Re: Problem loading numpy and other on a venv in a guix system

[mprodrigues@posteo.net]

Hi Wojtek,

thanks for your help, indeed setting LD_LIBRARY_PATH solves the issue, 
but it is less than ideal as I have to first
check exactly the PATH to set, and if I update guix this will also 
change I believe, still it is not so bad. I'd still like
to understand why this happens in the first place.

Best regards,
Mateus Rodrigues

On 29.11.2022 19:33, Wojtek Kosior wrote:
> Hi Mateus!
> 
> Indeed, when using virtualenv's numpy, this
> 
>     python3 -c 'import numpy'
> 
> fails with the error you posted. I seem to have been able to make numpy
> happy by instead running Python like
> 
> 
> LD_LIBRARY_PATH=/gnu/store/8qv5kb2fgm4c3bf70zcg9l6hkf3qzpw9-zlib-1.2.11/lib/
> python3 -c 'import numpy'
> 
> If you use the `--container` and `--emulate-fhs` options to
> `guix shell`, it is also possible to instead do
> 
>     LD_LIBRARY_PATH=/usr/lib/ python3 -c 'import numpy'
> 
> The `libz` guix package still needs to be included among the packages
> passed to `guix shell` in this last case.
> 
> Also, given you're using virtualenv, you might find the `--network`
> option to `guix shell` useful :)
> 
> I hope there isn't any dumb mistake in my solution... Good luck :)
> 
> Wojtek
> 
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> On Tue, 29 Nov 2022 16:42:14 +0000
> mprodrigues@posteo.net wrote:
> 
>> Hello,
>> 
>> I've been using a guix shell with a couple of python packages and it
>> works fine,
>> however I'd also like to keep the option of using a virtualenv if
>> possible, the
>> thing is I'm having problem running modules like numpy, that depend on
>> non
>> python dependencies. The error I get when I try to load numpy in a 
>> venv
>> is:
>> 
>> Importing the numpy C-extensions failed. This error can happen for 
>> many
>> reasons,
>> often due to issues with your setup or how NumPy was installed.
>> 
>> and in the end:
>> 
>> Original error was: libz.so.1: cannot open shared object file: No such
>> file or
>> directory
>> 
>> I have tried installing zlib directly, also tried to add my default
>> profile libs
>> path to the venv PATH, but to no avail until now.  How can I solve 
>> this?
>> Or
>> maybe someone can point me in the direction that I have to take to
>> properly
>> debug this.
>> 
>> Best regards,
>> Mateus Rodrigues
>>