrate-as-nitrogen~elemental__mass_fraction +soil~moist_layer_bulk__mass-per-volume_density +soil~no-rock_silt__mass_fraction +soil~no-rock~dry__mass-per-volume_density +soil~oven-dried_clay__mass_fraction +soil~oven-dried_loam__mass_fraction +soil~oven-dried_matter~organic__mass_fraction +soil~oven-dried_sand__mass_fraction +soil~oven-dried_silt__mass_fraction +soil~oven-dried_water__mass_fraction +soil~oven-dried_water__pressure_head +soil~saturated__hydraulic_conductivity +soil~saturated_water__effective_hydraulic_conductivity +soil~saturated_water__hydraulic_conductivity +soil~saturated_water__vertical_component_of_hydraulic_conductivity +soil~saturated_water__volume_fraction +space-shuttle_tile_isochoric-process__heat_capacity +sphere_surface__area +square__diameter +station_channel__hydraulic-geometry_depth-vs-discharge_coefficient +station_channel__hydraulic-geometry_depth-vs-discharge_exponent +station_channel__hydraulic-geometry_slope-vs-discharge_coefficient +station_channel__hydraulic-geometry_slope-vs-discharge_exponent +station_channel__hydraulic-geometry_speed-vs-discharge_coefficient +station_channel__hydraulic-geometry_speed-vs-discharge_exponent +station_channel__hydraulic-geometry_width-vs-discharge_coefficient +station_channel__hydraulic-geometry_width-vs-discharge_exponent +steel-spring__hooke-law_coefficient +stokes-wave__amplitude +stokes-wave__wavelength +stokes-wave__wavenumber +storage-tank~open-top_outlet_water_flowing__speed +storage-tank~open-top_outlet_x-section__area +storage-tank~open-top_water__depth +storage-tank~open-top_water__initial_depth +storage-tank~open-top_water__volume +storage-tank~open-top_x-section~horizontal__area +storage-tank~open-top_x-section~horizontal_circle__radius +stream_channel_reach_water~incoming__lateral_component_of_volume_flux +stream_channel_reach_water~outgoing__lateral_component_of_volume_flux +stream_channel_water_flowing__duration_index +submarine_above-seafloor__altitude +substrates~organic_decomposition_nitrogen_mineralization__gross_mass-per-area_density +sulfuric-acid-solution__ph +sulfuric-acid_water__chemical_affinity +sun-lotion_skin_protection__spf_rating +sun_earth__solar_constant +sun_mars__solar_constant +sun_venus__solar_constant +titan_atmosphere_methane_precipitation__leq_volume_flux +tree~bluejack-oak__mean_of_height +tree~bluejack-oak_trunk__diameter +universe_cosmic-background-radiation__frequency +venus__standard_gravitational_acceleration +venus_axis__tilt_angle +venus_orbit_aphelion__distance +venus_orbit_perihelion__distance +venus_orbit_venus_ecliptic__inclination_angle +water__gibbs_free_energy +water__shear_dynamic_viscosity +water__shear_kinematic_viscosity +water__volume_dynamic_viscosity +water__volume_kinematic_viscosity +water__x_z_component_of_viscosity +water_below-land_surface__depth +water_carbon-dioxide__solubility +water_diethyl-ether__solubility +water_electron__electron_affinity +water_ethanol__solubility +water_flowing__volume_rate +water_fusion__mass-specific_latent_heat +water_fusion__mole-specific_latent_heat +water_molecule_bond-h-o-h__actual_angle +water_molecule_bond-h-o-h__ideal_angle +water_molecule_bond-h-o__length +water_molecule_bond-h-o_dissociation__energy +water_molecule_hydrogen__mass_number +water_salt__mass_diffusivity +water_sand_grain_settling__terminal_speed +water_scuba-diver_dive__duration +water_sublimation__mass-specific_latent_heat +water_sublimation__mole-specific_latent_heat +water_vaporization__mass-specific_latent_heat +water_vaporization__mole-specific_latent_heat +water~20C__vapor_pressure +water~boiling-point__temperature +water~freezing-point__temperature +water~incoming-and-outgoing_flowing__volume_rate +water~liquid__antoine-vapor-pressure_a_parameter +water~liquid__antoine-vapor-pressure_b_parameter +water~liquid__antoine-vapor-pressure_c_parameter +water~liquid__mass-per-volume_density +water~liquid_carbon~dissolved~inorganic__molar_concentration +water~liquid_carbon~dissolved~organic__molar_concentration +water~liquid_oxygen~dissolved~molecular__molar_concentration +water~liquid~20C__mass-per-volume_density +water~liquid~20C__shear_dynamic_viscosity +water~liquid~20C__shear_kinematic_viscosity +water~liquid~20C__volume_dynamic_viscosity +water~liquid~20C__volume_kinematic_viscosity +water~liquid~20C_air__surface_tension +water~vapor__mass-specific_gas_constant +water~vapor_air~dry__relative_molecular_mass +weather-station__identification_number +weather-station__latitude +weather-station__longitude +white-dwarf__chandrasekhar-limit_mass +wind__speed +wood~dry__thermal_energy-per-volume_density diff --git a/src/standard_names/peg.py b/src/standard_names/peg.py new file mode 100644 index 0000000..29cf56d --- /dev/null +++ b/src/standard_names/peg.py @@ -0,0 +1,30 @@ +from pyparsing import Combine +from pyparsing import Optional +from pyparsing import ParserElement +from pyparsing import Word +from pyparsing import ZeroOrMore +from pyparsing import alphanums +from pyparsing import alphas + + +def _standard_name() -> ParserElement: + lowercase_word = Word(alphas.lower()) + alnum_word = Word(alphanums) + + separator = Word("-~_", exact=1) + + object_ = Combine( + lowercase_word + ZeroOrMore(Optional(separator) + alnum_word) + ).set_name("object") + quantity = Combine( + lowercase_word + ZeroOrMore(Optional(separator) + alnum_word) + ).set_name("quantitiy") + + return (object_ + "__" + quantity).set_name("standard_name") + + +STANDARD_NAME = _standard_name() + + +def findall(line: str) -> list[str]: + return ["".join(token) for token, _, _ in STANDARD_NAME.scanString(line)] diff --git a/src/standard_names/regex.py b/src/standard_names/regex.py new file mode 100644 index 0000000..12d5b82 --- /dev/null +++ b/src/standard_names/regex.py @@ -0,0 +1,43 @@ +import re + +STANDARD_NAME_REGEX = re.compile( + r""" + ^ # Start of the string + [a-z]+ # Starts with one or more lowercase letters + (?: # Start of a non-capturing group for subsequent parts + [-~_]? # Optional separator: hyphen, tilde, or underscore + [a-zA-Z0-9]+ # One or more alphanumeric characters + )* # Zero or more repetitions of the group + __ # Double underscore separator + [a-z]+ # Another lowercase word + (?: # Start of a non-capturing group for subsequent parts + [-~_]? # Optional separator: hyphen, tilde, or underscore + [a-zA-Z0-9]+ # One or more alphanumeric characters + )* # Zero or more repetitions of the group + $ # End of the string + """, + re.VERBOSE, +) + +_PATTERN = re.compile( + r""" + (? list[str]: + return _PATTERN.findall(line.strip()) diff --git a/src/standard_names/registry.py b/src/standard_names/registry.py index 0e2081a..c91418b 100644 --- a/src/standard_names/registry.py +++ b/src/standard_names/registry.py @@ -2,13 +2,17 @@ import os import warnings +from collections import defaultdict from collections.abc import Generator from collections.abc import Iterable +from collections.abc import MutableSet from glob import glob +from urllib.request import urlopen from packaging.version import InvalidVersion from packaging.version import Version +from standard_names._format import FORMATTERS from standard_names.error import BadNameError from standard_names.error import BadRegistryError from standard_names.standardname import StandardName @@ -103,9 +107,9 @@ def _get_latest_names_file( >>> fname, version = _get_latest_names_file() >>> os.path.basename(fname) - 'names-0.8.5.txt' + 'names-2.0.0.txt' >>> version - '0.8.5' + '2.0.0' >>> _get_latest_names_file(prefix='garbage') (None, None) @@ -143,7 +147,7 @@ def _get_latest_names_file( return None, None -class NamesRegistry: +class NamesRegistry(MutableSet[str]): """A registry of CSDMS Standard Names. @@ -185,13 +189,13 @@ class NamesRegistry: get lists of each in the registry. >>> registry.names - ('air__temperature',) + frozenset({'air__temperature'}) >>> registry.objects - ('air',) + frozenset({'air'}) >>> registry.quantities - ('temperature',) + frozenset({'temperature'}) >>> registry.operators - () + frozenset() You can search the registry for names using the ``names_with``, ``match``, and ``search`` methods. @@ -223,9 +227,9 @@ def __init__(self, names: str | Iterable[str] = (), version: str | None = None): self._version = version or "0.0.0" self._names: set[str] = set() - self._objects: set[str] = set() - self._quantities: set[str] = set() - self._operators: set[str] = set() + self._objects: dict[str, int] = defaultdict(int) + self._quantities: dict[str, int] = defaultdict(int) + self._operators: dict[str, int] = defaultdict(int) self._load(names, onerror="raise") @@ -245,7 +249,7 @@ def version(self) -> str: return self._version @property - def names(self) -> tuple[str, ...]: + def names(self) -> frozenset[str]: """All names in the registry. Returns @@ -253,10 +257,10 @@ def names(self) -> tuple[str, ...]: tuple of str All of the names in the registry. """ - return tuple(self._names) + return frozenset(self._names) @property - def objects(self) -> tuple[str, ...]: + def objects(self) -> frozenset[str]: """All objects in the registry. Returns @@ -264,10 +268,10 @@ def objects(self) -> tuple[str, ...]: tuple of str All of the objects in the registry. """ - return tuple(self._objects) + return frozenset(self._objects) @property - def quantities(self) -> tuple[str, ...]: + def quantities(self) -> frozenset[str]: """All quantities in the registry. Returns @@ -275,10 +279,10 @@ def quantities(self) -> tuple[str, ...]: tuple of str All of the quantities in the registry. """ - return tuple(self._quantities) + return frozenset(self._quantities) @property - def operators(self) -> tuple[str, ...]: + def operators(self) -> frozenset[str]: """All operators in the registry. Returns @@ -286,7 +290,7 @@ def operators(self) -> tuple[str, ...]: tuple of str All of the operators in the registry. """ - return tuple(self._operators) + return frozenset(self._operators) @classmethod def from_path( @@ -314,6 +318,18 @@ def from_path( return cls(names, version=version) + @classmethod + def from_url(cls, urls: Iterable[str]) -> NamesRegistry: + if isinstance(urls, str): + urls = [urls] + + names = [] + for url in urls: + with urlopen(url) as response: + names += [name.decode("utf-8").strip() for name in response] + + return cls(names) + @classmethod def from_latest(cls) -> NamesRegistry: names_file, version = _get_latest_names_file() @@ -332,16 +348,45 @@ def add(self, name: str | StandardName) -> None: if isinstance(name, str): name = StandardName(name) - self._names.add(name.name) - self._objects.add(name.object) - self._quantities.add(name.quantity) + if name.name not in self._names: + self._names.add(name.name) + self._objects[name.object] += 1 + self._quantities[name.quantity] += 1 + for op in name.operators: + self._operators[op] += 1 + + def discard(self, name: str | StandardName) -> None: + if isinstance(name, str): + try: + name = StandardName(name) + except BadNameError: + raise KeyError(name) from None + + self._names.remove(name.name) + + self._objects[name.object] -= 1 + assert self._objects[name.object] >= 0 + if self._objects[name.object] <= 0: + del self._objects[name.object] + + self._quantities[name.quantity] -= 1 + assert self._quantities[name.quantity] >= 0 + if self._quantities[name.quantity] <= 0: + del self._quantities[name.quantity] + for op in name.operators: - self._operators.add(op) + self._operators[op] -= 1 + assert