diff --git a/.flake8 b/.flake8 index e8d3e7fc..24340a08 100644 --- a/.flake8 +++ b/.flake8 @@ -1,7 +1,7 @@ [flake8] max-line-length = 100 max-doc-length = 100 -extend-ignore = E203 +extend-ignore = E203,B028 exclude = .git, .venv, diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index 7661c2b2..c30aeba4 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -37,6 +37,7 @@ repos: rev: v0.991 hooks: - id: mypy + additional_dependencies: ["types-requests"] - repo: https://github.com/pdm-project/pdm rev: 2.4.3 hooks: diff --git a/CHANGELOG.md b/CHANGELOG.md index 6f3642ad..5921e55f 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -7,6 +7,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ## [Unreleased] - 2022-MM-DD ### Added +- GTFS Loader from gtfs2vec paper ### Changed - Change embedders and joiners interface to have `.transform` method diff --git a/examples/loaders/README.md b/examples/loaders/README.md index 59ed80d2..014b3ec8 100644 --- a/examples/loaders/README.md +++ b/examples/loaders/README.md @@ -3,3 +3,4 @@ Examples illustrating the usage of every Loader. - [GeoparquetLoader](geoparquet_loader.ipynb) +- [GTFSLoader](gtfs_loader.ipynb) diff --git a/examples/loaders/files/.gitignore b/examples/loaders/files/.gitignore new file mode 100644 index 00000000..74e39351 --- /dev/null +++ b/examples/loaders/files/.gitignore @@ -0,0 +1,2 @@ +# example GTFS used in notebook +example.zip diff --git a/examples/loaders/gtfs_loader.ipynb b/examples/loaders/gtfs_loader.ipynb new file mode 100644 index 00000000..0b9cc614 --- /dev/null +++ b/examples/loaders/gtfs_loader.ipynb @@ -0,0 +1,127 @@ +{ + "cells": [ + { + "attachments": {}, + "cell_type": "markdown", + "metadata": {}, + "source": [ + "# GTFS Loader Example" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "from pathlib import Path\n", + "from srai.loaders import GTFSLoader\n", + "import gtfs_kit as gk\n", + "import geopandas as gpd\n", + "import numpy as np\n", + "from shapely.geometry import Point\n", + "from srai.utils.constants import WGS84_CRS\n", + "from utils import download" + ] + }, + { + "attachments": {}, + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Download an example GTFS feed from Wroclaw, Poland\n", + "\n", + "In this notebook we use the GTFS feed for Wroclaw, Poland as an example, which is available in Wroclaw's open data repository[1]. This download uses transitfeeds.com[2] to download the feed, but you can also download the feed directly from the Wroclaw open data repository.\n", + "\n", + "1. https://www.wroclaw.pl/open-data/dataset/rozkladjazdytransportupublicznegoplik_data\n", + "2. https://transitfeeds.com/p/mpk-wroc-aw/663" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "wroclaw_gtfs = Path().resolve() / \"files\" / \"example.zip\"\n", + "gtfs_url = \"https://transitfeeds.com/p/mpk-wroc-aw/663/20221221/download\"\n", + "\n", + "download(gtfs_url, wroclaw_gtfs.as_posix())" + ] + }, + { + "attachments": {}, + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Peek at the feed using `gtfs_kit` directly" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "feed = gk.read_feed(wroclaw_gtfs, dist_units=\"km\")\n", + "\n", + "stops_df = feed.stops[[\"stop_id\", \"stop_lat\", \"stop_lon\"]].set_index(\"stop_id\")\n", + "stops_df[\"geometry\"] = stops_df.apply(lambda row: Point(row[\"stop_lon\"], row[\"stop_lat\"]), axis=1)\n", + "\n", + "stops_gdf = gpd.GeoDataFrame(\n", + " stops_df,\n", + " geometry=\"geometry\",\n", + " crs=WGS84_CRS,\n", + ")\n", + "\n", + "stops_gdf.plot(markersize=1)" + ] + }, + { + "attachments": {}, + "cell_type": "markdown", + "metadata": {}, + "source": [ + "## Use GTFSLoader to load stops statistics from the feed" + ] + }, + { + "cell_type": "code", + "execution_count": null, + "metadata": {}, + "outputs": [], + "source": [ + "gtfs_loader = GTFSLoader()\n", + "trips_gdf = gtfs_loader.load(wroclaw_gtfs)\n", + "\n", + "print(trips_gdf.columns)" + ] + } + ], + "metadata": { + "kernelspec": { + "display_name": ".venv", + "language": "python", + "name": "python3" + }, + "language_info": { + "codemirror_mode": { + "name": "ipython", + "version": 3 + }, + "file_extension": ".py", + "mimetype": "text/x-python", + "name": "python", + "nbconvert_exporter": "python", + "pygments_lexer": "ipython3", + "version": "3.8.14" + }, + "vscode": { + "interpreter": { + "hash": "f39c7279c85c8be5d827e53eddb5011e966102d239fe8b81ca4bd9f0123eda8f" + } + } + }, + "nbformat": 4, + "nbformat_minor": 2 +} diff --git a/examples/loaders/utils.py b/examples/loaders/utils.py new file mode 100644 index 00000000..3585b1e7 --- /dev/null +++ b/examples/loaders/utils.py @@ -0,0 +1,28 @@ +"""Utility