Enclosure function does not work correctly

[virgilxw]

Describe the problem

I was using osmnx to generate a street network alongside a boundary shapefile. The enclosures came out malformed with many overlaps, causing problems when finding queen contiguity.

Steps to reproduce

The script that causes the problem can be found at https://github.com/virgilxw/momepy-test/blob/main/1-%20osmnx%20download.ipynb

It has been tested on two computers

Versions of your packages

# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       2_gnu    conda-forge
access                    1.1.8              pyhd8ed1ab_0    conda-forge
affine                    2.4.0              pyhd8ed1ab_0    conda-forge
alsa-lib                  1.2.8                h166bdaf_0    conda-forge
amply                     0.1.5              pyhd8ed1ab_0    conda-forge
anyio                     3.6.2                    pypi_0    pypi
appdirs                   1.4.4              pyh9f0ad1d_0    conda-forge
argon2-cffi               21.3.0                   pypi_0    pypi
argon2-cffi-bindings      21.2.0                   pypi_0    pypi
arrow                     1.2.3                    pypi_0    pypi
arrow-cpp                 11.0.0          ha770c72_12_cpu    conda-forge
asttokens                 2.2.1              pyhd8ed1ab_0    conda-forge
atk-1.0                   2.38.0               hd4edc92_1    conda-forge
attr                      2.5.1                h166bdaf_1    conda-forge
attrs                     22.2.0             pyh71513ae_0    conda-forge
aws-c-auth                0.6.26               hdca2abe_0    conda-forge
aws-c-cal                 0.5.21               h48707d8_2    conda-forge
aws-c-common              0.8.14               h0b41bf4_0    conda-forge
aws-c-compression         0.2.16               h03acc5a_5    conda-forge
aws-c-event-stream        0.2.20               h00877a2_4    conda-forge
aws-c-http                0.7.5                hf342b9f_5    conda-forge
aws-c-io                  0.13.19              hef0810e_1    conda-forge
aws-c-mqtt                0.8.6               h337b09f_11    conda-forge
aws-c-s3                  0.2.7                hde0a405_0    conda-forge
aws-c-sdkutils            0.1.8                h03acc5a_0    conda-forge
aws-checksums             0.1.14               h03acc5a_5    conda-forge
aws-crt-cpp               0.19.8              h85f3b07_11    conda-forge
aws-requests-auth         0.4.2                      py_0    conda-forge
aws-sdk-cpp               1.10.57              h17c43bd_8    conda-forge
backcall                  0.2.0              pyh9f0ad1d_0    conda-forge
backports                 1.0                pyhd8ed1ab_3    conda-forge
backports.functools_lru_cache 1.6.4              pyhd8ed1ab_0    conda-forge
beautifulsoup4            4.12.0             pyha770c72_0    conda-forge
bleach                    6.0.0                    pypi_0    pypi
blosc                     1.21.3               hafa529b_0    conda-forge
bokeh                     3.1.0              pyhd8ed1ab_0    conda-forge
boltons                   23.0.0             pyhd8ed1ab_0    conda-forge
boost-cpp                 1.78.0               h75c5d50_1    conda-forge
boto3                     1.26.99            pyhd8ed1ab_0    conda-forge
botocore                  1.29.99            pyhd8ed1ab_0    conda-forge
branca                    0.6.0              pyhd8ed1ab_0    conda-forge
brotli                    1.0.9                h166bdaf_8    conda-forge
brotli-bin                1.0.9                h166bdaf_8    conda-forge
brotlipy                  0.7.0           py310h5764c6d_1005    conda-forge
bzip2                     1.0.8                h7f98852_4    conda-forge
c-ares                    1.18.1               h7f98852_0    conda-forge
ca-certificates           2022.12.7            ha878542_0    conda-forge
cairo                     1.16.0            ha61ee94_1014    conda-forge
certifi                   2022.12.7          pyhd8ed1ab_0    conda-forge
cffi                      1.15.1          py310h255011f_3    conda-forge
cfitsio                   4.2.0                hd9d235c_0    conda-forge
charset-normalizer        3.1.0              pyhd8ed1ab_0    conda-forge
click                     8.1.3           unix_pyhd8ed1ab_2    conda-forge
