pysal/pysal: v24.07rc4

Overall, there were 558 commits that closed 315 issues since our last release on 2024-01-31.

<a name="changes-by-package"></a>

Changes by Package

<a name="libpysal-v4.12.0"></a>

libpysal v4.12.0

• #757: W to g guide
• #756: exposing mapping_distance in travel builder
• #233: [WIP] stop sorting ids by default
• #299: [WIP] remove Ids attribute
• #505: New changelog conventions
• #365: start on perimeter weighting with just pygeos
• #356: [WIP] initial draft of network weights
• #626: allow ids in graph when passing sparse
• #151: network weights
• #755: add graph from travel network
• #369: refactor examples
• #490: Logic for pushing tags to trigger release needs to be revisited
• #375: pygeos-based contiguity
• #733: W to g guide
• #754: DOC: move Graph from experimental to stable API
• #740: ENH: add xarray interface to Graph
• #753: make asymmetry computation in Graph summary optional
• #739: fix higher_order contiguity including lower order
• #738: BUG: higher_order(lower_order=True) not working in edge cases
• #742: ENH: add Graph.summary with s0, s1, s2 and similar properties to Graph
• #752: ENH: add index_pairs to Graph
• #746: BUG: fix categorical lag for custom index
• #743: BUG: fix handling of non-isolate self-weights of 0 and order preservation
• #751: adjust CI env name & add Graph to README
• #750: update README with mention of Graph
• #749: update CI env naming conventions
• #534: Weights sprint planning
• #444: Does release GHA work?
• #315: scikit-geometry?
• #747: ensure that Graph.repr fits to 80 characters
• #745: added examples to graph
• #744: test against intel & apple silicon
• #573: BUG: relative neighbourhood depends on the order of observations
• #736: [pre-commit.ci] pre-commit autoupdate
• #737: ENH: use representative_point instead of centroid in Graph plotting
• #735: Centroid or representative point in graph plotting
• #698: ENH: Graph IO to classic weights file formats
• #732: CI: do not xfail momepy in reverse checks
• #729: Use importlib to implement simport
• #731: CI: ignore spvcm, add osmnx to env, xfail stuff out of control in reverse dep testing
• #726: Use fixtures for test data that uses the network
• #728: DOC: Fix a couple Sphinx warnings
• #727: DOC: Remove unused mkdocs-jupyter dependency
• #725: COMPAT: ensure argsort output has a stable order in numpy 2
• #724: [CI] precision failure on ubuntu-latest, ci/312-no-optional.yaml [2024-06-19]
• #723: COMPAT: fix numpy 2.0 incompatibility
• #722: Failure due to numpy 2.0 deprecation
• #721: inserted chicagoSDOH as sample data
• #720: ENH: pass kwargs to buffer in fuzzy_contiguity
• #695: import libpysal stuck on loading remote examples
• #718: Add timeout in request to handle off-line use cases in examples
• #719: COMPAT: remove typing from Graph.describe
• #716: Categorical spatial lag using the Graph
• #711: ENH: implement Graph.repr
• #717: ENH: include Graph.describe() to describe neighbourhood values
• #529: [DO NOT MERGE] Change to the new sparse arrays and see what breaks
• #715: PERF: sorting-related improvements in Graph
• #714: Refactor handling of coincident points in triangulation
• #713: Co-location issues with Graph triangulation builders
• #694: ENH: add Graph.build_h3
• #667: Build Graph from H3
• #710: PERF: don't build coincident lookup if not needed
• #709: BUG: misaligned weights in the gabriel graph
• #708: add back numba in Py312 tests
• #590: check when numba is ready for Python 3.12
• #703: DOC: add examples to build_contiguity and build_triangulation
• #697: REF: minor performance improvements in Graph
• #704: Added examples to from_dicts and build_knn.
• #705: DOC: Add examples to build_distance_band
• #702: DOC: add examples to build_block_contiguity
• #701: DOC: add example to Graph.to_W
• #700: DOC: clarify the requirements of the canonical sorting of Graph index
• #687: Ensure Graph.sparse is robust enough
• #696: [pre-commit.ci] pre-commit autoupdate
• #693: Work around GEOS issue in voronoi_frames
• #691: REF: refactor Graph.to_W to avoid perf bottleneck
• #672: Graph.to_W is slow
• #692: COMPAT: compatibility with pandas 3
• #678: ENH: geometry agnostic Voronoi based on shapely
• #665: Interest in Optimal Spatial Matching?
• #685: REF: remove usage of deprecated cascaded_union
• #686: TST: resolve FutureWarnings in graph apply tests
• #684: ImportError: cannot import name 'np' from 'libpysal.common'
• #683: Bump codecov/codecov-action from 3 to 4

