Update analyze.yii fornew psii

[joshqsumner]

Describe your changes
Updates analyze.yii to use the changes to PSII_data class per #1926

Type of update
This is a feature update

Associated issues
See roadmap in #1926

Additional context
I have this looping over the relevant frames and making a list of results from that loop, if we don't want to return lists of arrays and lists of histograms then we could add an argument to pick a frame from psd and psl.

For the reviewer
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• PR functionality reviewed in a Jupyter Notebook
• All tests pass
• Test coverage remains 100%
• Documentation tested
• New documentation pages added to plantcv/mkdocs.yml
• Changes to function input/output signatures added to updating.md
• Code reviewed
• PR approved

[deepsource-io]

DeepSource Code Review

We reviewed changes in 0a9cf06...f303ec4 on this pull request. Below is the summary for the review, and you can see the individual issues we found as inline review comments.

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PR Report Card

Overall Grade

Security   Reliability   Complexity   Hygiene   Coverage

Code Review Summary

Analyzer	Status	Updated (UTC)	Details
Python		Jul 22, 2026 4:50p.m.	Review ↗
Code coverage		Jul 22, 2026 4:50p.m.	Review ↗

Code Coverage Summary

Language	Line Coverage (New Code)	Line Coverage (Overall)
Aggregate	100% [✓ above threshold]	100%
Python	100% [✓ above threshold]	100%

➟ Additional coverage metrics may have been reported. See full coverage report ↗

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[Copilot]

Pull request overview

Updates plantcv.analyze.yii to accept a PSII_data object (instead of a single PSII DataArray) and to support analyzing psd and/or psl frames from the refactored photosynthesis subpackage (Issue #1926).

Changes:

• Refactors plantcv.analyze.yii signature from ps_da → ps and returns lists of results when multiple frames are present.
• Updates unit tests to construct/use the new ps-style input objects.
• Updates user-facing documentation to reflect the API change.

Reviewed changes

Copilot reviewed 5 out of 5 changed files in this pull request and generated 8 comments.

Show a summary per file

File	Description
plantcv/plantcv/analyze/yii.py	Switches yii to consume PSII_data and iterate over psl/psd frames, returning lists.
tests/plantcv/analyze/test_yii.py	Updates tests to call analyze.yii(ps=...) using new synthetic inputs.
tests/conftest.py	Adds new synthetic PSII test data helpers to emulate PSII_data-style inputs.
docs/updating.md	Documents the breaking parameter rename and new return type (lists).
docs/analyze_yii.md	Updates function signature/return description for the new API.

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