r5py 0.1.2__py3-none-any.whl → 1.0.0__py3-none-any.whl

r5py/util/classpath.py

@@ -18,9 +18,9 @@ from .warnings import R5pyWarning
 
 # update these to use a newer R5 version if no R5 available locally
 R5_JAR_URL = (
-    "https://github.com/r5py/r5/releases/download/v7.1-r5py/r5-v7.1-r5py-all.jar"
+    "https://github.com/r5py/r5/releases/download/v7.3-r5py/r5-v7.3-r5py-all.jar"
 )
-R5_JAR_SHA256 = "cd697b50323fd99977c98039ea317698bcf5fbbdb12b59e3e094ae9443648db2"
+R5_JAR_SHA256 = "cb1ccad370757ba229cf17f1bedc9549ff5d77fdbb44b7a3058104fe1f243f53"
 # ---
 
 

r5py/util/config.py

@@ -2,23 +2,25 @@
 
 """Handle configuration options and command line options."""
 
+import datetime
 import functools
+import importlib.resources
 import os
 import pathlib
 import sys
 import tempfile
 
 import configargparse
-import importlib_resources
 
 
 __all__ = ["Config"]
 
 
 PACKAGE = __package__.split(".")[0]
-CONFIG_FILE_TEMPLATE = importlib_resources.files(f"{PACKAGE}.util").joinpath(
+CONFIG_FILE_TEMPLATE = importlib.resources.files(f"{PACKAGE}.util").joinpath(
     f"{PACKAGE}.yml.template"
 )
+CACHE_MAX_AGE = datetime.timedelta(weeks=2)
 
 if "HOME" not in os.environ:  # e.g., testing environment or container
     os.environ["HOME"] = "."
@@ -73,11 +75,25 @@ class Config:
             pathlib.Path(
                 os.environ.get("LOCALAPPDATA")
                 or os.environ.get("XDG_CACHE_HOME")
-                or (pathlib.Path(os.environ["HOME"]) / ".cache")
+                or (pathlib.Path(os.environ.get("HOME")) / ".cache")
             )
             / PACKAGE
         )
         cache_dir.mkdir(parents=True, exist_ok=True)
+
+        # clean old files to keep cache dir from growing too much
+        cache_treshold = (datetime.datetime.now() - CACHE_MAX_AGE).timestamp()
+        for cached_file in cache_dir.glob("**/*"):
+            try:
+                *_, atime, mtime, _ = cached_file.stat()
+                assert max(atime, mtime) > cache_treshold
+            except (
+                AssertionError,  # expired
+                FileNotFoundError,  # broken symlink
+                PermissionError,
+            ):
+                cached_file.unlink()
+
         return cache_dir
 
     @functools.cached_property
@@ -88,7 +104,7 @@ class Config:
             pathlib.Path(
                 os.environ.get("APPDATA")
                 or os.environ.get("XDG_CONFIG_HOME")
-                or (pathlib.Path(os.environ["HOME"]) / ".config")
+                or (pathlib.Path(os.environ.get("HOME")) / ".config")
             )
             / f"{PACKAGE}.yml",
         ]
@@ -116,7 +132,7 @@ class Config:
             try:
                 destination_path.parent.mkdir(parents=True, exist_ok=True)
 
-                with importlib_resources.as_file(CONFIG_FILE_TEMPLATE) as template:
+                with importlib.resources.as_file(CONFIG_FILE_TEMPLATE) as template:
                     destination_path.write_text(template.read_text())
 
             except (

r5py/util/file_digest.py

@@ -0,0 +1,42 @@
+#!/usr/bin/env python3
+
+"""Create a hash sum of a file."""
+
+
+import hashlib
+import pathlib
+
+
+__all__ = ["FileDigest"]
+
+
+BUFFER_SIZE = 64 * 1024
+
+
+class FileDigest(str):
+    """Create a hash sum of a file."""
+
+    def __new__(cls, input_file, digest="blake2s"):
+        """
+        Create a hash sum of a file.
+
+        Arguments
+        ---------
+        input_file : pathlib.Path | str
+            for which file to compute a hash digest
+        digest : str | func
+            name of hash algorithm (s.
+            https://docs.python.org/3/library/hashlib.html) or function that
+            returns a hash sum
+        """
+        input_file = pathlib.Path(input_file)
+        try:
+            with input_file.open("rb") as f:
+                hashdigest = hashlib.file_digest(f, digest)
+        except AttributeError:  # Python<=3.10
+            hashdigest = hashlib.new(digest)
+            with input_file.open("rb") as f:
+                while data := f.read(BUFFER_SIZE):
+                    hashdigest.update(data)
+
+        return hashdigest.hexdigest()

