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Fix CI#741

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mikemhenry wants to merge 30 commits intomainchoderalab/openmmtools:mainfrom fix/get-ci-workingchoderalab/openmmtools:fix/get-ci-workingCopy head branch name to clipboard

+6,332-2,990

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Commits on Aug 15, 2024

• Fix CI

  mikemhenry

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  701dee8

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Commits on Aug 16, 2024

• remove dev openmm

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• see if this helps anything pass

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• pyupgrade

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• ruff-ed

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Commits on Aug 20, 2024

• converted to pytest, need to fix some yield tests

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  a7d0d08

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• convert yield tests

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• see if tests run on CI

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• pyupgrade

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• formatting

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• update versioneer

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• pin scipy to be older and exclude some matrix elements

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  da92d65

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• update codecov action

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  cf75e60

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• See if this helps to fix codecov

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  f3253ea

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• print cov report to terminal as well

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  43e974a

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• do a dev install

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  748ebd9

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Commits on Aug 21, 2024

• fix error serialization test

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  8a40a3e

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• include tests in coverage

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Commits on Aug 23, 2024

• missed a yield test

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• use pytest naming convention

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• need to call super so we don't hit a key error, the base class generates a system we need, also want to add to the existing cases and not get rid of the othe ones

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• needs to be a class setup and not method see https://docs.pytest.org/en/8.3.x/how-to/xunit_setup.html#class-level-setup-teardown

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Commits on Aug 24, 2024

• run setup on class, not method

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Commits on Aug 26, 2024

• Merge branch 'main' into fix/get-ci-working

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• mark test as flaky, should we run longer?

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  d1d5e5d

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• Merge remote-tracking branch 'refs/remotes/origin/fix/get-ci-working' into fix/get-ci-working

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• we don't need openeye

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• lets see how long the slow tests take

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Commits on Aug 27, 2024

• run daily at 7:00 UTC

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  415d943

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• rerun flaky tests up to 3 times

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