<a name="esda-v2.6.0"></a>

esda v2.6.0

• #343: formats, lints, pytest pt. 2 -- test_adbscan.py
• #341: formats, lints, pytest pt. 1 -- test_{utils,topo}.py
• #336: xfail for test_G_star_Row_Standardized
• #331: weird Python 3.10 oldest error
• #337: remove xtyt & xhyh in shape._second_moa_ring_xplusy()
• #334: declared but unused xtyt & xhyh in shape._second_moa_ring_xplusy()
• #339: small factor of moran.Moran_Local_BV.__calc()
• #333: unused zx in moran.Moran_Local_BV.__calc()
• #332: drop black - reup linting w/0 Python 3.8 pin
• #330: we never added a pre-commit-config...
• #308: formatting -> drop black and adopt ruff
• #289: Silhouette tests failing under scipy 1.13
• #326: ENH: natively support Graph in getisord and gamma modules
• #296: ENH: natively support Graph in all Geary statistics
• #295: ENH: natively support Graph in all Join Counts statistics
• #293: ENH: natively support Graph in moran module
• #294: Support of Graph
• #329: min pin for libpysal in README - resolve #319
• #319: determine minimal pin for libpysal
• #328: pin libpysal to 4.12
• #327: ENH: natively support Graph in losh and sihouettes modules
• #325: update chat link -- gitter >> discord
• #324: update chat from gitter to discord
• #240: esda implementation problem with new numba version
• #307: add rtree as optional dependency
• #311: update dependency pins from SPEC000
• #299: NumPy 2.0 - CI failures - AttributeError: ptp
• #310: update CI matrix for supported Python versions
• #318: modernize CI matrix & deps
• #301: ImportError: rtree library must be installed
• #312: move geopandas requirements
• #309: CI failure introduced in #306
• #304: list rtree in optional requirements?
• #316: update CI env naming conventions
• #315: prune CI testing matrix - only test windows & macOS on latest Python
• #314: sync requirements & versions
• #313: add plus dependency section in pyproject.toml
• #321: remove bleeding edge libpysal install from testing.yml
• #320: Add folium and mapclassify to testing dependencies
• #317: test against both oldest versions & minimal requirements
• #322: skip test if rtree not installed optional
• #306: numpy.math.atan2 -> numpy.atan2 in shape._get_angles()
• #300: AttributeError: module 'numpy' has no attribute 'math'
• #303: test against mac os intel chip, etc.
• #302: add explicit Mac intel testing environment
• #298: remove .coveragerc - info in pyproject.toml
• #297: remove .gitattributes - no longer using versioneer
• #286: Adding coverage for vec_permutations
• #290: import failure- likely due to scipy 1.13 and 1.12
• #288: DOC: fix adbscan reference
• #287: A-DBSCAN citation not generated in docs
• #285: 311-dev CI failures [2024-03-16]
• #284: Importing esda: need for update on numpy long
• #282: landing page notebook links are broken
• #283: Update link to notebooks on landing page
• #280: Bump codecov/codecov-action from 3 to 4

<a name="pointpats-v2.5.0"></a>

pointpats v2.5.0

• #140: update min supported Python and testing workflow
• #141: bump & sync min reqs [2024-06]
• #139: minimum support Python [2024-06]
• #138: fix typo in random.normal function
• #133: REF: reimplement mrr on top of shapely
• #136: localknox
• #137: Typo in random.normal method that results in errors
• #134: keep members of local knox hotspots

<a name="spaghetti-v1.7.6"></a>

spaghetti v1.7.6

• #771: #770 -- doctests after full tests
• #770: doctests as separate action or workflow
• #769: update docstring tests -- numpy-2.0 failures
• #767: current CI failures [2024-06-19]
• #768: fix doctests in CI -- numpy 2.0
• #765: [pre-commit.ci] pre-commit autoupdate
• #764: gpd & shp as hard reqs -- no optional testing -- #763
• #763: 310-no-optional CI failures [2024-03-16]
• #762: 312-dev CI failures [2024-03-16]
• #761: Bump codecov/codecov-action from 3 to 4