functions for loaders examples.""" +import requests +from tqdm import tqdm + + +def download(url: str, fname: str, chunk_size: int = 1024) -> None: + """ + Download a file with progress bar. + + Args: + url (str): URL to download. + fname (str): File name. + chunk_size (str): Chunk size. + + Source: https://gist.github.com/yanqd0/c13ed29e29432e3cf3e7c38467f42f51 + """ + resp = requests.get(url, stream=True) + total = int(resp.headers.get("content-length", 0)) + with open(fname, "wb") as file, tqdm( + desc=fname.split("/")[-1], + total=total, + unit="iB", + unit_scale=True, + unit_divisor=1024, + ) as bar: + for data in resp.iter_content(chunk_size=chunk_size): + size = file.write(data) + bar.update(size) diff --git a/pdm.lock b/pdm.lock index 40b20baa..48225b04 100644 --- a/pdm.lock +++ b/pdm.lock @@ -1,3 +1,6 @@ +# This file is @generated by PDM. +# It is not intended for manual editing. + [[package]] name = "anyio" version = "3.6.2" @@ -42,7 +45,7 @@ dependencies = [ [[package]] name = "astropy" -version = "5.2" +version = "5.2.1" requires_python = ">=3.8" summary = "Astronomy and astrophysics core library" dependencies = [ @@ -73,7 +76,7 @@ summary = "Specifications for callback functions passed in to an API" [[package]] name = "beautifulsoup4" -version = "4.11.1" +version = "4.11.2" requires_python = ">=3.6.0" summary = "Screen-scraping library" dependencies = [ @@ -82,33 +85,34 @@ dependencies = [ [[package]] name = "black" -version = "22.12.0" +version = "23.1.0" requires_python = ">=3.7" summary = "The uncompromising code formatter." dependencies = [ "click>=8.0.0", "mypy-extensions>=0.4.3", + "packaging>=22.0", "pathspec>=0.9.0", "platformdirs>=2", - "tomli>=1.1.0; python_full_version < \"3.11.0a7\"", + "tomli>=1.1.0; python_version < \"3.11\"", "typing-extensions>=3.10.0.0; python_version < \"3.10\"", ] [[package]] name = "black" -version = "22.12.0" +version = "23.1.0" extras = ["jupyter"] requires_python = ">=3.7" summary = "The uncompromising code formatter." dependencies = [ - "black==22.12.0", + "black==23.1.0", "ipython>=7.8.0", "tokenize-rt>=3.2.0", ] [[package]] name = "bleach" -version = "5.0.1" +version = "6.0.0" requires_python = ">=3.7" summary = "An easy safelist-based HTML-sanitizing tool." dependencies = [ @@ -122,6 +126,15 @@ version = "2.3.post1" requires_python = ">=3.7" summary = "Bash style brace expander." +[[package]] +name = "branca" +version = "0.6.0" +requires_python = ">=3.7" +summary = "Generate complex HTML+JS pages with Python" +dependencies = [ + "jinja2", +] + [[package]] name = "bumpver" version = "2022.1120" @@ -138,7 +151,7 @@ dependencies = [ [[package]] name = "cachetools" -version = "5.2.0" +version = "5.3.0" requires_python = "~=3.7" summary = "Extensible memoizing collections and decorators" @@ -202,7 +215,7 @@ dependencies = [ [[package]] name = "cloudpickle" -version = "2.2.0" +version = "2.2.1" requires_python = ">=3.6" summary = "Extended pickling support for Python objects" @@ -228,8 +241,8 @@ summary = "Python parser for the CommonMark Markdown spec" [[package]] name = "contourpy" -version = "1.0.6" -requires_python = ">=3.7" +version = "1.0.7" +requires_python = ">=3.8" summary = "Python library for calculating contours of 2D quadrilateral grids" dependencies = [ "numpy>=1.16", @@ -243,7 +256,7 @@ summary = "Composable style cycles" [[package]] name = "debugpy" -version = "1.6.4" +version = "1.6.6" requires_python = ">=3.7" summary = "An implementation of the Debug Adapter Protocol for Python" @@ -304,7 +317,7 @@ summary = "Discover and load entry points from installed packages." [[package]] name = "exceptiongroup" -version = "1.0.4" +version = "1.1.0" requires_python = ">=3.7" summary = "Backport of PEP 654 (exception groups)" @@ -330,23 +343,22 @@ dependencies = [ [[package]] name = "filelock" -version = "3.8.2" +version = "3.9.0" requires_python = ">=3.7" summary = "A platform independent file lock." [[package]] name = "fiona" -version = "1.8.22" +version = "1.9.0" +requires_python = ">=3.7" summary = "Fiona reads and writes spatial data files" dependencies = [ - "attrs>=17", + "attrs>=19.2.0", "certifi", "click-plugins>=1.0", - "click>=4.0", + "click~=8.0", "cligj>=0.5", - "munch", - "setuptools", - "six>=1.7", + "munch>=2.3.2", ] [[package]] @@ -362,13 +374,26 @@ dependencies = [ [[package]] name = "flake8-docstrings" -version = "1.6.0" +version = "1.7.0" +requires_python = ">=3.7" summary = "Extension for flake8 which uses pydocstyle to check docstrings" dependencies = [ "flake8>=3", "pydocstyle>=2.1", ] +[[package]] +name = "folium" +version = "0.14.0" +requires_python = ">=3.5" +summary = "Make beautiful maps with Leaflet.js & Python" +dependencies = [ + "branca>=0.6.0", + "jinja2>=2.9", + "numpy", + "requests", +] + [[package]] name = "fonttools" version = "4.38.0" @@ -383,7 +408,7 @@ summary = "Validates fully-qualified domain names against RFC 1123, so that they [[package]] name = "future" -version = "0.18.2" +version = "0.18.3" requires_python = ">=2.6, !