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Extra coordinates should be considered when converting grid to table
Description of the problem:
When passing an xarray.DataArray that contains extra coordinates (e.g. a 2D upward coordinate) to the verde.grid_to_table function, the resulting pandas.Dataframe doesn't include a column for it.
Full code that generated the error
import ensaio
import xarray as xr
import verde as vd
fname = ensaio.fetch_lightning_creek_magnetic(version=1)
grid = xr.load_dataarray(fname)
print("Xarray grid")
print("===========")
print(grid)
table = vd.grid_to_table(grid)
print("\nPandas Dataframe")
print("================")
print(table)
Output
The height coordinate in the xarray object is not present in the resulting pandas Dataframe:
Xarray grid
===========
<xarray.DataArray 'total_field_anomaly' (northing: 370, easting: 346)>
array([[ 35. , 36.19995 , 36.69995 , ..., -101.099976 ,
-100.400024 , -99.599976 ],
[ 36.5 , 37.599976 , 38. , ..., -102.20007 ,
-101.5 , -100.70007 ],
[ 37.099976 , 38.19995 , 38.599976 , ..., -103.30005 ,
-102.599976 , -101.900024 ],
...,
[ 182.79993 , 172.40002 , 160.79993 , ..., 0.79992676,
-24.200073 , -41.80005 ],
[ 182.09998 , 172.59998 , 161.40002 , ..., 6. ,
-21.5 , -41. ],
[ 178.79993 , 170.40002 , 160.29993 , ..., 11.400024 ,
-16. , -35.80005 ]], dtype=float32)
Coordinates:
* easting (easting) float64 4.655e+05 4.656e+05 ... 4.827e+05 4.828e+05
* northing (northing) float64 7.576e+06 7.576e+06 ... 7.595e+06 7.595e+06
height (northing, easting) float64 500.0 500.0 500.0 ... 500.0 500.0
Attributes:
Conventions: CF-1.8
title: Magnetic total-field anomaly of the Lightning Creek sill c...
crs: proj=utm zone=54 south datum=WGS84 units=m no_defs ellps=W...
source: Interpolated from airborne magnetic line data using gradie...
license: Creative Commons Attribution 4.0 International Licence
references: Geophysical Acquisition & Processing Section 2019. MIM Dat...
long_name: total-field magnetic anomaly
units: nT
actual_range: [-1785. 3798.]
Pandas Dataframe
================
northing easting total_field_anomaly
0 7.576369e+06 465533.31768 35.000000
1 7.576369e+06 465583.31768 36.199951
2 7.576369e+06 465633.31768 36.699951
3 7.576369e+06 465683.31768 36.599976
4 7.576369e+06 465733.31768 36.299927
... ... ... ...
128015 7.594819e+06 482583.31768 78.599976
128016 7.594819e+06 482633.31768 43.699951
128017 7.594819e+06 482683.31768 11.400024
128018 7.594819e+06 482733.31768 -16.000000
128019 7.594819e+06 482783.31768 -35.800049
[128020 rows x 3 columns]
System information
- Operating system: Manjaro XFCE
- Python installation (Anaconda, system, ETS): Miniforge
- Version of Python: 3.10.9
- Version of this package: 'v1.7.0.post25+g0a4478a'
- If using conda, paste the output of
conda listbelow:
Output of conda list
packages in environment at /home/santi/.mambaforge/envs/verde:
Name Version Build Channel
_libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 2_gnu conda-forge alabaster 0.7.13 pyhd8ed1ab_0 conda-forge alsa-lib 1.2.8 h166bdaf_0 conda-forge arrow-cpp 11.0.0 ha770c72_9_cpu conda-forge astor 0.8.1 pyh9f0ad1d_0 conda-forge asttokens 2.2.1 pyhd8ed1ab_0 conda-forge attr 2.5.1 h166bdaf_1 conda-forge attrs 22.2.0 pyh71513ae_0 conda-forge aws-c-auth 0.6.25 haec726b_4 conda-forge aws-c-cal 0.5.21 hb6b25a1_1 conda-forge aws-c-common 0.8.12 h0b41bf4_0 conda-forge aws-c-compression 0.2.16 hea85486_4 conda-forge aws-c-event-stream 