click-plugins             1.1.1                      py_0    conda-forge
cligj                     0.7.2              pyhd8ed1ab_1    conda-forge
cloudpickle               2.2.1              pyhd8ed1ab_0    conda-forge
clustergram               0.7.0              pyhd8ed1ab_0    conda-forge
coin-or-cbc               2.10.8               h3786ebc_0    conda-forge
coin-or-cgl               0.60.6               h6f57e76_2    conda-forge
coin-or-clp               1.17.7               hc56784d_2    conda-forge
coin-or-osi               0.108.7              h2720bb7_2    conda-forge
coin-or-utils             2.11.6               h202d8b1_2    conda-forge
coincbc                   2.10.8            0_metapackage    conda-forge
colorama                  0.4.6              pyhd8ed1ab_0    conda-forge
comm                      0.1.3              pyhd8ed1ab_0    conda-forge
conda                     23.3.1          py310hff52083_0    conda-forge
conda-content-trust       0.1.3              pyhd8ed1ab_0    conda-forge
conda-libmamba-solver     23.1.0             pyhd8ed1ab_0    conda-forge
conda-package-handling    2.0.2              pyh38be061_0    conda-forge
conda-package-streaming   0.7.0              pyhd8ed1ab_1    conda-forge
contourpy                 1.0.7           py310hdf3cbec_0    conda-forge
cramjam                   2.6.2           py310h3392aa1_0    conda-forge
cryptography              40.0.1          py310h34c0648_0    conda-forge
curl                      7.88.1               hdc1c0ab_1    conda-forge
cycler                    0.11.0             pyhd8ed1ab_0    conda-forge
cytoolz                   0.12.0          py310h5764c6d_1    conda-forge
dask                      2022.11.0          pyhd8ed1ab_0    conda-forge
dask-core                 2022.11.0          pyhd8ed1ab_0    conda-forge
dask-geopandas            0.3.0              pyhd8ed1ab_0    conda-forge
dask-glm                  0.2.0                      py_1    conda-forge
dask-ml                   2023.3.24          pyhd8ed1ab_0    conda-forge
dbus                      1.13.6               h5008d03_3    conda-forge
debugpy                   1.6.6           py310heca2aa9_0    conda-forge
decorator                 5.1.1              pyhd8ed1ab_0    conda-forge
defusedxml                0.7.1                    pypi_0    pypi
deprecation               2.1.0              pyh9f0ad1d_0    conda-forge
descartes                 1.1.0                      py_4    conda-forge
distributed               2022.11.0          pyhd8ed1ab_0    conda-forge
docutils                  0.19            py310hff52083_1    conda-forge
entrypoints               0.4                pyhd8ed1ab_0    conda-forge
esda                      2.4.3              pyhd8ed1ab_0    conda-forge
exceptiongroup            1.1.1                    pypi_0    pypi
executing                 1.2.0              pyhd8ed1ab_0    conda-forge
expat                     2.5.0                h27087fc_0    conda-forge
fastparquet               2023.2.0        py310h0a54255_0    conda-forge
fftw                      3.3.10          nompi_hf0379b8_106    conda-forge
fiona                     1.9.1           py310ha325b7b_0    conda-forge
fmt                       9.1.0                h924138e_0    conda-forge
folium                    0.14.0             pyhd8ed1ab_0    conda-forge
font-ttf-dejavu-sans-mono 2.37                 hab24e00_0    conda-forge
font-ttf-inconsolata      3.000                h77eed37_0    conda-forge
font-ttf-source-code-pro  2.038                h77eed37_0    conda-forge
font-ttf-ubuntu           0.83                 hab24e00_0    conda-forge
fontconfig                2.14.2               h14ed4e7_0    conda-forge
fonts-conda-ecosystem     1                             0    conda-forge
fonts-conda-forge         1                             0    conda-forge
fonttools                 4.39.2          py310h1fa729e_0    conda-forge
fqdn                      1.5.1                    pypi_0    pypi
freetype                  2.12.1               hca18f0e_1    conda-forge
freexl                    1.0.6                h166bdaf_1    conda-forge
fribidi                   1.0.10               h36c2ea0_0    conda-forge
fsspec                    2023.3.0           pyhd8ed1ab_1    conda-forge
gdal                      3.6.2           py310hc1b7723_9    conda-forge
