Install issue about genewalk HOT 8 CLOSED

Hi @npokorzynski, I suspect the issue is that gensim (https://pypi.org/project/gensim/) doesn't build correctly under Python 3.9 on your environment. I tried doing

$ python3 -m venv tutorial-env
$ source tutorial-env/bin/activate
$ pip install genewalk

on a Mac with Python 3.9 and it actually worked for me so I'm not sure what the specific issue is. If you can't get the installation to work, we also supply a Dockerfile: https://github.com/churchmanlab/genewalk/blob/master/Dockerfile from which you can build a containerized environment for GeneWalk and work with it that way.

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@bgyori believe it or not but the Dockerfile produces the same issue with gensim. I was also unable to install gensim by itself, but again I'm not sure why. Any recommendations for a hard reset type of fix?

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Do you happen to be using one of the new Macs with an M1 processor? It's possible that due to the different architecture, gensim isn't compatible with that, and using Docker wouldn't help in that case.

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@bgyori no fancy processor here, just an Intel i7

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Check the logs for full command output.
Did you find a program log file alongside the gensim install error? If so, could you share that with us?

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@ri23 I'm not sure if I found a program log file, though an entire program log was output with the error. I could share that if it helps.

For what its worth, I was able to get genewalk to work on another Mac with MacOS v11.2 and Python v3.8 using the same code as above.

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If you try pip install gensim, do you get the same error? If you do, it might be possible to get more help directly from gensim: https://github.com/RaRe-Technologies/gensim/issues.

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@bgyori yea, I do get the same error. I'll follow up with gensim and see what they have to say. I can close this out for the time being since I have genewalk working on another computer. Thanks for the help!

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