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Issue: undefined symbol: host_run_lstm_fwd96 #273

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tamara-nano opened this issue Jun 23, 2022 · 1 comment
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Issue: undefined symbol: host_run_lstm_fwd96 #273

tamara-nano opened this issue Jun 23, 2022 · 1 comment
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@tamara-nano
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tamara-nano commented Jun 23, 2022

Hello, I'm trying to get bonito running but I'm getting following issue on an ubuntu machine.

Traceback (most recent call last):
  File "/root/miniconda3/envs/py37/bin/bonito", line 5, in <module>
    from bonito import main
  File "/root/miniconda3/envs/py37/lib/python3.7/site-packages/bonito/__init__.py", line 2, in <module>
    from bonito.cli import basecaller, train, evaluate, view, convert, download, export
  File "/root/miniconda3/envs/py37/lib/python3.7/site-packages/bonito/cli/basecaller.py", line 17, in <module>
    from bonito.io import CTCWriter, Writer, biofmt
  File "/root/miniconda3/envs/py37/lib/python3.7/site-packages/bonito/io.py", line 21, in <module>
    from bonito.util import mean_qscore_from_qstring
  File "/root/miniconda3/envs/py37/lib/python3.7/site-packages/bonito/util.py", line 18, in <module>
    import koi.lstm
  File "/root/miniconda3/envs/py37/lib/python3.7/site-packages/koi/lstm.py", line 3, in <module>
    from _runtime import lib
ImportError: /root/miniconda3/envs/py37/lib/python3.7/site-packages/_runtime.abi3.so: undefined symbol: host_run_lstm_fwd96

With research I did find it might be an issue with gcc and that it can't call this shared library file but I'm stuck on how to resolve that (or if this is even the issue).

Thank you very much in advance :)

@iiSeymour iiSeymour self-assigned this Jun 24, 2022
@iiSeymour iiSeymour added the bug Something isn't working label Jun 24, 2022
@iiSeymour
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There was a problem with 3.7 koi wheel with is now fixed.

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