Updated Python and PyMC, removed TensorFlow, and added PyTorch in conda environment.#8561

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samuelklee merged 10 commits intomasterfrom sl_python_version_update

Jul 9, 2024

+2,563-2,616

Commits on Jul 9, 2024

Updated Python and PyMC, removed TensorFlow, and added PyTorch in Docker and conda environments. Notable environment changes: python 3.6.10 -> 3.10.13, pymc 3.1 -> 5.10.0, theano 1.0.4 -> pytensor …
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Updated gCNV code to account for changes from PyMC3/Theano to PyMC/PyTensor.
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Updated gCNV integration tests.
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Updated gCNV WDL tests.
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Updated other tests and tools affected by environment changes.
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Reverted posterior sampling to online implementation.
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Updated localDevCondaEnv task in build.gradle.
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Addressed review comments and cleaned up TODOs.
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Released gatkbase-3.3.0 and updated Dockerfile.
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Added DeprecatedFeature tags to CNNScoreVariants, CNNVariantTrain, and CNNVariantWriteTensors.
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