0.2.20 hddb6542_2 conda-forge aws-c-http 0.7.5 hdfd1699_3 conda-forge aws-c-io 0.13.18 hf4b7f4e_3 conda-forge aws-c-mqtt 0.8.6 hfdaba90_9 conda-forge aws-c-s3 0.2.5 hf4c50b5_5 conda-forge aws-c-sdkutils 0.1.7 hea85486_4 conda-forge aws-checksums 0.1.14 hea85486_4 conda-forge aws-crt-cpp 0.19.8 h30838a0_6 conda-forge aws-sdk-cpp 1.10.57 hd18c533_7 conda-forge babel 2.12.1 pyhd8ed1ab_1 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 4.11.2 pyha770c72_0 conda-forge black 23.1.0 py310hff52083_0 conda-forge bleach 6.0.0 pyhd8ed1ab_0 conda-forge blosc 1.21.3 hafa529b_0 conda-forge bokeh 2.4.3 pyhd8ed1ab_3 conda-forge boost-cpp 1.78.0 h75c5d50_1 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 build 0.7.0 pyhd8ed1ab_0 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 cartopy 0.21.1 py310hcb7e713_0 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 cftime 1.6.2 py310hde88566_1 conda-forge charset-normalizer 2.1.1 pyhd8ed1ab_0 conda-forge click 8.1.3 unix_pyhd8ed1ab_2 conda-forge cloudpickle 2.2.1 pyhd8ed1ab_0 conda-forge cmarkgfm 0.8.0 py310h5764c6d_2 conda-forge colorama 0.4.6 pyhd8ed1ab_0 conda-forge coverage 7.2.1 py310h1fa729e_0 conda-forge cryptography 39.0.2 py310h34c0648_0 conda-forge curl 7.88.1 hdc1c0ab_0 conda-forge cycler 0.11.0 pyhd8ed1ab_0 conda-forge cytoolz 0.12.0 py310h5764c6d_1 conda-forge dask 2023.3.1 pyhd8ed1ab_0 conda-forge dask-core 2023.3.1 pyhd8ed1ab_0 conda-forge dbus 1.13.6 h5008d03_3 conda-forge dcw-gmt 2.1.1 ha770c72_0 conda-forge decorator 5.1.1 pyhd8ed1ab_0 conda-forge distributed 2023.3.1 pyhd8ed1ab_0 conda-forge docutils 0.17.1 py310hff52083_3 conda-forge ensaio 0.5.0 pyhd8ed1ab_0 conda-forge exceptiongroup 1.1.0 pyhd8ed1ab_0 conda-forge executing 1.2.0 pyhd8ed1ab_0 conda-forge expat 2.5.0 h27087fc_0 conda-forge fftw 3.3.10 nompi_hf0379b8_106 conda-forge flake8 6.0.0 pyhd8ed1ab_0 conda-forge flake8-bugbear 23.2.13 pyhd8ed1ab_0 conda-forge flake8-builtins 2.1.0 pyhd8ed1ab_0 conda-forge flake8-functions 0.0.7 pyhd8ed1ab_0 conda-forge flake8-mutable 1.2.0 py_1 conda-forge flake8-rst-docstrings 0.3.0 pyhd8ed1ab_0 conda-forge flake8-simplify 0.19.3 pyhd8ed1ab_0 conda-forge flake8-unused-arguments 0.0.13 pypi_0 pypi 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 4.39.0 py310h1fa729e_0 conda-forge freetype 2.12.1 hca18f0e_1 conda-forge freexl 1.0.6 h166bdaf_1 conda-forge fsspec 2023.3.0 pyhd8ed1ab_1 conda-forge gdal 3.6.2 py310hc1b7723_1 conda-forge geos 3.11.1 h27087fc_0 conda-forge geotiff 1.7.1 h7157cca_5 conda-forge gettext 0.21.1 h27087fc_0 conda-forge gflags 2.2.2 he1b5a44_1004 conda-forge ghostscript 9.54.0 h27087fc_2 conda-forge giflib 5.2.1 h36c2ea0_2 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 gmt 6.4.0 h8b1eae8_6 conda-forge graphite2 1.3.13 h58526e2_1001 conda-forge gshhg-gmt 2.3.7 ha770c72_1003 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 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 imagesize 1.4.1 pyhd8ed1ab_0 conda-forge importlib-metadata 6.0.0 pyha770c72_0 conda-forge importlib_metadata 6.0.0 hd8ed1ab_0 conda-forge importlib_resources 5.12.0 pyhd8ed1ab_0 conda-forge iniconfig 2.0.0 pyhd8ed1ab_0 conda-forge ipython 8.11.0 pyh41d4057_0 conda-forge isort 5.12.0 pyhd8ed1ab_1 conda-forge jack 1.9.22 h11f4161_0 conda-forge jaraco.classes 3.2.3 pyhd8ed1ab_0 conda-forge jedi 0.18.2 pyhd8ed1ab_0 conda-forge jeepney 0.8.0 pyhd8ed1ab_0 conda-forge jinja2 3.1.2 pyhd8ed1ab_1 conda-forge joblib 1.2.0 