Qiime2-2017.8 installation: segmentation fault

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Thanks for sharing the output from those commands! Nothing looks suspicious here, there doesn't appear to be a conflicting install or pythonpath issues. Well that's good news!

Just to double-check something, can you run this command and send me the output?

ls -la $HOME/.local/lib

Let's also use gdb (a debugging tool) to find out more about the segmentation fault you're running into:

  1. Check if you have gdb installed by simply running gdb. If you receive an error stating "no such command", you'll need to install gdb. There's instructions here, you may need your system administrator to install it for you depending on your user permissions.

  2. Once you have gdb installed, run:

    gdb -ex r --args python -c "import qiime2.sdk; qiime2.sdk.PluginManager();"

    This should hopefully reproduce the segfault and drop you into a gdb debugger session.

  3. From within the gdb interactive shell, run:

    bt
py-bt

  4. Run the quit command to exit the gdb session.

Please send me all output from Steps 2 and 3 above. Thanks for bearing with me on debugging this!

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