Error with Install of Gemelli standalone

[tmdoswald87]

Greetings, I am having some issues trying to install gemelli as a standalone outside of qiime2. The output states that there is no module named 'numpy' but I have installed. I can see it in my pip list too. Is there anything I can do differently to install this library?

[cameronmartino]

I @tmdoswald87,

Could you please copy/paste the whole error report? That would help me diagnose thee issue.

Thanks!

Cameron

[tmdoswald87]

please see the attachment and thank you!
-Thomas

[cameronmartino]

Hi @tmdoswald87 ,

I am unable to replicate the error, assuming numpy and Cython are already installed, I can get the same error if they are not.

Could you tell me the result of the commands:

• python -c 'import numpy; print(numpy.__version__)'
• python -c 'import cython; print(cython.__version__)'
• python --version

Additionally what operating system (and version) are you using?

That should verify that they are installed and the versions so I can try and replicate.

Thanks,

Cameron

[tmdoswald87]

I appreciate the time you are giving to assist with this

[cameronmartino]

Thanks, @tmdoswald87. Looping in @wasade because the issue seems to be in the iow install. Could you try installing after changing to cython version < 3 (e.g., cython==0.29.37)?

[tmdoswald87]

I'm afraid it looks like the same error.

[cameronmartino]

Thanks for confirming @tmdoswald87. Can you run pip install iow to make sure that is where things are breaking?

[wasade]

And what happens if numpy is installed explicitly prior?

Note we do not test iow on Windows, and given it is concerned with specific C types, it is more likely to be sensitive to Windows than vanilla Python

[tmdoswald87]

I am hesitant to install iow on my current device since I don't know that much about it, so I have switched to a different laptop. I am installing this through PyCharm. My python version is 3.11.3 and my pip list can be seen here:

Trying to install iow:

I also tried to follow the instructions given on the iow pypi page and it failed install as well. Found here: https://pypi.org/project/iow/#:~:text=Project%20description.%20Improved%20Octo

[wasade]

What happens if you do pip install --use-pep517 as suggested in the output?

[tmdoswald87]

[mariocastleg]

Hi,@tmdoswald87 were you finally able to install gemelli? I am facing the same issues as you did with the 'no module named numpy' message also after trying --use-pep517

Thanks in advance

My error also seems to come on the iow part

Collecting iow (from gemelli)
Using cached iow-1.0.7.tar.gz (1.2 MB)
Installing build dependencies ... done
Getting requirements to build wheel ... error
error: subprocess-exited-with-error