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Improved GPU utilization#2

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geertvandeweyer wants to merge 39 commits intoinvitae:masterinvitae/SpliceAI:masterfrom geertvandeweyer:mastergeertvandeweyer/SpliceAI:masterCopy head branch name to clipboard

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Commits

Commits on Nov 12, 2022

• reordered flow to only process full batches

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• sporadic missing predictions handling

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Commits on Nov 13, 2022

• print overall performance when batching

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Commits on Nov 14, 2022

• fix tensorflow batch size to actually use the provided size

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• revise logic to read parallel to prediction

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Commits on Nov 15, 2022

• disabled performance output on predict in illumina implementation

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• furhter optimization of gpu usage through offloading np-tensor conversion to cpu

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Commits on Nov 16, 2022

• add gc collect to original code to prevent oom kills

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• add long variant for all arguments

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• add dockerfile

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• moved docker directory

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• corrected long argument access

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• updated benchmarks

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• added docker link

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• small fix to dockerfile

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• small fix to dockerfile

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• fixed typo

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• fixed code layout

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• fixed code layout

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• fixed table layout

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• Update README.md

  geertvandeweyer

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Commits on Nov 28, 2022

• revised code to scale to multiple gpus

  geertvandeweyer

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Commits on Nov 29, 2022

• relocate annotation loader in worker

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• fix arguments

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• fix arguments

  geertvandeweyer

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• add small sleep investigating issues above 3 gpus

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• looking into startup issues

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• There is an issue when going above 2 GPUs

  geertvandeweyer

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• hide physical devices in batch workers to evaluate memory issues

  geertvandeweyer

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• pass nonmasked device to worker for correct shelf names

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• corrected arguments

  geertvandeweyer

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• final code cleanup

  geertvandeweyer

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Commits on Mar 16, 2023

• Added custom port option

  barneyhill

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Commits on Mar 18, 2023

• Merge pull request #1 from barneyhill/master

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  geertvandeweyer

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Commits on Mar 22, 2023

• Set default port

  matthiasblum

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• Add -P option to README

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Commits on Mar 23, 2023

• Merge pull request #2 from matthiasblum/master

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  geertvandeweyer

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Commits on Sep 9, 2024

• working on error handling to shutdown on issues

  geertvandeweyer

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Commits on Sep 13, 2024

• fix joining of workers

  geertvandeweyer

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