=3.0.*, !=3.1.*, !=3.2.*" summary = "Clean single-source support for Python 3 and 2" @@ -420,13 +445,30 @@ dependencies = [ [[package]] name = "griffe" -version = "0.25.1" +version = "0.25.4" requires_python = ">=3.7" summary = "Signatures for entire Python programs. Extract the structure, the frame, the skeleton of your project, to generate API documentation or find breaking changes in your API." dependencies = [ "colorama>=0.4", ] +[[package]] +name = "gtfs-kit" +version = "5.2.3" +requires_python = ">=3.8,<4" +summary = "A Python 3.8+ library for analyzing GTFS feeds." +dependencies = [ + "folium>=0", + "geopandas>=0", + "json2html>=1", + "pandas>=1", + "pycountry>=19", + "requests>=2", + "rtree>=0", + "shapely>=1", + "utm>=0", +] + [[package]] name = "h3" version = "4.0.0b2" @@ -440,7 +482,7 @@ summary = "Calculate the distance between 2 points on Earth." [[package]] name = "identify" -version = "2.5.11" +version = "2.5.17" requires_python = ">=3.7" summary = "File identification library for Python" @@ -452,7 +494,7 @@ summary = "Internationalized Domain Names in Applications (IDNA)" [[package]] name = "importlib-metadata" -version = "5.2.0" +version = "6.0.0" requires_python = ">=3.7" summary = "Read metadata from Python packages" dependencies = [ @@ -461,7 +503,7 @@ dependencies = [ [[package]] name = "importlib-resources" -version = "5.10.1" +version = "5.10.2" requires_python = ">=3.7" summary = "Read resources from Python packages" dependencies = [ @@ -470,20 +512,22 @@ dependencies = [ [[package]] name = "iniconfig" -version = "1.1.1" -summary = "iniconfig: brain-dead simple config-ini parsing" +version = "2.0.0" +requires_python = ">=3.7" +summary = "brain-dead simple config-ini parsing" [[package]] name = "ipykernel" -version = "6.19.4" +version = "6.21.1" requires_python = ">=3.8" summary = "IPython Kernel for Jupyter" dependencies = [ "appnope; platform_system == \"Darwin\"", "comm>=0.1.1", - "debugpy>=1.0", + "debugpy>=1.6.5", "ipython>=7.23.1", "jupyter-client>=6.1.12", + "jupyter-core!=5.0.*,>=4.12", "matplotlib-inline>=0.1", "nest-asyncio", "packaging", @@ -495,7 +539,7 @@ dependencies = [ [[package]] name = "ipython" -version = "8.7.0" +version = "8.9.0" requires_python = ">=3.8" summary = "IPython: Productive Interactive Computing" dependencies = [ @@ -507,7 +551,7 @@ dependencies = [ "matplotlib-inline", "pexpect>4.3; sys_platform != \"win32\"", "pickleshare", - "prompt-toolkit<3.1.0,>=3.0.11", + "prompt-toolkit<3.1.0,>=3.0.30", "pygments>=2.4.0", "stack-data", "traitlets>=5", @@ -520,7 +564,7 @@ summary = "Vestigial utilities from IPython" [[package]] name = "ipywidgets" -version = "7.7.2" +version = "7.7.3" summary = "IPython HTML widgets for Jupyter" dependencies = [ "ipykernel>=4.5.1", @@ -542,8 +586,8 @@ dependencies = [ [[package]] name = "isort" -version = "5.11.4" -requires_python = ">=3.7.0" +version = "5.12.0" +requires_python = ">=3.8.0" summary = "A Python utility / library to sort Python imports." [[package]] @@ -573,6 +617,11 @@ dependencies = [ "six>=1.13.0", ] +[[package]] +name = "json2html" +version = "1.3.0" +summary = "JSON to HTML Table Representation" + [[package]] name = "jsonpointer" version = "2.3" @@ -611,22 +660,21 @@ dependencies = [ [[package]] name = "jupyter-client" -version = "7.4.8" -requires_python = ">=3.7" +version = "8.0.2" +requires_python = ">=3.8" summary = "Jupyter protocol implementation and client libraries" dependencies = [ - "entrypoints", - "jupyter-core>=4.9.2", - "nest-asyncio>=1.5.4", + "importlib-metadata>=4.8.3; python_version < \"3.10\"", + "jupyter-core!=5.0.*,>=4.12", "python-dateutil>=2.8.2", "pyzmq>=23.0", "tornado>=6.2", - "traitlets", + "traitlets>=5.3", ] [[package]] name = "jupyter-core" -version = "5.1.0" +version = "5.2.0" requires_python = ">=3.8" summary = "Jupyter core package. A base package on which Jupyter projects rely." dependencies = [ @@ -637,23 +685,25 @@ dependencies = [ [[package]] name = "jupyter-events" -version = "0.5.0" +version = "0.6.3" requires_python = ">=3.7" summary = "Jupyter Event System library" dependencies = [ - "jsonschema[format-nongpl]>=4.3.0", - "python-json-logger", - "pyyaml", - "traitlets", + "jsonschema[format-nongpl]>=3.2.0", + "python-json-logger>=2.0.4", + "pyyaml>=5.3", + "rfc3339-validator", + "rfc3986-validator>=0.1.1", + "traitlets>=5.3", ] [[package]] name = "jupyter-server" -version = "2.0.4" +version = "2.2.1" requires_python = ">=3.8" summary = "The backend—i.e. core services, APIs, and REST endpoints—to Jupyter web applications." dependencies = [ - "anyio<4,>=3.1.0", + "anyio>=3.1.0", "argon2-cffi", "jinja2", "jupyter-client>=7.4.4", @@ -675,7 +725,7 @@ dependencies = [ [[package]] name = "jupyter-server-terminals" -version = "0.4.3" +version = "0.4.4" requires_python = ">=3.8" summary = "A Jupyter Server Extension Providing Terminals." dependencies = [ @@ -691,7 +741,7 @@ summary = "Pygments theme using JupyterLab CSS variables" [[package]] name = "jupyterlab-widgets" -version = "1.1.1" +version = "1.1.2" requires_python = ">=3.6" summary = "A JupyterLab extension." @@ -777,13 +827,13 @@ dependencies = [ [[package]] name = "markupsafe" -version = "2.1.1" +version = "2.1.2" requires_python = ">=3.7" summary = "Safely add untrusted strings to HTML/XML markup." [[package]] name = "matplotlib" -version = "3.6.2" +version = "3.6.3" requires_python = ">=3.8" summary = "Python plotting package" dependencies = [ @@ -951,7 +1001,7 @@ dependencies = [ [[package]] name = "mkdocstrings" -version = "0.19.1" +version = "0.20.0" requires_python = ">=3.7" summary = "Automatic documentation from sources, for MkDocs." dependencies = [ @@ -965,7 +1015,7 @@ dependencies = [ [[package]] name = "mkdocstrings-python" -version = "0.8.2" +version = "0.8.3" requires_python = ">=3.7" summary = "A Python handler for mkdocstrings." dependencies = [ @@ -975,13 +1025,13 @@ dependencies = [ [[package]] name = "mkdocstrings" -version = "0.19.1" +version = "0.20.0" extras = ["python"] requires_python = ">=3.7" summary = "Automatic documentation from sources, for MkDocs." dependencies = [ "mkdocstrings-python>=0.5.2", - "mkdocstrings==0.19.1", + "mkdocstrings==0.20.0", ] [[package]] @@ -1005,8 +1055,9 @@ dependencies = [ [[package]] name = "mypy-extensions" -version = "0.4.3" -summary = "Experimental type system extensions for programs checked with the mypy typechecker." +version = "1.0.0" +requires_python = ">=3.5" +summary = "Type system extensions for programs checked with the mypy type checker." [[package]] name = "natsort" @@ -1016,9 +1067,9 @@ summary = "Simple yet flexible natural sorting in Python." [[package]] name = "nbclassic" -version = "0.4.8" +version = "0.5.1" requires_python = ">=3.7" -summary = "A web-based notebook environment for interactive computing" +summary = "Jupyter Notebook as a Jupyter Server extension." dependencies = [ "Send2Trash>=1.8.0", "argon2-cffi", @@ -1027,6 +1078,7 @@ dependencies = [ "jinja2", "jupyter-client>=6.1.1", "jupyter-core>=4.6.1", + "jupyter-server>=1.17.0", "jupyter-server>=1.8", "nbconvert>=5", "nbformat", @@ -1078,7 +1130,7 @@ dependencies = [ [[package]] name = "nbformat" -version = "5.7.1" +version = "5.7.3" requires_python = ">=3.7" summary = "The Jupyter Notebook format" dependencies = [ @@ -1096,7 +1148,7 @@ summary = "Patch asyncio to allow nested event loops" [[package]] name = "networkx" -version = "2.8.8" +version = "3.0" requires_python = ">=3.8" summary = "Python package for creating and manipulating graphs and networks" @@ -1144,13 +1196,13 @@ dependencies = [ [[package]] name = "numpy" -version = "1.24.0" +version = "1.24.2" requires_python = ">=3.8" summary = "Fundamental package for array computing in Python" [[package]] name = "osmium" -version = "3.5.0" +version = "3.6.0" requires_python = ">=3.6" summary = "Python bindings for libosmium, the data processing library for OSM data" dependencies = [ @@ -1174,6 +1226,21 @@ dependencies = [ "requests>=2.28", ] +[[package]] +name = "osmpythontools" +version = "0.3.5" +summary = "A library to access OpenStreetMap related services" +dependencies = [ + "beautifulsoup4", + "geojson", + "lxml", + "matplotlib", + "numpy", + "pandas", + "ujson", + "xarray", +] + [[package]] name = "overpass" version = "0.7" @@ -1186,13 +1253,13 @@ dependencies = [ [[package]] name = "packaging" -version = "22.0" +version = "23.0" requires_python = ">=3.7" summary = "Core utilities for Python packages" [[package]] name = "pandas" -version = "1.5.2" +version = "1.5.3" requires_python = ">=3.8" summary = "Powerful data structures for data analysis, time series, and statistics" dependencies = [ @@ -1225,7 +1292,7 @@ dependencies = [ [[package]] name = "pathspec" -version = "0.10.3" +version = "0.11.0" requires_python = ">=3.7" summary = "Utility library for gitignore style pattern matching of file paths." @@ -1244,7 +1311,7 @@ summary = "Tiny 'shelve'-like database with concurrency support" [[package]] name = "pillow" -version = "9.3.0" +version = "9.4.0" requires_python = ">=3.7" summary = "Python Imaging Library (Fork)" @@ -1256,13 +1323,13 @@ summary = "Resolve a name to an object." [[package]] name = "platformdirs" -version = "2.6.0" +version = "3.0.0" requires_python = ">=3.7" summary = "A small Python package for determining appropriate platform-specific dirs, e.g. a \"user data dir\"." [[package]] name = "plotly" -version = "5.11.0" +version = "5.13.0" requires_python = ">=3.6" summary = "An open-source, interactive data visualization library for Python" dependencies = [ @@ -1277,7 +1344,7 @@ summary = "plugin and hook calling mechanisms for python" [[package]] name = "pre-commit" -version = "2.20.0" +version = "2.21.0" requires_python = ">=3.7" summary = "A framework for managing and maintaining multi-language pre-commit hooks." dependencies = [ @@ -1285,13 +1352,12 @@ dependencies = [ "identify>=1.0.0", "nodeenv>=0.11.1", "pyyaml>=5.1", - "toml", - "virtualenv>=20.0.8", + "virtualenv>=20.10.0", ] [[package]] name = "prometheus-client" -version = "0.15.0" +version = "0.16.0" requires_python = ">=3.6" summary = "Python client for the Prometheus monitoring system." @@ -1320,15 +1386,9 @@ name = "pure-eval" version = "0.2.2" summary = "Safely evaluate AST nodes without side effects" -[[package]] -name = "py" -version = "1.11.0" -requires_python = ">=2.7, !=3.0.*, !=3.1.*, !=3.2.*, !=3.3.*, !=3.4.*" -summary = "library with cross-python path, ini-parsing, io, code, log facilities" - [[package]] name = "pyarrow" -version = "10.0.1" +version = "11.0.0" requires_python = ">=3.7" summary = "Python library for Apache Arrow" dependencies = [ @@ -1341,6 +1401,15 @@ version = "2.9.1" requires_python = ">=3.6" summary = "Python style guide checker" +[[package]] +name = "pycountry" +version = "22.3.5" +requires_python = ">=3.6, <4" +summary = "ISO country, subdivision, language, currency and script definitions and their translations" +dependencies = [ + "setuptools", +] + [[package]] name = "pycparser" version = "2.21" @@ -1349,22 +1418,22 @@ summary = "C parser in Python" [[package]] name = "pydocstyle" -version = "6.1.1" +version = "6.3.0" requires_python = ">=3.6" summary = "Python docstring style checker" dependencies = [ - "snowballstemmer", + "snowballstemmer>=2.2.0", ] [[package]] name = "pydocstyle" -version = "6.1.1" +version = "6.3.0" extras = ["toml"] requires_python = ">=3.6" summary = "Python docstring style checker" dependencies = [ - "pydocstyle==6.1.1", - "toml", + "pydocstyle==6.3.0", + "tomli>=1.2.3; python_version < \"3.11\"", ] [[package]] @@ -1394,7 +1463,7 @@ dependencies = [ [[package]] name = "pygments" -version = "2.13.0" +version = "2.14.0" requires_python = ">=3.6" summary = "Pygments is a syntax highlighting package written in Python." @@ -1406,7 +1475,7 @@ summary = "pure Python (no prereqs) coordinate conversions, following convention [[package]] name = "pymdown-extensions" -version = "9.9" +version = "9.9.2" requires_python = ">=3.7" summary = "Extension pack for Python Markdown." dependencies = [ @@ -1436,7 +1505,7 @@ dependencies = [ [[package]] name = "pyproject-api" -version = "1.2.1" +version = "1.5.0" requires_python = ">=3.7" summary = "API to interact with the python pyproject.toml based projects" dependencies = [ @@ -1446,13 +1515,13 @@ dependencies = [ [[package]] name = "pyrsistent" -version = "0.19.2" +version = "0.19.3" requires_python = ">=3.7" summary = "Persistent/Functional/Immutable data structures" [[package]] name = "pytest" -version = "7.2.0" +version = "7.2.1" requires_python = ">=3.7" summary = "pytest: simple powerful testing with Python" dependencies = [ @@ -1465,6 +1534,15 @@ dependencies = [ "tomli>=1.0.0; python_version < \"3.11\"", ] +[[package]] +name = "pytest-mock" +version = "3.10.0" +requires_python = ">=3.7" +summary = "Thin-wrapper around the mock package for easier use with pytest" +dependencies = [ + "pytest>=5.0", +] + [[package]] name = "python-dateutil" version = "2.8.2" @@ -1482,7 +1560,7 @@ summary = "A python library adding a json log formatter" [[package]] name = "pytz" -version = "2022.7" +version = "2022.7.1" summary = "World timezone definitions, modern and historical" [[package]] @@ -1492,7 +1570,7 @@ summary = "Python for Window Extensions" [[package]] name = "pywinpty" -version = "2.0.9" +version = "2.0.10" requires_python = ">=3.7" summary = "Pseudo terminal support for Windows from Python." @@ -1513,22 +1591,21 @@ dependencies = [ [[package]] name = "pyzmq" -version = "24.0.1" +version = "25.0.0" requires_python = ">=3.6" summary = "Python bindings for 0MQ" dependencies = [ "cffi; implementation_name == \"pypy\"", - "py; implementation_name == \"pypy\"", ] [[package]] name = "requests" -version = "2.28.1" +version = "2.28.2" requires_python = ">=3.7, <4" summary = "Python HTTP for Humans." dependencies = [ "certifi>=2017.4.17", - "charset-normalizer<3,>=2", + "charset-normalizer<4,>=2", "idna<4,>=2.5", "urllib3<1.27,>=1.21.1", ] @@ -1594,7 +1671,7 @@ dependencies = [ [[package]] name = "scalene" -version = "1.5.16" +version = "1.5.19" requires_python = ">=3.8" summary = "Scalene: A high-resolution, low-overhead CPU, GPU, and memory profiler for Python" dependencies = [ @@ -1621,7 +1698,7 @@ summary = "Send file to trash natively under Mac OS X, Windows and Linux." [[package]] name = "setuptools" -version = "65.6.3" +version = "67.2.0" requires_python = ">=3.7" summary = "Easily download, build, install, upgrade, and uninstall Python packages" @@ -1681,7 +1758,7 @@ summary = "Pretty-print tabular data" [[package]] name = "tenacity" -version = "8.1.0" +version = "8.2.1" requires_python = ">=3.6" summary = "Retry code until it succeeds" @@ -1740,18 +1817,18 @@ summary = "Tornado is a Python web framework and asynchronous networking library [[package]] name = "tox" -version = "4.0.16" +version = "4.4.5" requires_python = ">=3.7" summary = "tox is a generic virtualenv management and test command line tool" dependencies = [ - "cachetools>=5.2", + "cachetools>=5.3", "chardet>=5.1", "colorama>=0.4.6", - "filelock>=3.8.2", - "packaging>=22", - "platformdirs>=2.6", + "filelock>=3.9", + "packaging>=23", + "platformdirs>=2.6.2", "pluggy>=1", - "pyproject-api>=1.2.1", + "pyproject-api>=1.5", "tomli>=2.0.1; python_version < \"3.11\"", "virtualenv>=20.17.1", ] 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connection pooling, file post, and more." +[[package]] +name = "utm" +version = "0.7.0" +summary = "Bidirectional UTM-WGS84 converter for python" + [[package]] name = "verspec" version = "0.1.0" @@ -1838,18 +1920,18 @@ summary = "Flexible version handling" [[package]] name = "virtualenv" -version = "20.17.1" -requires_python = ">=3.6" +version = "20.19.0" +requires_python = ">=3.7" summary = "Virtual Python Environment builder" dependencies = [ "distlib<1,>=0.3.6", "filelock<4,>=3.4.1", - "platformdirs<3,>=2.4", + "platformdirs<4,>=2.4", ] [[package]] name = "watchdog" -version = "2.2.0" +version = "2.2.1" requires_python = ">=3.6" summary = "Filesystem events monitoring" @@ -1864,7 +1946,7 @@ dependencies = [ [[package]] name = "wcwidth" -version = "0.2.5" +version = "0.2.6" summary = "Measures the displayed width of unicode strings in a terminal" [[package]] @@ -1880,7 +1962,7 @@ summary = "Character encoding aliases for legacy web content" [[package]] name = "websocket-client" 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["BaseLoader", "GeoparquetLoader"] +__all__ = ["BaseLoader", "GeoparquetLoader", "GTFSLoader"] diff --git a/srai/loaders/gtfs_loader.py b/srai/loaders/gtfs_loader.py new file mode 100644 index 00000000..132ed457 --- /dev/null +++ b/srai/loaders/gtfs_loader.py @@ -0,0 +1,171 @@ +""" +GTFS Loader. + +This module contains GTFS loader which performs time aggregations from timetable data. +It utilizes the `gtfs_kit` library [1]. It was originally created for the purpose of +the gtfs2vec project [2]. + +References: + [1] https://gitlab.com/mrcagney/gtfs_kit + [2] https://doi.org/10.1145/3486640.3491392 +""" + +from pathlib import Path +from typing import TYPE_CHECKING + +import geopandas as gpd +import pandas as pd +from shapely.geometry import Point + +from srai.utils._optional import import_optional_dependencies +from srai.utils.constants import WGS84_CRS + +if TYPE_CHECKING: # pragma: no cover + from gtfs_kit import Feed + + +class GTFSLoader: + """ + GTFSLoader. + + This loader is capable of reading GTFS feed and calculates time aggregations in 1H slots. + """ + + def __init__(self) -> None: + """Initialize GTFS loader.""" + import_optional_dependencies(dependency_group="gtfs", modules=["gtfs_kit"]) + + self.time_resolution = "1H" + + def load( + self, + gtfs_file: Path, + fail_on_validation_errors: bool = True, + skip_validation: bool = False, + ) -> gpd.GeoDataFrame: + """ + Load GTFS feed and calculate time aggregations for stops. + + Args: + gtfs_file (Path): Path to the GTFS feed. + fail_on_validation_errors (bool): Fail if GTFS feed is invalid. Ignored when + skip_validation is True. + skip_validation (bool): Skip GTFS feed validation. + + Returns: + gpd.GeoDataFrame: GeoDataFrame with trip counts and list of directions for stops. + """ + import gtfs_kit as gk + + feed = gk.read_feed(gtfs_file, dist_units="km") + + if not skip_validation: + self._validate_feed(feed, fail=fail_on_validation_errors) + + trips_df = self._load_trips(feed) + directions_df = self._load_directions(feed) + + stops_df = feed.stops[["stop_id", "stop_lat", "stop_lon"]].set_index("stop_id") + stops_df["geometry"] = stops_df.apply( + lambda row: Point([row["stop_lon"], row["stop_lat"]]), axis=1 + ) + + result_gdf = gpd.GeoDataFrame( + trips_df.merge(stops_df["geometry"], how="inner", on="stop_id"), + geometry="geometry", + crs=WGS84_CRS, + ) + + result_gdf = result_gdf.merge(directions_df, how="left", on="stop_id") + + result_gdf.index.name = None + + return result_gdf + + def _load_trips(self, feed: "Feed") -> pd.DataFrame: + """ + Load trips from GTFS feed. + + Calculate sum of trips from stop in each time slot. + + Args: + feed (gk.Feed): GTFS feed. + + Returns: + gpd.GeoDataFrame: GeoDataFrame with trips. + """ + # FIXME: this takes first wednesday from the feed, may not be the best, + # but that is what I did in gtfs2vec + date = feed.get_first_week()[2] + ts = feed.compute_stop_time_series([date], freq=self.time_resolution) + + records = [] + + for idx, row in ts.iterrows(): + h = idx.hour + for s, n in row["num_trips"].items(): + records.append((s, h, n)) + + df = pd.DataFrame(records, columns=["stop_id", "hour", "num_trips"]) + df = df.pivot_table(index="stop_id", columns="hour", values="num_trips", fill_value=0) + df = df.add_prefix("trip_count_at_") + + return df + + def _load_directions(self, feed: "Feed") -> gpd.GeoDataFrame: + """ + Load directions from GTFS feed. + + Create a list of unique directions for each stop and time slot. + + Args: + feed (gk.Feed): GTFS feed. + + Returns: + gpd.GeoDataFrame: GeoDataFrame with directions. + """ + df = feed.stop_times.merge(feed.trips, on="trip_id") + df = df.merge(feed.stops, on="stop_id") + + df = df[df["departure_time"].notna()] + + df["hour"] = df["departure_time"].apply(self._parse_departure_time) + + pivoted = df.pivot_table( + values="trip_headsign", index="stop_id", columns="hour", aggfunc=set + ) + pivoted = pivoted.add_prefix("directions_at_") + + return pivoted + + def _validate_feed(self, feed: "Feed", fail: bool = True) -> None: + """ + Validate GTFS feed. + + Args: + feed (gk.Feed): GTFS feed. + fail (bool): Fail if feed is invalid. + """ + validation_result = feed.validate() + + if (validation_result["type"] == "error").sum() > 0: + import warnings + + warnings.warn(f"Invalid GTFS feed: \n{validation_result}", RuntimeWarning) + if fail: + raise ValueError("Invalid GTFS feed.") + + def _parse_departure_time(self, departure_time: str) -> int: + """ + Parse departure time and extract hour from it. + + In GTFS feed, departure time is in format HH:MM:SS. HH can be greater than 24, so + we need to parse it to 0-23 range. + + Args: + departure_time (str): Departure time in format HH:MM:SS. + + Returns: + int: Departure time in hours. + """ + return int(departure_time[:2].replace(":", "")) % 24 diff --git a/tests/loaders/conftest.py b/tests/loaders/conftest.py new file mode 100644 index 00000000..87922356 --- /dev/null +++ b/tests/loaders/conftest.py @@ -0,0 +1,112 @@ +"""Conftest for loaders.""" + +from datetime import datetime +from typing import Any + +import pandas as pd +import pytest +from pytest_mock import MockerFixture + + +@pytest.fixture(scope="session") # type: ignore +def gtfs_validation_ok() -> pd.DataFrame: + """Get GTFS validation result with no errors.""" + return pd.DataFrame( + { + "type": ["warning", "warning"], + "message": ["test warning", "test warning"], + "table": ["test_table", "test_table"], + "rows": [[1, 2], [3, 4]], + } + ) + + +@pytest.fixture(scope="session") # type: ignore +def gtfs_validation_error() -> pd.DataFrame: + """Get GTFS validation result with errors.""" + return pd.DataFrame( + { + "type": ["error", "error", "warning", "warning"], + "message": ["test error", "test error", "test warning", "test warning"], + "table": ["test_table", "test_table", "test_table", "test_table"], + "rows": [[1, 2], [3, 4], [5, 6], [7, 8]], + } + ) + + +@pytest.fixture(scope="session") # type: ignore +def stop_time_series() -> pd.DataFrame: + """Get mocked stop time series.""" + ts = pd.DataFrame.from_dict( + { + "datetime": pd.DatetimeIndex( + [datetime(2022, 1, 2, 12, 0), datetime(2022, 1, 2, 13, 0)] + ), + "42": pd.Series([0, 2]), + "76": pd.Series([12, 12]), + } + ).set_index("datetime") + + ts.columns = pd.MultiIndex.from_tuples( + [("num_trips", "42"), ("num_trips", "76")], names=["indicator", "stop_id"] + ) + + return ts + + +@pytest.fixture(scope="session") # type: ignore +def stop_times() -> pd.DataFrame: + """Get mocked stop times.""" + return