cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/__init__.py)

[meniapi]

can someone help me? I get this error on Colab

_ImportError Traceback (most recent call last)
in ()
----> 1 from utils import collate_center, reaction_center_prediction, output_candidate_bonds_for_a_reaction

ImportError: cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/init.py)_

[mufeili]

This should import from this file rather than a package called utils. What's your current working directory?

[meniapi]

Hello, thank you for replying,

I run it on colab for the moment with the ipynb file, so my directory is the default (/content/) but even if I run it on visual studio it gives me the same error. Could you help please?

[mufeili]

What's your working directory? Have you tried changing working directory to examples/reaction_prediction/rexgen_direct?

[meniapi]

Hello again, I have changed the directory into this, /content/gdriveexamples/reaction_prediction/rexgen_direct With this command if IN_COLAB: # Mount the Google Drive at mount mount='/content/gdrive' print("Colab: mounting Google drive on ", mount) drive.mount(mount) # Switch to the directory on the Google Drive that you want to use import os drive_root = mount + "examples/reaction_prediction/rexgen_direct" # Create drive_root if it doesn't exist create_drive_root = True if create_drive_root: print("\nColab: making sure ", drive_root, " exists.") os.makedirs(drive_root, exist_ok=True) # Change to the directory print("\nColab: Changing directory to ", drive_root) %cd $drive_root But still I get this error --------------------------------------------------------------------------- ImportError Traceback (most recent call last) <ipython-input-12-79dc60fc4e75><https://zaplf02vclh-496ff2e9c6d22116-0-colab.googleusercontent.com/outputframe.html?vrz=colab-20220624-060043-RC00_456943075> in <module>() ----> 1 from utils import collate_center, reaction_center_prediction, output_candidate_bonds_for_a_reaction 2 3 max_k = 80 # Maximum number of candidate bond changes to select 4 5 full_data = [center_dataset[i] for i in range(len(center_dataset))] ImportError: cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/__init__.py) Can you help me please? From: Mufei Li ***@***.***> Date: Wednesday, 29 June 2022 at 10:47 To: awslabs/dgl-lifesci ***@***.***> Cc: Marinapres ***@***.***>, Author ***@***.***> Subject: Re: [awslabs/dgl-lifesci] cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/__init__.py) (Issue #183) What's your working directory? Have you tried changing working directory to examples/reaction_prediction/rexgen_direct? — Reply to this email directly, view it on GitHub<#183 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AZLT7ILK5EM6U3J7BONSHWTVRQEQRANCNFSM52B5M4SQ>. You are receiving this because you authored the thread.Message ID: ***@***.***>

[meniapi]

Hello again,

I have changed the directory into this,

/content/gdriveexamples/reaction_prediction/rexgen_direct

With this command

_if IN_COLAB:

Mount the Google Drive at mount

mount='/content/gdrive'
print("Colab: mounting Google drive on ", mount)

drive.mount(mount)_

_# Switch to the directory on the Google Drive that you want to use
import os
drive_root = mount + "examples/reaction_prediction/rexgen_direct"

Create drive_root if it doesn't exist

create_drive_root = True
if create_drive_root:
print("\nColab: making sure ", drive_root, " exists.")
os.makedirs(drive_root, exist_ok=True)

Change to the directory

print("\nColab: Changing directory to ", drive_root)
%cd $drive_root_

But still I get this error

ImportError Traceback (most recent call last)
in ()
----> 1 from utils import collate_center, reaction_center_prediction, output_candidate_bonds_for_a_reaction
2
3 max_k = 80 # Maximum number of candidate bond changes to select
4
5 full_data = [center_dataset[i] for i in range(len(center_dataset))]

ImportError: cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/init.py)

Can you help me please?

[mufeili]

I'm not familiar with Colab. What's the result of running the code snippet below?

import os
directory = os.getcwd()
print(directory)

If the directory is correct, then you will want to research about forcing relative import over absolute import in python.

[meniapi]

Hello, thank you for replying, I run it on colab for the moment with the ipynb file, so my directory is the default (/content/) but even if I run it on visual studio it gives me the same error. Could you help please? From: Mufei Li ***@***.***> Date: Wednesday, 29 June 2022 at 05:54 To: awslabs/dgl-lifesci ***@***.***> Cc: Marinapres ***@***.***>, Author ***@***.***> Subject: Re: [awslabs/dgl-lifesci] cannot import name 'collate_center' from 'utils' (/usr/local/lib/python3.7/dist-packages/utils/__init__.py) (Issue #183) This should import from this file<https://github.com/awslabs/dgl-lifesci/blob/master/examples/reaction_prediction/rexgen_direct/utils.py> rather than a package called utils. What's your current working directory? — Reply to this email directly, view it on GitHub<#183 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AZLT7IM6452GLYZNT3YY35DVRPCGTANCNFSM52B5M4SQ>. You are receiving this because you authored the thread.Message ID: ***@***.***>

[mufeili]

Could you provide detailed instructions for me to try reproducing the issue on visual studio?

• Your initial working directory
• How you invoked the program with visual studio, ideally with screenshots

Also I'm not sure if this is due to something wrong with your python path like pointing to a package called utils or pointing to a path where there is another utils file.