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JaredJGartner / SB_neoantigen_Models

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Where can find functions4models.py? #3

Closed wanqiangdehuoguo closed 2 months ago

wanqiangdehuoguo commented 2 months ago

Hallo, I am currently working with the SB_neoantigen_Models and following the instructions provided in the instructions.txt file to run the model. According to the instructions, it says in line 70:

##unzip model and Edit functions4models.py in
cd SB_neoantigen_Models/src/models/
gunzip mmp_Model.pickle.gz
gunzip nmer_Model.pickle.gz
#Used text editor to change the paths to locations of IEDB Immunogenicity (beside to use .py3 file), and netmhcstabpan 
#immuno_loc = '/Users/gartnerjj/Desktop/SB_neoantigen_Models/src/immunogenicity/predict_immunogenicity.py3'
#netstab = '/Users/gartnerjj/Desktop/SB_neoantigen_Models/src/NetMHCStabpan1.0/netMHCstabpan-1.0/netMHCstabpan'

However, after cloning the project, I couldn't find the functions4models.py file in the SB_neoantigen_Models/src/models directory.

Could you please let me know where I can find this file or if it might be located elsewhere?

JaredJGartner commented 2 months ago

Sorry that should read prediction_models.py. You need to change the path in lines 30 and 32 in that file

On Mon, Sep 9, 2024 at 11:45 PM wanqiangdehuoguo @.***> wrote:

Hallo, I am currently working with the SB_neoantigen_Models and following the instructions provided in the instructions.txt file to run the model. According to the instructions, it says in line 70:

`##unzip model and Edit functions4models.py in cd SB_neoantigen_Models/src/models/ gunzip mmp_Model.pickle.gz gunzip nmer_Model.pickle.gz

Used text editor to change the paths to locations of IEDB Immunogenicity (beside to use .py3 file), and netmhcstabpan

immuno_loc = '/Users/gartnerjj/Desktop/SB_neoantigen_Models/src/immunogenicity/predict_immunogenicity.py3'

netstab = '/Users/gartnerjj/Desktop/SB_neoantigen_Models/src/NetMHCStabpan1.0/netMHCstabpan-1.0/netMHCstabpan'`

However, after cloning the project, I couldn't find the functions4models.py file in the SB_neoantigen_Models/src/models directory.

Could you please let me know where I can find this file or if it might be located elsewhere?

— Reply to this email directly, view it on GitHub https://github.com/JaredJGartner/SB_neoantigen_Models/issues/3, or unsubscribe https://github.com/notifications/unsubscribe-auth/AGF4RKKOOYCXI3J4PFUV4KLZVZTL7AVCNFSM6AAAAABN52HWCSVHI2DSMVQWIX3LMV43ASLTON2WKOZSGUYTKMZSHE3TQMA . You are receiving this because you are subscribed to this thread.Message ID: @.***>

wanqiangdehuoguo commented 2 months ago

Ok，thanks， i have already notice prediction_models.py in src.