gdk-pixbuf                2.42.10              h05c8ddd_0    conda-forge
geographiclib             1.52               pyhd8ed1ab_0    conda-forge
geopandas                 0.12.2             pyhd8ed1ab_0    conda-forge
geopandas-base            0.12.2             pyha770c72_0    conda-forge
geopy                     2.3.0              pyhd8ed1ab_0    conda-forge
geos                      3.11.1               h27087fc_0    conda-forge
geotiff                   1.7.1                h7a142b4_6    conda-forge
gettext                   0.21.1               h27087fc_0    conda-forge
gflags                    2.2.2             he1b5a44_1004    conda-forge
giddy                     2.3.4              pyhd8ed1ab_0    conda-forge
giflib                    5.2.1                h0b41bf4_3    conda-forge
glib                      2.74.1               h6239696_1    conda-forge
glib-tools                2.74.1               h6239696_1    conda-forge
glog                      0.6.0                h6f12383_0    conda-forge
gmp                       6.2.1                h58526e2_0    conda-forge
gmpy2                     2.1.2           py310h3ec546c_1    conda-forge
graphite2                 1.3.13            h58526e2_1001    conda-forge
graphviz                  7.1.0                h2e5815a_0    conda-forge
gst-plugins-base          1.22.0               h4243ec0_2    conda-forge
gstreamer                 1.22.0               h25f0c4b_2    conda-forge
gstreamer-orc             0.4.33               h166bdaf_0    conda-forge
gtk2                      2.24.33              h90689f9_2    conda-forge
gts                       0.7.6                h64030ff_2    conda-forge
harfbuzz                  6.0.0                h8e241bc_0    conda-forge
hdf4                      4.2.15               h9772cbc_5    conda-forge
hdf5                      1.12.2          nompi_h4df4325_101    conda-forge
heapdict                  1.0.1                      py_0    conda-forge
icu                       70.1                 h27087fc_0    conda-forge
idna                      3.4                pyhd8ed1ab_0    conda-forge
importlib-metadata        6.1.0              pyha770c72_0    conda-forge
importlib_metadata        6.1.0                hd8ed1ab_0    conda-forge
importlib_resources       5.12.0             pyhd8ed1ab_0    conda-forge
inequality                1.0.0                      py_0    conda-forge
iniconfig                 2.0.0                    pypi_0    pypi
ipykernel                 6.22.0             pyh210e3f2_0    conda-forge
ipython                   8.11.0             pyh41d4057_0    conda-forge
ipython-genutils          0.2.0                    pypi_0    pypi
ipywidgets                8.0.5                    pypi_0    pypi
isoduration               20.11.0                  pypi_0    pypi
jack                      1.9.22               h11f4161_0    conda-forge
jedi                      0.18.2             pyhd8ed1ab_0    conda-forge
jinja2                    3.1.2              pyhd8ed1ab_1    conda-forge
jmespath                  1.0.1              pyhd8ed1ab_0    conda-forge
joblib                    1.2.0              pyhd8ed1ab_0    conda-forge
jpeg                      9e                   h166bdaf_2    conda-forge
json-c                    0.16                 hc379101_0    conda-forge
jsonlines                 1.2.0              pyh9f0ad1d_2    conda-forge
jsonpatch                 1.32               pyhd8ed1ab_0    conda-forge
jsonpointer               2.3                      pypi_0    pypi
jsonschema                4.17.3             pyhd8ed1ab_0    conda-forge
jupyter                   1.0.0                    pypi_0    pypi
jupyter-client            8.1.0                    pypi_0    pypi
jupyter-console           6.6.3                    pypi_0    pypi
jupyter-events            0.6.3                    pypi_0    pypi
jupyter-server            2.5.0                    pypi_0    pypi
jupyter-server-terminals  0.4.4                    pypi_0    pypi
jupyter_core              5.3.0           py310hff52083_0    conda-forge
jupyterlab-pygments       0.2.2                    pypi_0    pypi
jupyterlab_widgets        3.0.7              pyhd8ed1ab_0    conda-forge
kealib                    1.5.0                ha7026e8_0    conda-forge
keyutils                  1.6.1                h166bdaf_0    conda-forge