<a name="momepy-v0.7.2"></a>

momepy v0.7.2

• #625: DOC: update user guide to avoid MultiIndex
• #631: DOC: update rest of the guide
• #628: DOC: User guide fixes for elements examples
• #626: REF: remove result_index attribute from describe_agg
• #627: REF: do not return building_id from generate_blocks
• #606: BUG: verify handling of MultiIndex
• #622: ENH: either support MultiIndex or raise an error when one is given
• #624: DOC: update docstrings to match numpy2 outputs
• #623: TYP: add type hints to the graph module
• #579: API: distinction between libpysal and networkx graphs
• #621: BUG: fix a case when there's only a single building to be passed to voronoi_frames
• #620: ENH: add mean_deviation
• #619: API: deprecate legacy API in favour of Graph-based functional implementation
• #612: API: deprecate legacy API
• #618: minor type hinting fix
• #617: API: allow silencing of FutureWarnings from legacy API
• #616: DOC: expose get_nearest_node, fix fmt
• #615: DOC: remaining examples in the new API
• #610: DOC: add examples
• #614: update precommit to ruff docs dir
• #613: DOC: ruff user guide
• #611: DOC: add first batch of examples + testing
• #609: Faster node density
• #608: BUG: fix describe_ function when count is not present
• #543: GHA: switch to autogenerated release notes
• #582: BUG/ENH: support custom enclosure index is in tessellation and GeoDataFrame as enclosure input
• #592: DOC: add citation.cff
• #544: DOC: update dev installation instructions
• #576: functional node_density implementation
• #575: functional reached calculations
• #572: functional courtyards calculation
• #570: ENH: describe as a replacement of AverageCharacter
• #566: ENH: street_alignment and get_nearest_street
• #559: ENH: refactor tessellation
• #557: ENH: add neighbors
• #556: ENH: mean_interbuilding_distance and building_adjacency
• #555: ENH: neighbor_distance using Graph and new API
• #554: ENH: add alignment to the new API
• #553: ENH: add orientation and shared_walls functional versions
• #600: ENH: add get_nearest_node
• #593: Street profile
• #590: ENH: adaptive buffer as a tessellation limit
• #589: Functional percentiles
• #588: Functional distribution
• #587: Functional dimension
• #586: Functional density
• #584: _describe API refactoring
• #583: Functional arearatio
• #581: Functional diversity
• #580: Functional blocks
• #607: Update release.yml - troubleshoot release action failure
• #604: gha for release notes - #543
• #396: ENH: helper functions for geometry-based network simplification
• #461: TestDistribution.test_MeanInterbuildingDistance failure on dev
• #304: Add GitHub Action to build and push container
• #537: BUG: tessellation may produce overlapping polygons
• #261: EHN: Add SkyViewFactor
• #603: DOC: execute notebooks and ensure they're tested
• #264: ENH: Simple Building Volume Density
• #465: ENH: helper functions part 1
• #562: test efficiency of graphblas in straightness
• #602: API: return morphological tessellation as a GeoDataFrame
• #601: DOC: create usable env on RTD, update clustering
• #599: DOC: User guide refresh
• #598: DOC: note on a precision issue in enclosed_tessellation
• #597: DOC: rework API docs around the new functional stuff
• #596: COMPAT: numpy 2.0 compatibility
• #585: Functional count
• #594: DEP: bump libpysal minimum to 4.11
• #406: API: deprecation decorators for transition to functional API
• #317: Add citation.cff
• #310: ENH: refactor get_network_id based on sindex.nearest_all
• #359: Add osmnx_like keyword to gdf_to_nx
• #478: Enclosure function does not work correctly
• #525: Networkx deprecations
• #497: Resolve geopandas deprecations
• #577: more complete linting & formatting - docs & benchmarks
• #578: linting & formatting for benchmarks/* and docs/*

<a name="spreg-v1.5.0"></a>

spreg v1.5.0

• #138: Minor adjustments to printouts and spatial impacts
• #136: Version 1.5
• #137: Update unittests.yml -- manual trigger
• #130: Bump actions/github-script from 6 to 7
• #131: Bump conda-incubator/setup-miniconda from 2 to 3
• #133: Bump actions/cache from 3 to 4
• #134: Bump codecov/codecov-action from 3 to 4

