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  • Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" · 6 ✖
id html_url issue_url node_id user created_at updated_at ▲ author_association body reactions performed_via_github_app issue
1535347180 https://github.com/pydata/xarray/issues/7705#issuecomment-1535347180 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85bg4ns psychemedia 82988 2023-05-04T20:07:27Z 2023-05-04T20:07:27Z NONE

As well as libgdal-dev I noticed that g++ was also required for the Fiona wheel build.

 
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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877
1494573149 https://github.com/pydata/xarray/issues/7705#issuecomment-1494573149 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85ZFWBd jhamman 2443309 2023-04-03T15:52:04Z 2023-04-03T15:52:04Z MEMBER

Thanks for following up @28raining. Based on your response, I'm going to close this as it doesn't seem that Xarray is the issue. 

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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877
1492669575 https://github.com/pydata/xarray/issues/7705#issuecomment-1492669575 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85Y-FSH abunimeh 8106823 2023-03-31T22:12:48Z 2023-03-31T22:12:48Z NONE

run RUN apt-get update && apt-get install --yes libgdal-dev before pip 

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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877
1492664577 https://github.com/pydata/xarray/issues/7705#issuecomment-1492664577 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85Y-EEB 28raining 18679628 2023-03-31T22:04:26Z 2023-03-31T22:04:26Z NONE

Thanks. Note same error on Python 3.9.6.

I have filed a ticket on Rasterio then https://github.com/rasterio/rasterio/issues/2801

 
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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877
1492630943 https://github.com/pydata/xarray/issues/7705#issuecomment-1492630943 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85Y972f jhamman 2443309 2023-03-31T21:28:14Z 2023-03-31T21:28:14Z MEMBER

This doesn't seem like an issue with Xarray. If you change your dockerfile to:

FROM python:3.11.2-slim RUN /usr/local/bin/python -m pip install --upgrade pip RUN pip install xarray RUN pip install rasterio

I suspect you will find that you get the same error on the rasterio line and not on the xarray line.

A second note: Xarray and netcdf4 have not released complete support for python 3.11. For that reason, you may also want to use the python 3.10 image.

 
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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877
1492580615 https://github.com/pydata/xarray/issues/7705#issuecomment-1492580615 https://api.github.com/repos/pydata/xarray/issues/7705 IC_kwDOAMm_X85Y9vkH 28raining 18679628 2023-03-31T20:36:08Z 2023-03-31T20:36:08Z NONE

Note that it works outside of docker on my mac, and it also works inside of Docker on Centos

 
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   Using xarray in Docker on a mac fails with "No such file or directory: 'gdal-config'" 1649994877

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