Use FUpred to split protein domain

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dh97
Posts: 6
Joined: Sun May 22, 2022 4:58 am

Use FUpred to split protein domain

Post by dh97 »

Hi, When I use FUpred to split the protein domain, I meet the following error:
`Compilation is falling back to object mode WITHOUT looplifting enabled because Function "cal_large_matrix1" failed type inference due to: Cannot determine Numba type of <class 'numba.core.dispatcher.LiftedLoop'>`
so, what's wrong, it seems that there are some files missing?
dh97
Posts: 6
Joined: Sun May 22, 2022 4:58 am

Re: Use FUpred to split protein domain

Post by dh97 »

oh, I directly use the example command:
./run-FUpred.pl ./example/6paxa.fasta
zcx@umich.edu
Posts: 24
Joined: Wed Nov 03, 2021 5:59 pm

Re: Use FUpred to split protein domain

Post by zcx@umich.edu »

This is just a warning from the contact predictor used by FUpred. It uses JIT compiler from numba. Without numba, the program will still run correctly, albeit slower.
dh97
Posts: 6
Joined: Sun May 22, 2022 4:58 am

Re: Use FUpred to split protein domain

Post by dh97 »

thanks, the problem has been solved, since I used pytorch==1.7.0 version, so there is something wrong with loading the model.
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