kiwisolver                1.4.4           py310hbf28c38_1    conda-forge
krb5                      1.20.1               h81ceb04_0    conda-forge
lame                      3.100             h166bdaf_1003    conda-forge
lcms2                     2.15                 hfd0df8a_0    conda-forge
ld_impl_linux-64          2.40                 h41732ed_0    conda-forge
lerc                      4.0.0                h27087fc_0    conda-forge
libabseil                 20230125.0      cxx17_hcb278e6_1    conda-forge
libaec                    1.0.6                hcb278e6_1    conda-forge
libarchive                3.6.2                h3d51595_0    conda-forge
libarrow                  11.0.0          h51ec05e_12_cpu    conda-forge
libblas                   3.9.0           16_linux64_openblas    conda-forge
libbrotlicommon           1.0.9                h166bdaf_8    conda-forge
libbrotlidec              1.0.9                h166bdaf_8    conda-forge
libbrotlienc              1.0.9                h166bdaf_8    conda-forge
libcap                    2.67                 he9d0100_0    conda-forge
libcblas                  3.9.0           16_linux64_openblas    conda-forge
libclang                  15.0.7          default_had23c3d_1    conda-forge
libclang13                15.0.7          default_h3e3d535_1    conda-forge
libcrc32c                 1.1.2                h9c3ff4c_0    conda-forge
libcups                   2.3.3                h36d4200_3    conda-forge
libcurl                   7.88.1               hdc1c0ab_1    conda-forge
libdb                     6.2.32               h9c3ff4c_0    conda-forge
libdeflate                1.17                 h0b41bf4_0    conda-forge
libedit                   3.1.20191231         he28a2e2_2    conda-forge
libev                     4.33                 h516909a_1    conda-forge
libevent                  2.1.10               h28343ad_4    conda-forge
libffi                    3.4.2                h7f98852_5    conda-forge
libflac                   1.4.2                h27087fc_0    conda-forge
libgcc-ng                 12.2.0              h65d4601_19    conda-forge
libgcrypt                 1.10.1               h166bdaf_0    conda-forge
libgd                     2.3.3                h5aea950_4    conda-forge
libgdal                   3.6.2                h6c674c2_9    conda-forge
libgfortran-ng            12.2.0              h69a702a_19    conda-forge
libgfortran5              12.2.0              h337968e_19    conda-forge
libglib                   2.74.1               h606061b_1    conda-forge
libgomp                   12.2.0              h65d4601_19    conda-forge
libgoogle-cloud           2.8.0                h0bc5f78_1    conda-forge
libgpg-error              1.46                 h620e276_0    conda-forge
libgrpc                   1.52.1               hcf146ea_1    conda-forge
libiconv                  1.17                 h166bdaf_0    conda-forge
libjpeg-turbo             2.1.4                h166bdaf_0    conda-forge
libkml                    1.3.0             h37653c0_1015    conda-forge
liblapack                 3.9.0           16_linux64_openblas    conda-forge
liblapacke                3.9.0           16_linux64_openblas    conda-forge
libllvm11                 11.1.0               he0ac6c6_5    conda-forge
libllvm15                 15.0.7               hadd5161_1    conda-forge
libmamba                  1.4.0                hcea66bb_0    conda-forge
libmambapy                1.4.0           py310h1428755_0    conda-forge
libnetcdf                 4.9.1           nompi_h34a3ff0_101    conda-forge
libnghttp2                1.52.0               h61bc06f_0    conda-forge
libnsl                    2.0.0                h7f98852_0    conda-forge
libogg                    1.3.4                h7f98852_1    conda-forge
libopenblas               0.3.21          pthreads_h78a6416_3    conda-forge
libopus                   1.3.1                h7f98852_1    conda-forge
libpng                    1.6.39               h753d276_0    conda-forge
libpq                     15.2                 hb675445_0    conda-forge
libprotobuf               3.21.12              h3eb15da_0    conda-forge
libpysal                  4.7.0              pyhd8ed1ab_0    conda-forge
librsvg                   2.54.4               h7abd40a_0    conda-forge