self._operators[op] >= 0 + if self._operators[op] <= 0: + del self._operators[op] - def __contains__(self, name: str) -> bool: + def __contains__(self, name: object) -> bool: if isinstance(name, StandardName): - name = name.name - return name in self._names + return name.name in self._names + elif isinstance(name, str): + return name in self._names + else: + return False def __len__(self) -> int: return len(self._names) @@ -403,11 +448,45 @@ def names_with(self, parts: str | Iterable[str]) -> set[str]: return {name for name in self._names if all(part in name for part in parts)} + def dumps( + self, + format_: str = "text", + fields: Iterable[str] | None = None, + newline: str = os.linesep, + sort: bool = False, + ) -> str: + all_fields = ("names", "objects", "quantities", "operators") + fields = all_fields if fields is None else fields + + if set(fields) - set(all_fields): + raise ValueError( + f"unknown fields: {', '.join(repr(f) for f in fields)} is not one of" + f" {', '.join(repr(f) for f in all_fields)}" + ) from None -REGISTRY = NamesRegistry.from_latest() - -NAMES = REGISTRY.names -OBJECTS = REGISTRY.objects -QUANTITIES = REGISTRY.quantities -OPERATORS = REGISTRY.operators -VERSION = REGISTRY.version + try: + formatter = FORMATTERS[format_] + except KeyError: + raise ValueError( + f"unknown format: {format_!r} is not one of" + f" {', '.join(repr(f) for f in FORMATTERS)}" + ) from None + + lines = [ + formatter( + sorted(getattr(self, field)) if sort else getattr(self, field), + heading=field, + ) + for field in fields + ] + + return (2 * newline).join(lines) + + +# REGISTRY = NamesRegistry.from_latest() + +# NAMES = REGISTRY.names +# OBJECTS = REGISTRY.objects +# QUANTITIES = REGISTRY.quantities +# OPERATORS = REGISTRY.operators +# VERSION = REGISTRY.version diff --git a/src/standard_names/standardname.py b/src/standard_names/standardname.py index 7f464e8..bcef993 100644 --- a/src/standard_names/standardname.py +++ b/src/standard_names/standardname.py @@ -1,15 +1,10 @@ """A CSDMS standard name.""" from __future__ import annotations -import re from typing import Any from standard_names.error import BadNameError - -_PREFIX_REGEX = "^[a-z]([a-zA-Z0-9~-]|_(?!_))*" -_SUFFIX_REGEX = "[a-z0-9]([a-z0-9~-]|_(?!_))*[a-z0-9]$" -STANDARD_NAME_REGEX = re.compile(_PREFIX_REGEX + "(__)" + _SUFFIX_REGEX) -# '^[a-z][a-z0-9_]*[a-z0-9](__)[a-z0-9][a-z0-9_]*[a-z0-9]$' +from standard_names.regex import STANDARD_NAME_REGEX def is_valid_name(name: str) -> bool: @@ -59,7 +54,7 @@ class StandardName: "StandardName('water__min_of_density')" """ - re = _PREFIX_REGEX + "(__)" + _SUFFIX_REGEX + re = STANDARD_NAME_REGEX def __init__(self, name: str): """Create a standard name object from a string. diff --git a/src/standard_names/utilities/__init__.py b/src/standard_names/utilities/__init__.py deleted file mode 100644 index e69de29..0000000 diff --git a/src/standard_names/utilities/decorators.py b/src/standard_names/utilities/decorators.py deleted file mode 100644 index aa65704..0000000 --- a/src/standard_names/utilities/decorators.py +++ /dev/null @@ -1,259 +0,0 @@ -#! /usr/bin/env python -"""Some decorators for the CmtStandardNames package.""" - -import os -from collections.abc import Callable -from collections.abc import Iterator -from typing import Any - -from standard_names.registry import NamesRegistry - - -def format_as_wiki(func: Callable[..., str]) -> Callable[..., str]: - """ - Decoratate a function that reads lines from a file. Put some wiki - formatting around each line of the file and add a header, and - footer. - - Examples - -------- - >>> from __future__ import print_function - >>> import os - >>> from standard_names.utilities.decorators import format_as_wiki - - >>> def func(lines): - ... return lines - - >>> wikize = format_as_wiki(func) - >>> lines = os.linesep.join(['line 1', 'line 2']) - >>> print(wikize(lines, heading='Lines', newline='\\n')) - = Lines = - - line 1