pd.DataFrame( + { + "trip_id": ["1", "1", "2", "2"], + "arrival_time": ["12:00:00", "13:00:00", "12:00:00", "13:00:00"], + "departure_time": ["12:00:00", "12:00:00", "13:00:00", "13:00:00"], + "stop_id": ["42", "76", "42", "76"], + } + ) + + +@pytest.fixture(scope="session") # type: ignore +def trips() -> pd.DataFrame: + """Get mocked trips.""" + return pd.DataFrame( + { + "trip_id": ["1", "2"], + "trip_headsign": ["A", "B"], + } + ) + + +@pytest.fixture(scope="session") # type: ignore +def stops() -> pd.DataFrame: + """Get mocked stops.""" + return pd.DataFrame( + { + "stop_id": ["42", "76"], + "stop_lat": [51.198083, 51.107133], + "stop_lon": [16.905892, 17.019394], + } + ) + + +@pytest.fixture # type: ignore +def feed( + mocker: MockerFixture, + stop_time_series: pd.DataFrame, + stop_times: pd.DataFrame, + trips: pd.DataFrame, + stops: pd.DataFrame, +) -> Any: + """Get mocked feed.""" + feed_mock = mocker.MagicMock() + feed_mock.configure_mock( + **{ + "get_first_week.return_value": ["", "", "20220102"], + "compute_stop_time_series.return_value": stop_time_series, + "stop_times": stop_times, + "trips": trips, + "stops": stops, + } + ) + return feed_mock diff --git a/tests/loaders/test_gtfs_loader.py b/tests/loaders/test_gtfs_loader.py new file mode 100644 index 00000000..e9eee2b2 --- /dev/null +++ b/tests/loaders/test_gtfs_loader.py @@ -0,0 +1,94 @@ +"""GTFS Loader tests.""" +from pathlib import Path +from typing import Any +from unittest import TestCase + +import pandas as pd +import pytest +from pytest_mock import MockerFixture + +from srai.loaders import GTFSLoader + +ut = TestCase() + + +def test_validation_ok(mocker: MockerFixture, gtfs_validation_ok: pd.DataFrame) -> None: + """Test checks if GTFSLoader returns no errors.""" + feed_mock = mocker.MagicMock() + feed_mock.configure_mock(**{"validate.return_value": gtfs_validation_ok}) + + loader = GTFSLoader() + loader._validate_feed(feed_mock) + + +def test_validation_error(mocker: MockerFixture, gtfs_validation_error: pd.DataFrame) -> None: + """Test checks if GTFSLoader raises ValueError on validation error.""" + feed_mock = mocker.MagicMock() + feed_mock.configure_mock(**{"validate.return_value": gtfs_validation_error}) + + warning_mock = mocker.patch("warnings.warn") + + loader = GTFSLoader() + with pytest.raises(ValueError): + loader._validate_feed(feed_mock) + warning_mock.assert_called_once() + + +def test_validation_warning(mocker: MockerFixture, gtfs_validation_error: pd.DataFrame) -> None: + """Test checks if GTFSLoader raises ValueError on validation error.""" + feed_mock = mocker.MagicMock() + feed_mock.configure_mock(**{"validate.return_value": gtfs_validation_error}) + + warning_mock = mocker.patch("warnings.warn") + + loader = GTFSLoader() + loader._validate_feed(feed_mock, fail=False) + warning_mock.assert_called_once() + + +def test_gtfs_loader(feed: Any, mocker: MockerFixture, gtfs_validation_ok: pd.DataFrame) -> None: + """Test GTFSLoader.""" + feed.validate.return_value = gtfs_validation_ok + mocker.patch("gtfs_kit.read_feed", return_value=feed) + + loader = GTFSLoader() + features = loader.load(Path("feed.zip").resolve()) + + ut.assertCountEqual(features.index, ["42", "76"]) + ut.assertCountEqual( + features.columns, + [ + "trip_count_at_12", + "trip_count_at_13", + "directions_at_12", + "directions_at_13", + "geometry", + ], + ) + + +def test_gtfs_loader_with_invalid_feed( + feed: Any, mocker: MockerFixture, gtfs_validation_error: pd.DataFrame +) -> None: + """Test GTFSLoader with invalid feed.""" + feed.validate.return_value = gtfs_validation_error + mocker.patch("gtfs_kit.read_feed", return_value=feed) + warning_mock = mocker.patch("warnings.warn") + + loader = GTFSLoader() + with pytest.raises(ValueError): + loader.load(Path("feed.zip").resolve()) + warning_mock.assert_called_once() + + +def test_gtfs_loader_skip_validation( + feed: Any, mocker: MockerFixture, gtfs_validation_ok: pd.DataFrame +) -> None: + """Test GTFSLoader with invalid feed.""" + feed.validate.return_value = gtfs_validation_ok + mocker.patch("gtfs_kit.read_feed", return_value=feed) + + loader = GTFSLoader() + loader.load(Path("feed.zip").resolve(), skip_validation=True) + + feed.validate.assert_not_called() diff --git a/tests/miscellaneous/test_optional_dependencies.py b/tests/miscellaneous/test_optional_dependencies.py index 7770e3bc..8a640af4 100644 --- a/tests/miscellaneous/test_optional_dependencies.py +++ b/tests/miscellaneous/test_optional_dependencies.py @@ -41,6 +41,7 @@ def no_optional_dependencies(monkeypatch): "pymap3d", "haversine", "spherical_geometry", + "gtfs_kit", ] for package in optional_packages: sys.modules.pop(package, None)