librttopo                 1.1.0               ha49c73b_12    conda-forge
libsndfile                1.2.0                hb75c966_0    conda-forge
libsodium                 1.0.18               h36c2ea0_1    conda-forge
libsolv                   0.7.23               h3eb15da_0    conda-forge
libspatialindex           1.9.3                h9c3ff4c_4    conda-forge
libspatialite             5.0.1               h221c8f1_23    conda-forge
libsqlite                 3.40.0               h753d276_0    conda-forge
libssh2                   1.10.0               hf14f497_3    conda-forge
libstdcxx-ng              12.2.0              h46fd767_19    conda-forge
libsystemd0               253                  h8c4010b_1    conda-forge
libthrift                 0.18.1               h5e4af38_0    conda-forge
libtiff                   4.5.0                h6adf6a1_2    conda-forge
libtool                   2.4.7                h27087fc_0    conda-forge
libudev1                  253                  h0b41bf4_1    conda-forge
libutf8proc               2.8.0                h166bdaf_0    conda-forge
libuuid                   2.38.1               h0b41bf4_0    conda-forge
libvorbis                 1.3.7                h9c3ff4c_0    conda-forge
libwebp                   1.2.4                h1daa5a0_1    conda-forge
libwebp-base              1.2.4                h166bdaf_0    conda-forge
libxcb                    1.13              h7f98852_1004    conda-forge
libxkbcommon              1.5.0                h79f4944_1    conda-forge
libxml2                   2.10.3               hca2bb57_4    conda-forge
libzip                    1.9.2                hc929e4a_1    conda-forge
libzlib                   1.2.13               h166bdaf_4    conda-forge
llvmlite                  0.39.1          py310h58363a5_1    conda-forge
locket                    1.0.0              pyhd8ed1ab_0    conda-forge
lz4                       4.3.2           py310h0cfdcf0_0    conda-forge
lz4-c                     1.9.4                hcb278e6_0    conda-forge
lzo                       2.10              h516909a_1000    conda-forge
mapclassify               2.5.0              pyhd8ed1ab_1    conda-forge
markupsafe                2.1.2           py310h1fa729e_0    conda-forge
matplotlib                3.7.1           py310hff52083_0    conda-forge
matplotlib-base           3.7.1           py310he60537e_0    conda-forge
matplotlib-inline         0.1.6              pyhd8ed1ab_0    conda-forge
mgwr                      2.1.2                      py_0    conda-forge
mistune                   2.0.5                    pypi_0    pypi
momepy                    0.5.4              pyhd8ed1ab_0    conda-forge
mpc                       1.3.1                hfe3b2da_0    conda-forge
mpfr                      4.2.0                hb012696_0    conda-forge
mpg123                    1.31.3               hcb278e6_0    conda-forge
mpmath                    1.3.0              pyhd8ed1ab_0    conda-forge
msgpack-python            1.0.5           py310hdf3cbec_0    conda-forge
multipledispatch          0.6.0                      py_0    conda-forge
munch                     2.5.0                      py_0    conda-forge
munkres                   1.1.4              pyh9f0ad1d_0    conda-forge
mysql-common              8.0.32               ha901b37_1    conda-forge
mysql-libs                8.0.32               hd7da12d_1    conda-forge
nbclassic                 0.5.3                    pypi_0    pypi
nbclient                  0.7.2                    pypi_0    pypi
nbconvert                 7.2.10                   pypi_0    pypi
nbformat                  5.8.0              pyhd8ed1ab_0    conda-forge
ncurses                   6.3                  h27087fc_1    conda-forge
nest-asyncio              1.5.6              pyhd8ed1ab_0    conda-forge
networkx                  3.0                pyhd8ed1ab_0    conda-forge
notebook                  6.5.3                    pypi_0    pypi
notebook-shim             0.2.2                    pypi_0    pypi
nspr                      4.35                 h27087fc_0    conda-forge
nss                       3.89                 he45b914_0    conda-forge
numba                     0.56.4          py310ha5257ce_0    conda-forge
numpy                     1.23.5          py310h53a5b5f_0    conda-forge
openjpeg                  2.5.0                hfec8fc6_2    conda-forge