- line 2
- - """ - - def _wrapped(file_like: Iterator[str], **kwds: Any) -> str: - """Decorate a list of strings. - - :lines: List of strings - :returns: Decorated strings concatoranted with line separators - """ - newline = kwds.pop("newline", os.linesep) - heading = kwds.pop("heading", None) - heading_level = kwds.pop("level", 1) - - if not isinstance(newline, str): - raise ValueError("newline keyword must be of type str") - if not isinstance(heading, str) and heading is not None: - raise ValueError("heading keyword must be of type str or None") - if not isinstance(heading_level, int): - raise ValueError("level keyword must be of type int") - - text = func(file_like, **kwds) - lines = text.split(os.linesep) - - wiki_lines = [""] + [line + "
" for line in lines] + [""] - - if heading is not None: - pre = "=" * heading_level - wiki_lines.insert(0, f"{pre} {heading.title()} {pre}") - - return newline.join(wiki_lines) - - return _wrapped - - -def format_as_yaml(func: Callable[..., str]) -> Callable[..., str]: - """ - Decoratate a function that reads lines from a file. Put some YAML - formatting around each line of the file and add a header, and - footer. - - Examples - -------- - >>> from __future__ import print_function - >>> import os - >>> from standard_names.utilities.decorators import format_as_yaml - - >>> def func(lines): - ... return lines - - >>> yamlize = format_as_yaml(func) - >>> lines = os.linesep.join(['line 1', 'line 2']) - >>> print(yamlize(lines, heading='Lines', newline='\\n')) - Lines: - - line 1 - - line 2 - >>> print(yamlize(lines, newline='\\n')) - - line 1 - - line 2 - """ - - def _wrapped(file_like: Iterator[str], **kwds: Any) -> str: - """Decorate a list of strings. - - Parameters - --------- - lines : iterable or str - List of strings - - Returns - ------- - str - Decorated strings concatoranted with line separators - """ - heading = kwds.pop("heading", None) - newline = kwds.pop("newline", os.linesep) - - if not isinstance(newline, str): - raise ValueError("newline keyword must be of type str") - if not isinstance(heading, str) and heading is not None: - raise ValueError("heading keyword must be of type str or None") - - text = func(file_like, **kwds) - lines = text.split(os.linesep) - - if heading is not None: - yaml_lines = ["%s:" % heading] - indent = 2 - else: - yaml_lines = [] - indent = 0 - - items = [line for line in lines if line] - if items: - for line in items: - yaml_lines.append("{}- {}".format(" " * indent, line)) - else: - yaml_lines.append("%s[]" % (" " * indent)) - - return newline.join(yaml_lines) - - return _wrapped - - -def format_as_plain_text(func: Callable[..., str]) -> Callable[..., str]: - """ - - Examples - -------- - >>> from __future__ import print_function - >>> from standard_names.utilities.decorators import format_as_plain_text - - >>> def func(lines): - ... return lines - - >>> textize = format_as_plain_text(func) - >>> lines = os.linesep.join(['line 1', 'line 2']) - >>> print(textize(lines, heading='Lines', newline='\\n')) - # Lines - line 1 - line 2 - """ - - def _wrapped(file_like: Iterator[str], **kwds: Any) -> str: - heading = kwds.pop("heading", None) - newline = kwds.pop("newline", os.linesep) - - if not isinstance(newline, str): - raise ValueError("newline keyword must be of type str") - if not isinstance(heading, str) and heading is not None: - raise ValueError("heading keyword must be of type str or None") - - text = func(file_like, **kwds) - lines = text.split(os.linesep) - - if heading: - stripped_lines = ["# %s" % heading] - else: - stripped_lines = [] - - for line in lines: - stripped_lines.append(line.strip()) - - return