r5py/util/good_enough_equidistant_crs.py

@@ -10,6 +10,11 @@ import shapely
 from .exceptions import UnexpectedCrsError
 
 
+FALLBACK_CRS = 3857
+DATUM_NAME = "WGS 84"
+VERY_SMALL_BUFFER_SIZE = 0.001
+
+
 class GoodEnoughEquidistantCrs(pyproj.CRS):
     """
     Find the most appropriate UTM reference system for the current extent.
@@ -33,13 +38,13 @@ class GoodEnoughEquidistantCrs(pyproj.CRS):
         """
         if GoodEnoughEquidistantCrs._is_plausible_in_epsg4326(extent):
             # default CRS in case we do not find any better match
-            crs = pyproj.CRS.from_epsg(3857)
+            crs = pyproj.CRS.from_epsg(FALLBACK_CRS)
 
             # buffer extent (so everything is a polygon)
-            extent = extent.buffer(0.1)
+            extent = extent.buffer(VERY_SMALL_BUFFER_SIZE)
 
             crsinfo = pyproj.database.query_utm_crs_info(
-                datum_name="WGS 84",
+                datum_name=DATUM_NAME,
                 area_of_interest=pyproj.aoi.AreaOfInterest(*extent.bounds),
             )
             for candidate_crs in crsinfo:

r5py/util/sample_data_set.py

@@ -20,7 +20,10 @@ class SampleDataSet(pathlib.Path):
 
     # decide which kind of pathlib.Path we are (Windows, Unix, ...)
     # cf. https://stackoverflow.com/a/66613346/463864
-    _flavour = type(pathlib.Path())._flavour
+    try:
+        _flavour = type(pathlib.Path())._flavour
+    except AttributeError:  # Python>=3.13
+        pass
 
     _CACHE_DIR = pathlib.Path(config.CACHE_DIR) / "sampledata"
 

r5py/util/spatially_clustered_geodataframe.py

@@ -0,0 +1,78 @@
+#!/usr/bin/env python3
+
+
+"""Assign a cluster label column to a point-geometry GeoDataFrame."""
+
+
+import warnings
+
+import geopandas
+import numpy
+import shapely
+import sklearn.cluster
+
+from .good_enough_equidistant_crs import GoodEnoughEquidistantCrs
+
+
+__all__ = ["SpatiallyClusteredGeoDataFrame"]
+
+
+class SpatiallyClusteredGeoDataFrame(geopandas.GeoDataFrame):
+    """Assign a cluster label column to a point-geometry GeoDataFrame."""
+
+    def __init__(self, data, *args, eps=200.0, min_cluster_size=3, **kwargs):
+        """
+        Assign a cluster label column to a point-geometry GeoDataFrame.
+
+        Arguments:
+        ----------
+        data : geopandas.GeoDataFrame
+            input data set
+        eps : int | float
+            EPS parameter to a DBSCAN cluster algorithm, the maximum
+            intra-cluster distance between two points
+        *args, **kwargs: passed to geopandas.GeoDataFrame.__init__()
+        """
+        geopandas.GeoDataFrame.__init__(self, *args, **kwargs)
+
+        EQUIDISTANT_CRS = GoodEnoughEquidistantCrs(
+            shapely.box(*data.to_crs("EPSG:4326").geometry.total_bounds)
+        )
+
+        # loosely based on:
+        # https://github.com/geopandas/scipy2018-geospatial-data/blob/master/08-clustering.ipynb
+
+        coordinates = numpy.vstack(
+            data.to_crs(EQUIDISTANT_CRS)["geometry"]
+            .apply(lambda geometry: numpy.hstack(geometry.xy))
+            .values
+        )
+
+        with warnings.catch_warnings():
+            warnings.filterwarnings(
+                "ignore",
+                "Could not find the number of physical cores",
+                category=UserWarning,
+            )
+            data["cluster"] = (
+                sklearn.cluster.DBSCAN(
+                    eps=eps,
+                    min_samples=min_cluster_size,
+                    n_jobs=-1,
+                )
+                .fit(coordinates)
+                .labels_
+            )
+
+        with warnings.catch_warnings():
+            warnings.filterwarnings(
+                "ignore",
+                message=(
+                    "You are adding a column named 'geometry' to a GeoDataFrame "
+                    "constructed without an active geometry column"
+                ),
+                category=FutureWarning,
+            )
+            for column in data.columns:
+                self[column] = data[column]
+            self.set_geometry("geometry")

