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When executing a script using pandas I get this error:

ValueError: numpy.dtype size changed, may indicate binary incompatibility. Expected 96 from C header, got 88 from PyObject

Which I've gleaned from this thread is because it's calling a too recent version of numpy, and i need to install an earlier version.

The github repo I'm running the script from references numpy 1.5.2 so I ran:

pip install numpy==1.5.2

which results in this output:

ERROR: Ignored the following versions that require a different python version: 1.21.2 Requires-Python >=3.7,<3.11; 1.21.3 Requires-Python >=3.7,<3.11; 1.21.4 Requires-Python >=3.7,<3.11; 1.21.5 Requires-Python >=3.7,<3.11; 1.21.6 Requires-Python >=3.7,<3.11
ERROR: Could not find a version that satisfies the requirement numpy==1.5.2 (from versions: 1.3.0, 1.4.1, 1.5.0, 1.5.1, 1.6.0, 1.6.1, 1.6.2, 1.7.0, 1.7.1, 1.7.2, 1.8.0, 1.8.1, 1.8.2, 1.9.0, 1.9.1, 1.9.2, 1.9.3, 1.10.0.post2, 1.10.1, 1.10.2, 1.10.4, 1.11.0, 1.11.1, 1.11.2, 1.11.3, 1.12.0, 1.12.1, 1.13.0, 1.13.1, 1.13.3, 1.14.0, 1.14.1, 1.14.2, 1.14.3, 1.14.4, 1.14.5, 1.14.6, 1.15.0, 1.15.1, 1.15.2, 1.15.3, 1.15.4, 1.16.0, 1.16.1, 1.16.2, 1.16.3, 1.16.4, 1.16.5, 1.16.6, 1.17.0, 1.17.1, 1.17.2, 1.17.3, 1.17.4, 1.17.5, 1.18.0, 1.18.1, 1.18.2, 1.18.3, 1.18.4, 1.18.5, 1.19.0, 1.19.1, 1.19.2, 1.19.3, 1.19.4, 1.19.5, 1.20.0, 1.20.1, 1.20.2, 1.20.3, 1.21.0, 1.21.1, 1.22.0, 1.22.1, 1.22.2, 1.22.3, 1.22.4, 1.23.0, 1.23.1, 1.23.2, 1.23.3, 1.23.4, 1.23.5, 1.24.0, 1.24.1, 1.24.2, 1.24.3, 1.24.4, 1.25.0, 1.25.1, 1.25.2, 1.26.0, 1.26.1, 1.26.2, 1.26.3, 1.26.4, 2.0.0, 2.0.1, 2.0.2, 2.1.0rc1, 2.1.0, 2.1.1)
ERROR: No matching distribution found for numpy==1.5.2

So, I selected 1.6.0 from that list and ran pip install numpy==1.6.0 where I get this error I mentioned in the title.

Am I in a situation where my version of python is too new for an older version of numpy and my version of numpy is too new for the script I need to run?

I'm new to all this and any information, advice or general education would be greatly appreciated.

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  • Which version of Python are you running? Which OS is this on? Commented Sep 18, 2024 at 10:54
  • And which version of Pandas? Commented Sep 18, 2024 at 10:56
  • I'm running python 3.12 on Linux Mint and I can't figure out how to find out what version of pandas I have installed, but upon just trying to import pandas to discover this I get that same error: ValueError: numpy.dtype size changed, may indicate binary incompatibility. Expected 96 from C header, got 88 from PyObject ---- so actually it's nothing to do with the script I'm running. Is it that my version of numpy is incompatible with my version of pandas? Commented Sep 18, 2024 at 11:09

1 Answer 1

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This error is likely due to an incompatibility between your versions of NumPy and pandas. This often happens when the two libraries are built with different versions of their underlying C dependencies, leading to binary incompatibility.

First, check the installed versions of numpy and pandas using the following command:

python -c "import numpy; import pandas; print(f'NumPy version: {numpy.__version__}'); print(f'pandas version: {pandas.__version__}')"

Try reinstalling both numpy and pandas to ensure they are compatible and correctly installed:

pip uninstall numpy pandas
pip install numpy pandas

Install specific versions using:

pip install numpy==1.26.0 pandas==2.1.0

Additional Information:-

If you have other libraries that depend on NumPy or pandas (like SciPy or Matplotlib), they may also cause conflicts. You can check for package conflicts using:

pip check

This command will report any broken or incompatible packages.

Also, to avoid system-wide package conflicts, it's a good practice to create a virtual environment and install the necessary packages there:

python -m venv myenv
source myenv/bin/activate
pip install numpy pandas
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