newline.join(stripped_lines) - - return _wrapped - - -def plain_text(func: Callable[..., NamesRegistry]) -> Callable[..., NamesRegistry]: - """ - Decoratate a function that reads from a file-like object. The decorated - function will instead read from a file with a given name. - """ - - def _wrapped(name: str, **kwds: Any) -> NamesRegistry: - """Open a file by name. - - Parameters - ---------- - name : str - Name of the file as a string. - """ - if isinstance(name, str): - with open(name) as file_like: - rtn = func(file_like, **kwds) - else: - rtn = func(name, **kwds) - return rtn - - return _wrapped - - -def url(func: Callable[..., NamesRegistry]) -> Callable[..., NamesRegistry]: - """ - Decoratate a function that reads from a file-like object. The decorated - function will instead read from a file with a URL. - """ - - def _wrapped(name: str, **kwds: Any) -> NamesRegistry: - """Open a URL by name. - - Parameters - ---------- - name : str - Name of the URL as a string. - """ - from urllib.request import urlopen - - file_like = urlopen(name) - rtn = func(file_like, **kwds) - return rtn - - return _wrapped - - -def google_doc(func: Callable[..., NamesRegistry]) -> Callable[..., NamesRegistry]: - """ - Decoratate a function that reads from a file-like object. The decorated - function will instead read from a remote Google Doc file. - """ - - def _wrapped(name: str, **kwds: Any) -> NamesRegistry: - """Open a Google Doc file by name. - - Parameters - ---------- - name : str - Name of the Google Doc file as a string. - """ - import subprocess - import tempfile - - (_, tfile) = tempfile.mkstemp(text=True) - - try: - subprocess.check_call(["google", "docs", "get", name, tfile]) - except subprocess.CalledProcessError: - raise - else: - with open(tfile) as file_like: - rtn = func(file_like, **kwds) - finally: - os.remove(tfile) - - return rtn - - return _wrapped diff --git a/src/standard_names/utilities/io.py b/src/standard_names/utilities/io.py deleted file mode 100644 index 00e6c75..0000000 --- a/src/standard_names/utilities/io.py +++ /dev/null @@ -1,239 +0,0 @@ -#! /usr/bin/env python -"""Some IO functions for standard_names package.""" - -import os -import re -import sys -from collections.abc import Callable -from collections.abc import Iterable -from typing import Any -from typing import TextIO - -from standard_names.error import BadNameError -from standard_names.registry import NamesRegistry -from standard_names.utilities.decorators import format_as_plain_text -from standard_names.utilities.decorators import format_as_wiki -from standard_names.utilities.decorators import format_as_yaml -from standard_names.utilities.decorators import google_doc -from standard_names.utilities.decorators import plain_text -from standard_names.utilities.decorators import url - - -def _list_to_string(lines: Iterable[str], **kwds: dict[str, Any]) -> str: - """Join strings with the line separator. - - Concatonate a list of strings into one big string using the line separator - as a joiner. - - Parameters - ---------- - lines : iterable of str - String to join. - sorted : bool, optional - Sort the strings before joining them. - newline : str, optional - Newline character to use for output. - - Returns - ------- - str - The joined strings. - - Examples - -------- - >>> from __future__ import print_function - >>> import standard_names as csn - >>> print(csn.utilities.io._list_to_string(('foo', 'bar'), newline='\\n')) - foo - bar - >>> print(csn.utilities.io._list_to_string(('foo', 'bar'), sorted=True, newline='\\n')) - bar - foo - """ - newline = kwds.pop("newline", os.linesep) - if not isinstance(newline, str): - raise ValueError("newline keyword must be of type str") - if kwds.pop("sorted", False): - sorted_lines = list(lines) - sorted_lines.sort() - return