r5py/util/working_copy.py

@@ -0,0 +1,44 @@
+#!/usr/bin/env python3
+
+"""Create a copy or link of an input file in a cache directory."""
+
+
+import filelock
+import pathlib
+import shutil
+
+from .config import Config
+
+
+__all__ = ["WorkingCopy"]
+
+
+class WorkingCopy(pathlib.Path):
+    """Create a copy or link of an input file in a cache directory."""
+
+    def __new__(cls, path):
+        """
+        Create a copy or link of an input file in a cache directory.
+
+        This exists because R5 creates temporary files in the directory of input
+        files. This can not only be annoying clutter, but also create problems
+        of concurrency, performance, etc., for instance, when the data comes
+        from a shared network drive or a read-only file system.
+
+        Arguments
+        ---------
+        path : str or pathlib.Path
+            The file to create a copy or link of in a cache directory
+        """
+        # try to first create a symbolic link, if that fails (e.g., on Windows),
+        # copy the file to a cache directory
+        path = pathlib.Path(path).absolute()
+        destination = pathlib.Path(Config().CACHE_DIR / path.name).absolute()
+
+        with filelock.FileLock(destination.parent / f"{destination.name}.lock"):
+            if not destination.exists():
+                try:
+                    destination.symlink_to(path)
+                except OSError:
+                    shutil.copyfile(f"{path}", f"{destination}")
+        return destination

