From 66e5ad2c68ae45e5863f65d4a8ea667c3f604be6 Mon Sep 17 00:00:00 2001 From: Stefano Piani Date: Thu, 18 Jun 2026 15:01:33 +0200 Subject: [PATCH] Added method "show" to medunda main script --- poetry.lock | 1297 +++++++++++---------- pyproject.toml | 1 + src/medunda/__main__.py | 134 +++ src/medunda/providers/cmems.py | 19 + src/medunda/providers/local_reanalysis.py | 9 + src/medunda/providers/provider.py | 11 + src/medunda/providers/tar_archive.py | 10 + 7 files changed, 833 insertions(+), 648 deletions(-) diff --git a/poetry.lock b/poetry.lock index c002646..82962ae 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 2.2.1 and should not be changed by hand. +# This file is automatically @generated by Poetry 2.3.2 and should not be changed by hand. 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["pytest-enabler (>=3.4)"] test = ["big-O", "jaraco.functools", "jaraco.itertools", "jaraco.test", "more_itertools", "pytest (>=6,!=8.1.*)", "pytest-ignore-flaky"] -type = ["pytest-mypy"] +type = ["pytest-mypy (>=1.0.1) ; platform_python_implementation != \"PyPy\""] [metadata] lock-version = "2.1" python-versions = ">=3.11,<4.0" -content-hash = "b565171814c85ab22a72709695271c284d9108cc9be495317903d74e4bd7edea" +content-hash = "05a30edc4ff8c6f1639f6361ce4982b9a658b73337f8864aeb0461adc2c0cbba" diff --git a/pyproject.toml b/pyproject.toml index f1bd316..b5d0f77 100644 --- a/pyproject.toml +++ b/pyproject.toml @@ -22,6 +22,7 @@ dependencies = [ "cmocean (>=4.0.3,<5.0.0)", "pyyaml (>=6.0.3,<7.0.0)", "bitsea @ git+https://github.com/inogs/bit.sea.git", + "tabulate (>=0.10.0,<1.0.0)", ] [tool.poetry.group.dev.dependencies] diff --git a/src/medunda/__main__.py b/src/medunda/__main__.py index b09702b..db6eb94 100644 --- a/src/medunda/__main__.py +++ b/src/medunda/__main__.py @@ -1,11 +1,19 @@ import argparse import logging +from pathlib import Path +from shutil import get_terminal_size from sys import exit as sys_exit +import tabulate + +from medunda.components.frequencies import Frequency +from medunda.components.variables import VariableDataset from medunda.downloader import configure_parser as downloader_config_parser from medunda.downloader import downloader from medunda.plotter import configure_parser as plotter_config_parser from medunda.plotter import plotter +from medunda.providers import PROVIDERS +from medunda.providers import get_provider from medunda.reducer import build_action_args from medunda.reducer import configure_parser as reducer_config_parser from medunda.reducer import reducer @@ -41,6 +49,81 @@ def parse_args() -> argparse.Namespace: help="Plot data from a Medunda dataset", ) + show_subparser = subparsers.add_parser( + "show", + help="Show the variables or the providers available in this version of Medunda", + ) + + show_subsubparsers = show_subparser.add_subparsers( + title="what", required=True, dest="what", help="Choose what to show" + ) + + show_variables_subparser = show_subsubparsers.add_parser( + "variables", + help="Show the variables available in this version of Medunda", + ) + + show_variables_subparser.add_argument( + "--format", + type=str, + required=False, + default="fancy_grid", + help="The format to use when showing the variables. " + "It can be any format supported by the tabulate library. " + "The default is 'fancy_grid'; other common options are " + "'plain', 'simple', 'grid', 'rst', 'latex', and 'html'. " + "Others can be found in the tabulate documentation.", + ) + + show_variables_subparser.add_argument( + "--provider", + type=str, + required=False, + choices=sorted(list(PROVIDERS.keys())), + default=None, + help="The provider to filter the variables by. If not " + "specified, all variables will be shown.", + ) + + show_variables_subparser.add_argument( + "--provider-config", + type=Path, + required=False, + default=None, + help="If the provider requires a configuration file, this " + "argument can be used to specify the path to that file. If no " + "provider is specified, this argument will be ignored.", + ) + + show_variables_subparser.add_argument( + "--frequency", + type=Frequency, + choices=list(Frequency), + required=False, + default=None, + help="If a provider is specified, this argument can be used to filter the " + "variables by frequency; in other words, only the variables that the " + "provider supports at the specified frequency will be shown. " + "If no provider is specified, this argument will be ignored.", + ) + + show_providers_subparser = show_subsubparsers.add_parser( + "providers", + help="Show the providers available in this version of Medunda", + ) + + show_providers_subparser.add_argument( + "--format", + type=str, + required=False, + default="fancy_grid", + help="The format to use when showing the providers. " + "It can be any format supported by the tabulate library. " + "The default is 'fancy_grid'; other common options are " + "'plain', 'simple', 'grid', 'rst', 'latex', and 'html'. " + "Others can