newline.join(sorted_lines) - else: - return newline.join(lines) - - -def _scrape_stream(stream: TextIO, regex: str = r"\b\w+__\w+") -> NamesRegistry: - """Scrape standard names from stream matching a regular expression. - - Parameters - ---------- - stream : file_like - File-like object from which to read (only a ``read`` method is - necessary). - regex : str, optional - A regular expression that indicates a word to scrape. - - Returns - ------- - NamesRegistry - The scraped words. - - Examples - -------- - >>> from standard_names.utilities.io import _scrape_stream - >>> from io import StringIO - - >>> stream = StringIO(''' - ... Some text with a standard name (air__temperature) in it. - ... More words with more names: water__temperature. If a word matches - ... the pattern but is not a valid name, ignore it (Air__Temperature - ... is an example). - ... ''') - >>> names = _scrape_stream(stream) - >>> sorted(names.names) - ['air__temperature', 'water__temperature'] - """ - names = NamesRegistry() - - text = stream.read() - words = re.findall(regex, text) - for word in words: - try: - names.add(word) - except BadNameError as error: - print( - "{name}: matches pattern but not a valid name. " - "Ignoring.".format(name=error.name), - file=sys.stderr, - ) - - return names - - -FORMATTERS: dict[str, Callable[..., str]] = { - "plain": _list_to_string, - "wiki": format_as_wiki(_list_to_string), - "yaml": format_as_yaml(_list_to_string), - "txt": format_as_plain_text(_list_to_string), -} - - -SCRAPERS: dict[str, Callable[..., NamesRegistry]] = {} -for decorator in [google_doc, url, plain_text]: - SCRAPERS[decorator.__name__] = decorator(_scrape_stream) - - -_VALID_INTENTS = ["input", "output"] - - -def _find_unique_names(models: Iterable[dict[str, Any]]) -> NamesRegistry: - """Find unique names in a iterable of StandardNames. - - Parameters - ---------- - models : dict - Dictionary of model information - - Returns - ------- - NamesRegistry - A collection of unique names. - """ - names = NamesRegistry() - for model in models: - if isinstance(model["exchange items"], dict): - new_names = [] - for intent in model["exchange items"]: - if intent not in _VALID_INTENTS: - raise ValueError(f"{intent}: Bad intent") - new_names.extend(model["exchange items"][intent]) - else: - new_names = model["exchange items"] - - for new_name in new_names: - names.add(new_name) - - return names - - -def from_model_file(stream: TextIO) -> NamesRegistry: - """Read names from a model file. - - Get standard names from a YAML file listing standard names for particular - models and produce the corresponding NamesRegistry. - - Parameters - ---------- - stream : file_like - YAML stream. - - Returns - ------- - NamesRegistry - A collection of names for the model file. - """ - import yaml - - models = yaml.safe_load_all(stream) - names = _find_unique_names(models) - return names - - -def from_list_file(stream: TextIO) -> NamesRegistry: - """Read names from a text file. - - Parameters - ---------- - stream : file_like - Source from which to read names (requires only a ``readline`` method). - - Returns - ------- - NamesRegistry - A collection of names read from the source. - - Examples - -------- - >>> from standard_names.utilities.io import from_list_file - >>> from io import StringIO - - >>> stream = StringIO(''' - ... air__temperature - ... # A comment - ... water__temperature # Another comment - ... ''') - >>> names = from_list_file(stream) - >>> sorted(names.names) - ['air__temperature', 'water__temperature'] - """ - names = NamesRegistry() - for line in stream: - if "#" in line: - line = line[: line.find("#")] - line = line.strip() - if line: - names.add(line) - return names - - -def scrape(source: str, **kwargs: Any) -> NamesRegistry: - """Scrape standard names for a named source. - - Parameters - ---------- - source : str - Name of the source. - format: str, optional - The format of the source. Valid values are given by the keys - of the ``SCRAPERS` global. Currently this is ``google_doc``, - ``url``, and ``plain_text`` (default is ``url``). - - Returns - ------- - NamesRegistry - A collection of names read from the source. - """ - source_format = kwargs.pop("format", "url") - if not isinstance(source_format, str): - raise ValueError("source_format keyword must be of type str") - - return SCRAPERS[source_format](source, **kwargs) diff --git a/tests/io_test.py b/tests/io_test.py deleted file mode 100644 index a545132..0000000 --- a/tests/io_test.py +++ /dev/null @@ -1,77 +0,0 @@ -#!/usr/bin/env python -"""Unit tests for standard_names.io module.""" -from io import StringIO - -from standard_names.utilities.io import from_model_file - -_SINGLE_MODEL_FILE_STREAM = StringIO( - """ -%YAML 1.2 ---- -model name: topoflow -exchange items: - - air__density - - air__emissivity -...""" -) - -_MULTIPLE_MODEL_FILE_STREAM = StringIO( - """ -%YAML 1.2 ---- -model name: topoflow -exchange items: - - air__density - - air__emissivity ---- -model name: sedflux -exchange items: - - air__density - - water__temperature -...""" -) - -_SINGLE_MODEL_FILE_STREAM_WITH_INTENT = StringIO( - """ -%YAML 1.2 ---- -model name: topoflow -exchange items: - input: - - air__density - output: - - air__density - - air__emissivity -...""" -) - - -def test_from_model_file(): - """Read from a YAML model file that contains one model.""" - names = from_model_file(_SINGLE_MODEL_FILE_STREAM) - - assert "air__density" in names - assert "air__emissivity" in names - assert len(names) == 2 - - -def test_from_multiple_model_file(): - """Read from a YAML model file that contains multiple models.""" - names = from_model_file(_MULTIPLE_MODEL_FILE_STREAM) - - assert "air__density" in names - assert "air__emissivity" in names - assert "water__temperature" in names - assert len(names) == 3 - - -def test_from_model_file_with_intent(): - """ - Read from a YAML model file that contains one model but that indicates - intent of variables. - """ - names = from_model_file(_SINGLE_MODEL_FILE_STREAM_WITH_INTENT) - - assert "air__density" in names - assert "air__emissivity" in names - assert len(names) == 2 diff --git a/tests/namesregistry_test.py b/tests/namesregistry_test.py index 05f423e..a8063af 100644 --- a/tests/namesregistry_test.py +++ b/tests/namesregistry_test.py @@ -52,27 +52,26 @@ def test_create_with_file_like(): file_like = StringIO("air__temperature") names = NamesRegistry(file_like) - assert names.names == ("air__temperature",) + assert names.names == {"air__temperature"} file_like = StringIO("air__temperature") another_file_like = StringIO("water__temperature") - # names = NamesRegistry([file_like, another_file_like]) names = NamesRegistry(chain(file_like, another_file_like)) - assert isinstance(names.names, tuple) - assert sorted(names.names) == ["air__temperature", "water__temperature"] + assert isinstance(names.names, frozenset) + assert names.names == {"air__temperature", "water__temperature"} def test_create_with_from_path(tmpdir): """Test creating registry with from_path.""" file_like = StringIO("air__temperature") names = NamesRegistry(file_like) - assert names.names == ("air__temperature",) + assert names.names == {"air__temperature"} with tmpdir.as_cwd(): with open("names.txt", "w") as fp: fp.write("air__temperature") names = NamesRegistry.from_path("names.txt") - assert names.names == ("air__temperature",) + assert names.names == {"air__temperature"} def test_bad_name(): @@ -147,7 +146,7 @@ def test_unique_quantities(): quantities = nreg.quantities - assert quantities == ("temperature",) + assert quantities == {"temperature"} def test_unique_operators():