{r5py-0.1.2.dist-info → r5py-1.0.0.dist-info}/METADATA

@@ -1,9 +1,8 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.2
 Name: r5py
-Version: 0.1.2
+Version: 1.0.0
 Summary: Python wrapper for the R5 routing analysis engine
-Author: Willem Klumpenhouwer, Marcus Sairava, Rafael Pereira, Henrikki Tenkanen
-Author-email: Christoph Fink <christoph.fink@helsinki.fi>
+Author: Christoph Fink, Willem Klumpenhouwer, Marcus Sairava, Rafael Pereira, Henrikki Tenkanen
 License: GPL-3.0-or-later or MIT
 Project-URL: Documentation, https://r5py.readthedocs.org/
 Project-URL: Repository, https://github.com/r5py/r5py.git
@@ -19,44 +18,45 @@ Description-Content-Type: text/markdown
 License-File: LICENSE
 Requires-Dist: ConfigArgParse
 Requires-Dist: filelock
-Requires-Dist: fiona
+Requires-Dist: geohexgrid
 Requires-Dist: geopandas
-Requires-Dist: importlib-resources
 Requires-Dist: joblib
 Requires-Dist: jpype1
 Requires-Dist: numpy
-Requires-Dist: pandas >=2.1.0
+Requires-Dist: pandas>=2.1.0
 Requires-Dist: psutil
 Requires-Dist: pyproj
 Requires-Dist: requests
-Requires-Dist: shapely >=2.0
+Requires-Dist: scikit-learn
+Requires-Dist: shapely>=2.0
+Requires-Dist: simplification
 Provides-Extra: docs
-Requires-Dist: contextily ; extra == 'docs'
-Requires-Dist: folium ; extra == 'docs'
-Requires-Dist: GitPython ; extra == 'docs'
-Requires-Dist: h3 >=4.0.0b2 ; extra == 'docs'
-Requires-Dist: jupyterlab-myst ; extra == 'docs'
-Requires-Dist: mapclassify ; extra == 'docs'
-Requires-Dist: matplotlib ; extra == 'docs'
-Requires-Dist: myst-nb ; extra == 'docs'
-Requires-Dist: nbsphinx ; extra == 'docs'
-Requires-Dist: pybtex-apa7-style ; extra == 'docs'
-Requires-Dist: r5py.sampledata.helsinki >=0.1.1 ; extra == 'docs'
-Requires-Dist: r5py.sampledata.sao-paulo >=0.1.1 ; extra == 'docs'
-Requires-Dist: shapely ; extra == 'docs'
-Requires-Dist: sphinx ; extra == 'docs'
-Requires-Dist: sphinx-book-theme ; extra == 'docs'
-Requires-Dist: sphinx-design ; extra == 'docs'
-Requires-Dist: sphinxcontrib-bibtex ; extra == 'docs'
-Requires-Dist: sphinxcontrib-images ; extra == 'docs'
+Requires-Dist: contextily; extra == "docs"
+Requires-Dist: folium; extra == "docs"
+Requires-Dist: GitPython; extra == "docs"
+Requires-Dist: h3>=4.0.0b2; extra == "docs"
+Requires-Dist: jupyterlab_myst; extra == "docs"
+Requires-Dist: mapclassify; extra == "docs"
+Requires-Dist: matplotlib; extra == "docs"
+Requires-Dist: myst-nb; extra == "docs"
+Requires-Dist: nbsphinx; extra == "docs"
+Requires-Dist: pybtex-apa7-style; extra == "docs"
+Requires-Dist: r5py.sampledata.helsinki>=0.1.1; extra == "docs"
+Requires-Dist: r5py.sampledata.sao_paulo>=0.1.1; extra == "docs"
+Requires-Dist: shapely; extra == "docs"
+Requires-Dist: sphinx; extra == "docs"
+Requires-Dist: sphinx-book-theme; extra == "docs"
+Requires-Dist: sphinx-design; extra == "docs"
+Requires-Dist: sphinxcontrib-bibtex; extra == "docs"
+Requires-Dist: sphinxcontrib-images; extra == "docs"
 Provides-Extra: tests
-Requires-Dist: pyarrow ; extra == 'tests'
-Requires-Dist: pytest ; extra == 'tests'
-Requires-Dist: pytest-asyncio ; extra == 'tests'
-Requires-Dist: pytest-cov ; extra == 'tests'
-Requires-Dist: pytest-lazy-fixtures ; extra == 'tests'
-Requires-Dist: r5py.sampledata.helsinki >=0.1.1 ; extra == 'tests'
-Requires-Dist: r5py.sampledata.sao-paulo >=0.1.1 ; extra == 'tests'
+Requires-Dist: pyarrow; extra == "tests"
+Requires-Dist: pytest; extra == "tests"
+Requires-Dist: pytest-cov; extra == "tests"
+Requires-Dist: pytest-lazy-fixtures; extra == "tests"
+Requires-Dist: r5py.sampledata.helsinki>=0.1.1; extra == "tests"
+Requires-Dist: r5py.sampledata.sao_paulo>=0.1.1; extra == "tests"
+Requires-Dist: typing-extensions; extra == "tests"
 
 <img class="r5py_logo" align="right" src="https://github.com/r5py/r5py/raw/main/docs/_static/images/r5py_blue.svg" alt="r5py logo" style="width:180px; max-width:30vW;">
 
@@ -156,7 +156,7 @@ your project better.
 <!-- (2) other links -->
 [conda-create-env-from-yml]: https://docs.conda.io/projects/conda/en/latest/user-guide/tasks/manage-environments.html#creating-an-environment-from-an-environment-yml-file
 [conveyal]: https://www.conveyal.com/
-[env-file]: https://github.com/r5py/r5py/blob/main/ci/r5py_distro.yaml
+[env-file]: https://github.com/r5py/r5py/blob/main/ci/r5py.yaml
 [geopandas]: https://geopandas.org/
 [r5-github]: https://github.com/conveyal/r5/
 [r5r-github]: https://github.com/ipeaGIT/r5r/

