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DeepVirFinder gets stuck on some sequences #27

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runphaster opened this issue Aug 10, 2021 · 2 comments
Open

DeepVirFinder gets stuck on some sequences #27

runphaster opened this issue Aug 10, 2021 · 2 comments

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@runphaster
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I have a couple dozen sequences that were in my input files that cause the code to get stuck.
The load average goes to 0, and progress moving thru the input file ceases. I would like to forward my collection of sequences it gets stuck on so the problem can be debugged/identified going forward.

@444thLiao
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I also get the same situation. I guess mostly is a problem of multiprocessing since it usually gets stuck when the second time of 'processing line' was called.
Which mentioned should be located at nearly the line 183.

@SDquest
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SDquest commented Jan 22, 2022

It happened in my running too. I checked and found the reason is that DeepVirFinder can't handle sequences longer than 2.1Mb. I tried removing sequences longer than 2.1Mb in my input, and then DeepVirFinder works. I also tried inputting only one sequence with 2.8Mb length, DeepVirFinder got stuck for a few hours and can't predict it. When I cut this same sequence into two smaller subsequences (2.1Mb and 0.7Mb), DeepVirFinder predicted it successfully in a few minutes.

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