search

bioAI-Oslo / Spikeometric

Spiking Neural Network Simulator based on Generalized Linear Models
GNU General Public License v3.0
7 stars 1 forks source link

Dependency mismatch between pip package and source #12

Closed Saran-nns closed 1 year ago

Saran-nns commented 1 year ago

Hi team,

As part of Joss Review

Installation through pip as mentioned in the documentation works, but when i try to install it from source pip install -r requirements.txt, there are version conflicts, showing there are mismatch in required dependencies between the python package and source.

ERROR: pip's dependency resolver does not currently take into account all the packages that are installed. This behaviour is the source of the following dependency conflicts. spikeometric 1.0.2 requires seaborn<0.13.0,>=0.12.2, but you have seaborn 0.11.2 which is incompatible. Successfully installed seaborn-0.11.2

Also, when i install the package using the source in colab environment, received several dependencies conflict with the latest stable versions in colab. See https://colab.research.google.com/drive/1l8Y3So5uBXl4kA_6jvpkvyZOILVjdrHK#scrollTo=7S0xGBPE_pqK

Looks like package requirements/dependencies are not defined clearly or at least not at their latest stable versions.

thanks saran

JakobSonstebo commented 1 year ago

Hi! Thank you for bringing this to our attention. I will look into to it now.

JakobSonstebo commented 1 year ago

Hi again! Requirements now specifies seaborn>=0.12.2 like it should, and installing from source seems to work for me in colab. To install only the packages needed for use please use the requirements.txt file. Colab doesn't like to reinstall jupyter notebook related packages, which have now been moved to requirements_dev.txt together with other packages only needed for documentation and testing purposes.