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interface_ppi_benchmark.ipynb, incorrect paths and missing benchmark data #3

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rubenalv opened this issue Jun 30, 2023 · 1 comment

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@rubenalv
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Hello, I noticed that some module calls do not match the directory structure in the .ipynb file.
Eg.
from config import config_model, config_data
should be (according to the github structure)
from model.config import config_model, config_data

Also, the benchmark data is missing in the github. Where could I retrieve it from?
dataset = Dataset("datasets/contacts_rr5A_64nn_8192.h5")

@Siirui
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Siirui commented Jul 10, 2023

@rubenalv The benchmark data is retrieved through processing/build_dataset.py. You should execute the script data/rsyncPDB.sh first to download the dataset. After processing the scripts above you can fetch the contacts_rr5A_64nn_8192.h5

@rubenalv rubenalv closed this as completed Aug 8, 2023
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