be found in the tabulate documentation.", + ) + downloader_config_parser(subparsers.choices["downloader"]) reducer_config_parser(subparsers.choices["reducer"]) plotter_config_parser(subparsers.choices["plotter"]) @@ -71,6 +154,57 @@ def main(): mode=args.mode, args=args, ) + elif args.tool == "show": + if args.what == "variables": + if args.provider is None: + variables = VariableDataset.all_variables() + else: + provider = get_provider(args.provider).create( + config_file=args.provider_config + ) + if args.frequency is not None: + variables = provider.available_variables( + frequency=args.frequency + ) + else: + variables = VariableDataset() + for f in Frequency: + f_variables = provider.available_variables(frequency=f) + for v in f_variables: + variables.add_variable(v) + + table = [[var.name, var.get_label()] for var in variables] + table.sort(key=lambda x: x[0]) + table_str = tabulate.tabulate( + table, + headers=["Variable", "Description"], + tablefmt=args.format, + ) + print(table_str) + elif args.what == "providers": + table = [] + for provider_name, provider_class in PROVIDERS.items(): + description = provider_class.get_description() + table.append([provider_name, description]) + table.sort(key=lambda x: x[0]) + + column_width = get_terminal_size(fallback=(70, 20)).columns + first_column_width = max(len(row[0]) for row in table) + 5 + second_column_width = max( + 20, column_width - first_column_width - 5 + ) + + table_str = tabulate.tabulate( + table, + headers=["Provider", "Description"], + tablefmt=args.format, + maxcolwidths=[None, second_column_width], + ) + + print(table_str) + else: + LOGGER.error(f"Unknown tool: {args.tool}") + return 1 if __name__ == "__main__": diff --git a/src/medunda/providers/cmems.py b/src/medunda/providers/cmems.py index 789fdf5..f958a2b 100644 --- a/src/medunda/providers/cmems.py +++ b/src/medunda/providers/cmems.py @@ -254,6 +254,16 @@ class CMEMSProviderMed(CMEMSProvider): def get_name(cls) -> str: return "cmems_mediterranean" + @classmethod + def get_description(cls) -> str: + return ( + "Provider that provides physical and biogeochemical data for " + "the Mediterranean Sea from the Copernicus Marine Data Store. " + "The physical data is available from the " + "MEDSEA_MULTIYEAR_PHY_006_004 product, while the biogeochemical " + "data is available from the MEDSEA_MULTIYEAR_BGC_006_008 product." + ) + class CMEMSProviderGlobal(CMEMSProvider): PRODUCTS = GLOBAL_PRODUCTS @@ -261,3 +271,12 @@ class CMEMSProviderGlobal(CMEMSProvider): @classmethod def get_name(cls) -> str: return "cmems_global" + + @classmethod + def get_description(cls) -> str: + return ( + "Provider that provides physical data for the overall global ocean " + "from the Copernicus Marine Data Store. " + "The physical data is downloaded from the " + "GLOBAL_MULTIYEAR_PHY_001_030 product." + ) diff --git a/src/medunda/providers/local_reanalysis.py b/src/medunda/providers/local_reanalysis.py index e40c78d..af1e285 100644 --- a/src/medunda/providers/local_reanalysis.py +++ b/src/medunda/providers/local_reanalysis.py @@ -476,3 +476,12 @@ def create(cls, config_file: Path | None = None) -> "Provider": start_time=config_content.get("start_time", None), end_time=config_content.get("end_time", None), ) + + @classmethod + def get_description(cls) -> str: + return ( + "Local reanalysis provider that retrieves data from a local " + "directory structure. The directory structure is defined in a " + "YAML configuration file that specifies the available variables, " + "their units, and the paths to the data files for each frequency." + ) diff --git a/src/medunda/providers/provider.py b/src/medunda/providers/provider.py index 71b1c01..cdad85e 100644 --- a/src/medunda/providers/provider.py +++ b/src/medunda/providers/provider.py @@ -95,3 +95,14 @@ def available_variables(self, frequency: Frequency) -> VariableDataset: A `VariableDataset` containing all available variables """ return VariableDataset.all_variables() + + @classmethod + @abstractmethod + def get_description(cls) -> str: + """ + Returns a description of this provider + + Returns: + A string describing this provider + """ + raise NotImplementedError diff --git a/src/medunda/providers/tar_archive.py b/src/medunda/providers/tar_archive.py index c185576..4c75ac8 100644 --- a/src/medunda/providers/tar_archive.py +++ b/src/medunda/providers/tar_archive.py @@ -855,3 +855,13 @@ def create(cls, config_file: Path | None = None) -> "Provider": start_time=config_content.get("start_time", None), end_time=config_content.get("end_time", None), ) + + @classmethod + def get_description(cls) -> str: + return ( + "Tar archive provider that retrieves data from tar archives. " + "The tar archives are expected to contain netCDF files with a " + "specific naming convention. The provider uses a YAML configuration " + "file to define the available variables, their units, and the paths " + "to the tar archives for each frequency." + )