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Implements SampledValue#262

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dylanhmorris merged 54 commits intomainCDCgov/PyRenew:mainfrom implements-timearrayCDCgov/PyRenew:implements-timearrayCopy head branch name to clipboardJul 26, 2024

+435-216

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Commits on Jul 10, 2024

• Adding information about future features for retrieving timeinfo

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• Updating to return TimeArray (WIP)

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• Working on tests (still 16 fails) [skip ci] expected to fail

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Commits on Jul 11, 2024

• Merge branch 'main' into implements-timearray

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• Merge branch 'main' into implements-timearray

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Commits on Jul 12, 2024

• Down to 5 errors

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• Down to 1 error

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Commits on Jul 17, 2024

• Fixing test. Next: merge conflicts

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• Fixing merge conflicts. Tests pass

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• Typo [skip ci]

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• Fixing tutorials

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• Merge branch 'implements-timearray' of github.com:CDCgov/multisignal-epi-inference into implements-timearray

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• Working on hosp admin tutorial (expected to fail)

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Commits on Jul 18, 2024

• Patching tutorial

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• Making pre-commit happy

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• Merge branch 'main' into implements-timearray

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Commits on Jul 22, 2024

• Addressing points by @damonbayer and @dylanhmorris

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• Merge branch 'implements-timearray' of github.com:CDCgov/multisignal-epi-inference into implements-timearray

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Commits on Jul 23, 2024

• Renaming TimeArray to SampledValue

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• Accessing values instead of arrays in SampledValue

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• Finalizing merge

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• Making pre-commit happy

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• Fixing tutorial

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Commits on Jul 24, 2024

• Merge branch 'main' into implements-timearray

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• Fixing last merge

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• Merge branch 'main' into implements-timearray

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• Addressing comments by @damonbayer.

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• Making pre-commit happy

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• SampledValues are an instance of NamedTuple

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• Adding suggestions by @dylanhmorris

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• Missing comment

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• Making pre-commit happy

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• Fixing infections with feedback

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• Removing explicit test call

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Commits on Jul 25, 2024

• Merge branch 'main' into implements-timearray

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• Fix pre-commit issues and remaining numpyro/npro conflicts

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• Addressing @dylanhmorris' comments on defaults for t_start and t_unit

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• Fixing merge

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• Forgot to remove a test call

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• Merge branch 'main' into implements-timearray

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• Merge branch 'main' into implements-timearray

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• Autoformat files, fix typo caught by typos hook

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• Update model/src/pyrenew/latent/infectionswithfeedback.py

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• Fix typo in infectionswithfeedback.py that caused ill-formed code and consequent test failures

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• Fix tutorial bug introduced in merge conflict resolution

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• Equality assertion => almost equality assertion

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• Set identical seeds

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• Fix another tutorial typo

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Commits on Jul 26, 2024

• Update model/src/pyrenew/deterministic/process.py

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• Fix type hinting for HospitalAdmissionsSample

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• Update determinsiticprocess docstring

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• Update vars => value in docstring for DeterministicVariable

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• Clarify relationship between t_start/t_unit of a RandomVariable and of a corresponding SampledValue

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• Update docs/source/tutorials/time.qmd

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