<a name="mapclassify-v2.7.0"></a>

mapclassify v2.7.0

• #211: WIP classify to rgba
• #216: plot histogram with class bins
• #221: [pre-commit.ci] pre-commit autoupdate
• #215: Add monthly downloads badge to README
• #217: doctest failures [2024-06-23]
• #220: CI: test against Python 3.12
• #219: CI: doctest only on ubuntu latest
• #218: CI: ensure 3.9 envs are compatible
• #214: [CI] failing dev from libpysal.graph --> numpy.float_
• #210: COMPAT: make greedy compatible with future
• #209: 311-dev CI failures [2024-04-01]
• #208: [pre-commit.ci] pre-commit autoupdate
• #207: 311-dev CI failures [2024-03-16]
• #206: Bump codecov/codecov-action from 3 to 4

<a name="spopt-v0.6.1"></a>

spopt v0.6.1

• #457: fix numpy=2.0.0 compat -- #456
• #456: numpy>=2.0 failures -- [2024-06-19]
• #454: add OR_classic_problem to README
• #449: testing code cleanup
• #452: numpy DeprecationWarning within pyproj
• #451: codecov acting up a bit – update action
• #450: "Generate and publish the report" not working - remove
• #448: better raises/warns control + DRY out testing
• #453: FutureWarning: The 'unary_union' attribute is deprecated – ignore for now?
• #437: work on resolving warning in CI (2024-01)
• #447: Fix service radius in LSCP GIS notebook
• #446: Unable to run through LSCP example
• #445: [pre-commit.ci] pre-commit autoupdate
• #444: re- lint & re-format repo – #438
• #438: lint spopt/tests/*
• #443: 312-dev CI failures [2024-03-17]

<a name="pysal-v24.07rc4"></a>

pysal v24.07rc4

• #1343: Move release tooling to modules out of notebooks
• #1344: Move build tooling into scripts and remove notebooks
• #1342: Update release tooling for 24.01rc2
• #1332: Fix README.md package links
• #1336: PR template & contrib updates
• #1335: update PULL_REQUEST_TEMPLATE.md
• #1334: update chat link in CONTRIBUTING.md
• #1329: explicit intel chip test for macOS
• #1328: update README format badge
• #1327: update black -> ruff badge on README
• #1188: new open-source alternative to GitHub
• #1164: spatialpandas?
• #1301: Pin on dependencies
• #1325: Update build instructions in tools
• #1326: prune tools dir - #1320
• #1320: pruning the tools/ directory
• #1321: release action update & general cleaning up
• #1319: remove gitreleases.ipynb?
• #1318: remove MIGRATING.md?
• #1317: need for Makefile?
• #1316: remove .coveragerc
• #1315: remove MANIFEST.in
• #1314: remove requirements*.txt files
• #1313: update release_and_publish.yml
• #1312: 24.07rc1
• #1306: remove legacy ci/travis/38-latest-conda-forge.yaml
• #1307: migrate from setup.py, etc. to consolidated pyproject.toml
• #1311: Fix doc build
• #1294: TypeError: float() argument must be a string or a number, not 'Point'
• #1275: PySAL GSOC 2023
• #1258: GSoC 2022 Interfaces for Consistent API Design: Library-wide Discussion
• #1254: Spatiol Temporal Prediction
• #1246: Move to single directory and auto generate/publish docs
• #1299: update unittests.yml workflow
• #1310: add action for building docs
• #1305: ci update
• #1308: Dead link alert
• #1309: Fix nb links
• #1198: Fedora 33 with LLVM 11 and Python 3.9 breaks giddy and splot installation
• #1302: pin packages in requirements.txt
• #1303: Bump softprops/action-gh-release from 1 to 2
• #1297: update chat links: gitter >> discord

<a name="contributors"></a>

Contributors

Many thanks to all of the following individuals who contributed to this release:

• Anastassiavybornova
• Anna Brazdova
• Daniela Dančejová
• Eli Knaap
• Elliott Sales De Andrade
• Germano Barcelos
• James Gaboardi
• Krasen Samardzhiev
• Levi John Wolf
• Lisa
• Luc Anselin
• Marek Novotný
• Martin Fleischmann
• Pedro Amaral
• Ryanzomorrodi
• Serge Rey
• Stevee404