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Update workflows#2

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rcannood merged 17 commits intomainopenproblems-bio/task_dimensionality_reduction:mainfrom update-workflowsopenproblems-bio/task_dimensionality_reduction:update-workflowsCopy head branch name to clipboardSep 18, 2024

+529-575

Commits

Commits on Sep 17, 2024

• use cxg_mouse_pancreas_atlas instead of pancreas

  rcannood

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  7757cee

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• update dependencies and remove unnecessary arguments

  rcannood

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  7f8a1ac

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• update scripts and test resources

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• fix paths

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• update benchmarking workflow

  rcannood

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  ca37020

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• update benchmark workflow

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  3ce419b

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• fix default

  rcannood

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• Rename "functionality_name" to "name"

  lazappi

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• Update benchmark workflow

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Commits on Sep 18, 2024

• Update run_benchmark workflow config

  lazappi

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• Set numpy<2.0.0 for pymde and phate methods

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• also create a state.yaml file

  rcannood

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• Update run_test_seqeracloud.sh script

  lazappi

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• Update run full benchmark scripts

  lazappi

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• Update CHANGELOG

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• Add all methods/metrics to benchmark workflow

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• Add dependencies to benchwark workflow config

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