pyhd8ed1ab_0 conda-forge jpeg 9e h0b41bf4_3 conda-forge json-c 0.16 hc379101_0 conda-forge kealib 1.5.0 ha7026e8_0 conda-forge keyring 23.13.1 py310hff52083_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 libarrow 11.0.0 h33598ff_9_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 2.66 ha37c62d_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_0 conda-forge libdap4 3.20.6 hd7c4107_2 conda-forge libdb 6.2.32 h9c3ff4c_0 conda-forge libdeflate 1.14 h166bdaf_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 libgdal 3.6.2 he31f7c0_1 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 h3c06191_0 conda-forge libgpg-error 1.46 h620e276_0 conda-forge libgrpc 1.51.1 hcf146ea_3 conda-forge libiconv 1.17 h166bdaf_0 conda-forge libkml 1.3.0 h37653c0_1015 conda-forge liblapack 3.9.0 16_linux64_openblas conda-forge libllvm11 11.1.0 he0ac6c6_5 conda-forge libllvm15 15.0.7 hadd5161_0 conda-forge libnetcdf 4.8.1 nompi_h261ec11_106 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 librttopo 1.1.0 ha49c73b_12 conda-forge libsndfile 1.2.0 hb75c966_0 conda-forge libspatialite 5.0.1 h7c8129e_22 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 252 h2a991cd_0 conda-forge libthrift 0.18.0 h5e4af38_0 conda-forge libtiff 4.5.0 h82bc61c_0 conda-forge libtool 2.4.7 h27087fc_0 conda-forge libudev1 253 h0b41bf4_0 conda-forge libutf8proc 2.8.0 h166bdaf_0 conda-forge libuuid 2.32.1 h7f98852_1000 conda-forge libvorbis 1.3.7 h9c3ff4c_0 conda-forge libwebp-base 1.2.4 h166bdaf_0 conda-forge libxcb 1.13 h7f98852_1004 conda-forge libxkbcommon 1.5.0 h79f4944_0 conda-forge libxml2 2.10.3 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h27087fc_0 conda-forge nss 3.88 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 3.0.8 h0b41bf4_0 conda-forge orc 1.8.2 hfdbbad2_2 conda-forge packaging 23.0 pyhd8ed1ab_0 conda-forge pandas 1.5.3 py310h9b08913_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 pathspec 0.11.0 pyhd8ed1ab_0 conda-forge pcre 8.45 h9c3ff4c_0 conda-forge pcre2 10.40 hc3806b6_0 conda-forge pep517 0.13.0 pyhd8ed1ab_0 conda-forge pep8-naming 0.13.3 pyhd8ed1ab_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 pkginfo 1.9.6 pyhd8ed1ab_0 conda-forge platformdirs 3.1.0 pyhd8ed1ab_0 conda-forge pluggy 1.0.0 pyhd8ed1ab_5 conda-forge ply 3.11 py_1 conda-forge pooch 1.7.0 pyhd8ed1ab_0 conda-forge 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conda-forge pyshp 2.3.1 pyhd8ed1ab_0 conda-forge pysocks 1.7.1 pyha2e5f31_6 conda-forge pytest 7.2.2 pyhd8ed1ab_0 conda-forge pytest-cov 4.0.0 pyhd8ed1ab_0 conda-forge pytest-mpl 0.16.1 pyhd8ed1ab_0 conda-forge python 3.10.9 he550d4f_0_cpython conda-forge python-dateutil 2.8.2 pyhd8ed1ab_0 conda-forge python_abi 3.10 3_cp310 conda-forge pytz 2022.7.1 pyhd8ed1ab_0 conda-forge pyyaml 6.0 py310h5764c6d_5 conda-forge qt-main 5.15.8 h5d23da1_6 conda-forge re2 2023.02.02 hcb278e6_0 conda-forge readline 8.1.2 h0f457ee_0 conda-forge readme_renderer 37.3 pyhd8ed1ab_0 conda-forge requests 2.28.2 pyhd8ed1ab_0 conda-forge requests-toolbelt 0.10.1 pyhd8ed1ab_0 conda-forge restructuredtext_lint 1.4.0 pyhd8ed1ab_0 conda-forge rfc3986 2.0.0 pyhd8ed1ab_0 conda-forge rich 13.3.2 pyhd8ed1ab_0 conda-forge s2n 1.3.38 h3358134_0 conda-forge scikit-learn 1.2.2 py310h209a8ca_0 conda-forge scipy 1.10.1 py310h8deb116_0 conda-forge secretstorage 3.3.3 py310hff52083_1 conda-forge setuptools 67.6.0 pyhd8ed1ab_0 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