RE: pickle package not found
This is to offer some guidance for those who wish to create a conda environment for chopchop (I couldn’t comment on the original post for some reason).
I found that this recipe worked:
conda install -c anaconda biopython pandas numpy scipy argparse mysql-python scikit-learn=0.18.1
A few warnings/errors pop up when the environment is activated, but everything seems to run without any issues.
Comments (7)
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but this works:
pip install pickle-mixin
(https://stackoverflow.com/questions/48477949/not-able-to-pip-install-pickle-in-python-3-6/48477988) -
reporter As far as I know, pickle is installed along with python by default as part of the standard library, so you don’t need to explicitly install it (which is why the recipe I provided works).
I’m not the developer (just thought I would help with the environment because I was able to get something working), so I can’t tell you whether or not there are plans to port chopchop to python3.
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Hi Andrew, Yes I know you are not responsible for this channel and I thanks you very much for your help, you allowed me install it and I am very grateful. The remark was for the developer who I hope will read it and consider the request.
Best
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We are porting chopchop to python 3, but this is work in progress. We need to make a lot of dependencies to docker etc., but in less than half a year it should be ready.
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I have added your conda recipe to the readme for now.
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pip install pickle
also fails and warns that python 2.7 is discontinued.Are there plans to port chopchop to python3?