r5py-1.0.0.dist-info/RECORD

@@ -0,0 +1,47 @@
+r5py/__init__.py,sha256=j6T-4NRTg_w9P_RloJOBLuc1L2ZnERHJzsqbeM5M-cc,546
+r5py/__main__.py,sha256=Wvn0ChD7E-dCSZ8b8k_HhHG0KMOk0qMNFkijGuSH3-0,81
+r5py/r5/__init__.py,sha256=6IQpvStxKeNxflizfRWh05USpdM18KBSB3UZ8Z_cGY4,1124
+r5py/r5/access_leg.py,sha256=W3GfPEpqmWD1c4xipd6UcVIaBC-yb6srGCZV30E2dPY,293
+r5py/r5/base_travel_time_matrix.py,sha256=Vl82Wkk2iANNy6L3r937yXNnQ9lmMOErGT_-fQnb1Ms,6978
+r5py/r5/breakdown_stat.py,sha256=ZQkWA0hXlcRH3KVgtxPSNHP0FUDri8MWqdFk8EUdDMU,533
+r5py/r5/detailed_itineraries.py,sha256=Oo8JnF5jM2FsYFR1ma9r4y3evOmU7itDYs5M4vbqrZo,11245
+r5py/r5/direct_leg.py,sha256=T7wX8puhOVIssCpflXthYs-G9OA8pasFbdz9p8k8teg,1054
+r5py/r5/egress_leg.py,sha256=9rsCIcwlZUzoZE6q4imNY3VWpjJepO1IJvheVrlPi90,297
+r5py/r5/isochrones.py,sha256=NNpV3Df4NeLdDksGERkb2Eos33ziMBGEeaWyCKPt5P8,12974
+r5py/r5/regional_task.py,sha256=wTNx2NT3-GCEvDyz0e-_YYkVWtpE66dg2IlXTA1gI-4,23234
+r5py/r5/scenario.py,sha256=nUNAlN3cO7E_b4sMpNqdL0FD7WQaQ49iIvh-k8l4YRM,763
+r5py/r5/street_layer.py,sha256=2AWhIE0-aTNGQenX6bF1xv5bmhR_LV0CgqM4BKgVYfk,2329
+r5py/r5/street_segment.py,sha256=0O0QV8Eyfss-xHJShKGSQV1IusZfTrrxzu_AWl3KACo,1109
+r5py/r5/transfer_leg.py,sha256=_IpzQJAyW4hDPO5V4k-ZjIPd3uyxhHPa4U6_b8UbKt4,311
+r5py/r5/transit_layer.py,sha256=vVo_o10yDCzpujOQ99xdzmznwVjAbANjdDflQy2QOpI,3223
+r5py/r5/transit_leg.py,sha256=R0Qc9YLMEXYu51NIdo7Q0bdmpYIJf5irEDXWrW6pZWE,221
+r5py/r5/transport_mode.py,sha256=zHSqXb0R4oyjTp069CzO69IgoCKt0nmOAwsSy272rGo,3675
+r5py/r5/transport_network.py,sha256=wy7jsIqcladee6FdUiOu0kJgMhGYymtJpfyjX9RRnNU,7925
+r5py/r5/travel_time_matrix.py,sha256=Z_ErylB8mMD_eO2BogV3K_OFdYFVCcmIPmcMe7GGRiU,8003
+r5py/r5/trip.py,sha256=AqhlhgYaGRL5jVzV08BhsqgWxe8f4wAb5HMP8HIGwc8,2944
+r5py/r5/trip_leg.py,sha256=9E4vZpBEJCXIVqAXWJvnPloC-upEASKhFnjiuen8i8A,6495
+r5py/r5/trip_planner.py,sha256=QM3kSx-EC1VWtmReMtwxzG0CdbtlRi3-PpLxOAoHGrA,23754
+r5py/util/__init__.py,sha256=3iqzebRt7RE1TMzzuGNzyXca0SBcBx1rHLs8eW3ijo4,940
+r5py/util/camel_to_snake_case.py,sha256=zj5F3PNBvsuS6vqN4USeeo8NI-3hnscGhwun0G95AK0,673
+r5py/util/classpath.py,sha256=b16xL94pDxTpc0vrf68R1nvZHnHqZXGcFJaN36eW3wc,2773
+r5py/util/config.py,sha256=5jz42iUaftgBfJ2HNnktZw5oXIPE2ytl3Nxt2RjjDoM,5267
