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pythonjupyter-notebookgoogle-cloud-datalab

Can't install basemap package in datalab notebook

I'm trying to run a script within a Google datalab Jupyter notebook that requires basemap, but I can't install this package. Yelsayed has pointed out that the module requires several dependencies, but even after building these the module won't install.

Here are the dependencies that I believe need to be installed:

!pip install Cython

!apt-get update && apt-get install -y gcc

!pip install pyproj

!pip install GEOS

These install without event. Finally basemap itself which again Yelsayed has pointed out needs to be done with the following:

!pip install https://downloads.sourceforge.net/project/matplotlib/matplotlib-toolkits/basemap-1.0.7/basemap-1.0.7.tar.gz

This takes time to install and seems to show promise, but ultimately it gets to 99% installed and then outputs "killed":

Collecting https://downloads.sourceforge.net/project/matplotlib/matplotlib-toolkits/basemap-1.0.7/basemap-1.0.7.tar.gz
Downloading https://downloads.sourceforge.net/project/matplotlib/matplotlib-toolkits/basemap-1.0.7/basemap-1.0.7.tar.gz (129.7MB)
99% |############################### | 129.7MB 154kB/s eta 0:00:01Killed

The "Killed" at end seems to indicate it ultimately hasn't worked. It does this reliably, re-attempting the above call fails in the same way. In any case I gave importing the module a go, but still get the same error:

ImportError: No module named basemap

Why is this happening and how do you successfully install basemap in this environment?

Solution

  • It doesn't look like basemap is hosted on PyPI due to size. Look at the install instructions on https://github.com/matplotlib/basemap.

    You can just use their direct link for v1.0.7:

    !pip install https://downloads.sourceforge.net/project/matplotlib/matplotlib-toolkits/basemap-1.0.7/basemap-1.0.7.tar.gz

    EDIT

    Here's some more breakdown of installing the prerequisites as well, run all the following in notebook cells:

    GEOS:

    Your best bet is to install it directly from apt to avoid versioning issues. You can do:

    %bash
apt-get update && apt-get install -y build-essential libgeos-3.4.2 libgeos-c1 libgeos++-dev

    pyproj, pyshp

    You then install the python dependencies, using pip easily:

    %bash
pip install pyproj pyshp

    basemap

    Then you can install the basemap package using the link above:

    %bash
!pip install https://downloads.sourceforge.net/project/matplotlib/matplotlib-toolkits/basemap-1.0.7/basemap-1.0.7.tar.gz

    You can then import the basemap class:

    from mpl_toolkits.basemap import Basemap