openssl                   3.1.0                h0b41bf4_0    conda-forge
orc                       1.8.3                hfdbbad2_0    conda-forge
osmnx                     1.3.0              pyhd8ed1ab_0    conda-forge
packaging                 23.0               pyhd8ed1ab_0    conda-forge
pandas                    1.5.3           py310h9b08913_0    conda-forge
pandocfilters             1.5.0                    pypi_0    pypi
pango                     1.50.14              hd33c08f_0    conda-forge
parquet-cpp               1.5.1                         2    conda-forge
parso                     0.8.3              pyhd8ed1ab_0    conda-forge
partd                     1.3.0              pyhd8ed1ab_0    conda-forge
patsy                     0.5.3              pyhd8ed1ab_0    conda-forge
pcre2                     10.40                hc3806b6_0    conda-forge
pexpect                   4.8.0              pyh1a96a4e_2    conda-forge
pickleshare               0.7.5                   py_1003    conda-forge
pillow                    9.4.0           py310h023d228_1    conda-forge
pip                       23.0.1             pyhd8ed1ab_0    conda-forge
pixman                    0.40.0               h36c2ea0_0    conda-forge
pkgutil-resolve-name      1.3.10             pyhd8ed1ab_0    conda-forge
platformdirs              3.1.1              pyhd8ed1ab_0    conda-forge
pluggy                    1.0.0              pyhd8ed1ab_5    conda-forge
ply                       3.11                       py_1    conda-forge
pointpats                 2.3.0              pyhd8ed1ab_0    conda-forge
pooch                     1.7.0              pyha770c72_3    conda-forge
poppler                   23.03.0              h091648b_0    conda-forge
poppler-data              0.4.12               hd8ed1ab_0    conda-forge
postgresql                15.2                 h3248436_0    conda-forge
proj                      9.1.1                h8ffa02c_2    conda-forge
prometheus-client         0.16.0                   pypi_0    pypi
prompt-toolkit            3.0.38             pyha770c72_0    conda-forge
prompt_toolkit            3.0.38               hd8ed1ab_0    conda-forge
psutil                    5.9.4           py310h5764c6d_0    conda-forge
pthread-stubs             0.4               h36c2ea0_1001    conda-forge
ptyprocess                0.7.0              pyhd3deb0d_0    conda-forge
pulp                      2.7.0           py310hff52083_0    conda-forge
pulseaudio                16.1                 hcb278e6_3    conda-forge
pulseaudio-client         16.1                 h5195f5e_3    conda-forge
pulseaudio-daemon         16.1                 ha8d29e2_3    conda-forge
pure_eval                 0.2.2              pyhd8ed1ab_0    conda-forge
pyarrow                   11.0.0          py310h633f555_12_cpu    conda-forge
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zstd                      1.5.2                h3eb15da_6    conda-forge

Your operating system

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Additional context

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[martinfleis]

Thanks for the report. It is probably caused by improperly noded network. See this blogpost for details.

We should add an option to do noding prior polygonization in enclosures creation, probably defaulting to True. There was a similar discussion on geopandas / shapely sides to include noding in polygonization on lower level as well but we can do it here manually before that.

[virgilxw]

problem still persists. There are definitely issues tesselating limits that are multipolygons with empty spaces within.

[martinfleis]

Any chance you could provide a minimal reproducible example? The link above leads to 404 and I would need to be able to reproduce the issue to figure out what is wrong.

[virgilxw]

minimally reproducible example here: https://github.com/virgilxw/momepy-test/blob/b7ad44841f7f49791b060723f977968ce29d0611/processor/github_error_submission.ipynb

[martinfleis]

Sorry for a late response. However, that notebook is not a minimal reproducible example as it links to data I don't have access to (and don't want to as it will be large). Can you try to craft an example alongside this guide?

[martinfleis]

Closing as I currently cannot act on this due to missing reproducible example.