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adaptyvbio / ProteinFlow

Versatile computational pipeline for processing protein structure data for deep learning applications.
https://adaptyvbio.github.io/ProteinFlow/
BSD 3-Clause "New" or "Revised" License
176 stars 8 forks source link

pip install proteinflow fails in Colab #115

Closed ardagoreci closed 8 months ago

ardagoreci commented 9 months ago

Hello,

I had created a Google Colab notebook for data analysis, and it was working brilliantly. Thank you for creating such a great tool!

However, my Colab does not work anymore despite zero code changes. pip install proteinflow no longer seems to work. I am attaching the two command lines that can be used to reproduce the error:

Screen Shot 2023-10-07 at 14 29 17 Screen Shot 2023-10-07 at 14 29 28
danielnzg85 commented 8 months ago

It seems to be a conflict between the python 3.10 installation on Google Collab with some of the python dependencies. We are looking into solving this issue for the next releases. In the meantime, the workaround is to install ProteinFlow using the conda instalation.

#install condacolab
!pip install -q condacolab
import condacolab
condacolab.install()
​
#check conda version
!conda --version
​
#install proteinflow
!conda install -c conda-forge -c bioconda -c adaptyvbio proteinflow
elkoz commented 8 months ago

resolved in version 2.3.1