ModuleNotFoundError: No module named 'scrappy'

Question

ModuleNotFoundError: No module named 'scrappy'

HLHsieh opened this issue a year ago · comments

Hi there,

I followed the instructions and tried to test python3 train_biRNN.py, but I received the following error message:

Traceback (most recent call last):                                                                                                                             
  File "train_biRNN.py", line 7, in <module>                                                                                                                   
    from dataProcess.data_loading import *
  File "/hsinlun/bin/methBERT/methBERT/dataProcess/data_loading.py", line 3, in <module>
    from .ref_util import get_fast5s, sim_seq_singal, pdist
  File "hsinlun/bin/methBERT/methBERT/dataProcess/ref_util.py", line 10, in <module>
    import scrappy
ModuleNotFoundError: No module named 'scrappy'

I would appreciate any suggestions you may have for resolving this issue.

Thank you for your time and assistance.

Best regards,
Hsin

Yao-zhong Zhang · Answer 1 · Sat Apr 29 2023 12:57:50 GMT+0800 (China Standard Time)

HI, Hsin According to the message, your current environment requires scrappy package install https://github.com/nanoporetech/scrappie Or you can use our provided docker environment as in https://methbert.readthedocs.io/en/latest/installation.html

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On Apr 29, 2023, at 13:48, HLHsieh ***@***.***> wrote: Hi there, I followed the instructions and tried to test python3 train_biRNN.py, but I received the following error message: Traceback (most recent call last): File "train_biRNN.py", line 7, in <module> from dataProcess.data_loading import * File "/hsinlun/bin/methBERT/methBERT/dataProcess/data_loading.py", line 3, in <module> from .ref_util import get_fast5s, sim_seq_singal, pdist File "hsinlun/bin/methBERT/methBERT/dataProcess/ref_util.py", line 10, in <module> import scrappy ModuleNotFoundError: No module named 'scrappy' I would appreciate any suggestions you may have for resolving this issue. Thank you for your time and assistance. Best regards, Hsin — Reply to this email directly, view it on GitHub <#3>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAMX3IUHINDD5WTPVP7AS23XDSMQPANCNFSM6AAAAAAXP7CWLY>. You are receiving this because you are subscribed to this thread.

Yunqi Fu · Answer 2 · Mon Apr 29 2024 17:32:03 GMT+0800 (China Standard Time)

Hi, i have install scrappy package. But it doesn't work. Should I add it to pip PATH?

Yao-zhong Zhang · Answer 3 · Tue Apr 30 2024 07:02:24 GMT+0800 (China Standard Time)

HI, Larry Can you show the detailed error information?

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On Apr 29, 2024, at 18:32, Larry Foo ***@***.***> wrote: Hi, i have install scrappy package. But it doesn't work. Should I add it to pip PATH? — Reply to this email directly, view it on GitHub <#3 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAMX3IXRNHW3FKVXU6J2TX3Y7YHSTAVCNFSM6AAAAAAXP7CWL2VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDAOBSGI3TGMZRHA>. You are receiving this because you modified the open/close state.

Yunqi Fu · Answer 4 · Tue Apr 30 2024 13:04:46 GMT+0800 (China Standard Time)

Hi, yaozhong

I finally solve the problem. At first, I installed the scrappy, but it doesn't work. Then I find the python version of scrappy that can solve the problem.

Thank you for your time and assistance.

Best regards,
Larry Foo