+r5py/util/contains_gtfs_data.py,sha256=ooX4hfVDKK0aqX1MI46jSFZ7dZ6riyXaORrgF6PUFrk,1211
+r5py/util/data_validation.py,sha256=H5Mcp2nS4vu5RKym20mPnGpl-8d0SDchzDRJBrrL6WE,1039
+r5py/util/environment.py,sha256=cbSM8TKTuhbXsTIIB06pMtydBOiqLkitF2Lj2asVTho,1082
+r5py/util/exceptions.py,sha256=r65XUg_AJ_bTw8ARNj7A2-GbFZlSTrOAjDynx1pSD2Y,1049
+r5py/util/file_digest.py,sha256=95UbaxbTZLa54j1CupsKria028xZ8f6ueZsTupnjlYE,1061
+r5py/util/good_enough_equidistant_crs.py,sha256=7FX3Ly3qegSV_YRA4OFk49LC29xUyTte1Gc5qOEi_9E,2458
+r5py/util/jvm.py,sha256=NCwoYLDznXydcIRAZl2kzUQA6D6NCvzjVG74pm6ioR0,5027
+r5py/util/memory_footprint.py,sha256=p8efCUs4UXRg6P1GrRxVs71m7SpEw2mASoz6PVTRvgQ,4672
+r5py/util/parse_int_date.py,sha256=JmnV8TwdUdUp3kSp2e73ZSxCbRyqv2FmQzNt0I_MsM0,667
+r5py/util/sample_data_set.py,sha256=aqUCx6drWD-WbCauewO4EzgOGnFr35mAZt-YHlqb92k,2463
+r5py/util/snake_to_camel_case.py,sha256=uJ5hTCVDUEmIxTyy4LGFTbpGC_rtnjDZVQ2vmVRTQ4k,485
+r5py/util/spatially_clustered_geodataframe.py,sha256=FxG8V3SSeK-PuCep565p1b3TNcl8oCkY764tk1L0sKM,2410
+r5py/util/validating_requests_session.py,sha256=sH5FgpS9eGax5DG2qA2GrGuiwgTJgh8tKsZ9OiXKmvk,1807
+r5py/util/warnings.py,sha256=CvxKWKlNO_p3riB4SkNqbU5AGPsaY_3-OzqaBObE3B8,139
+r5py/util/working_copy.py,sha256=sbLbRCi39LtC-0tXxvh2y7ZN2D15chbhleCZXzHAFSc,1432
+r5py-1.0.0.dist-info/LICENSE,sha256=VAnuGDX1TPylSN9G2xLa-urDpj_SQwn-qqs068dx4tk,51
+r5py-1.0.0.dist-info/METADATA,sha256=yWDmg1mjGHQHj4SveWnYfuI4E3TWvo43Gug4L1hwFno,9965
+r5py-1.0.0.dist-info/WHEEL,sha256=52BFRY2Up02UkjOa29eZOS2VxUrpPORXg1pkohGGUS8,91
+r5py-1.0.0.dist-info/top_level.txt,sha256=fOH1R85dkNDOI7jkg-lIsl5CQIO4fE5X868K9dTqs9U,5
+r5py-1.0.0.dist-info/RECORD,,

{r5py-0.1.2.dist-info → r5py-1.0.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (71.1.0)
+Generator: setuptools (76.0.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

r5py/sampledata/_keep/__init__.py

@@ -1,3 +0,0 @@
-#!/usr/bin/env
-
-"""A placeholder for plugin-style sample data packages within the r5py.sampledata.* namespace."""

r5py-0.1.2.dist-info/RECORD

@@ -1,43 +0,0 @@
-r5py/__init__.py,sha256=CvtwufBhIEjDtiNGgSjbvb6mtHtmDAmzOmRYtdOm49M,414
-r5py/__main__.py,sha256=Wvn0ChD7E-dCSZ8b8k_HhHG0KMOk0qMNFkijGuSH3-0,81
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