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Fix clusterless decoder index lookup and clean up unused code - #7

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fix-clusterless-decoder-1929046915036150442
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Fix clusterless decoder index lookup and clean up unused code#7
CommanderPho wants to merge 1 commit into
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fix-clusterless-decoder-1929046915036150442

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@CommanderPho

@CommanderPho CommanderPho commented Jul 1, 2026

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  1. Fixed a bug in most_likely_positions_from_posterior where the indexing logic incorrectly used C-style indexing when the tensor was previously reshaped using F-style ordering.
  2. Cleaned up redundant .metadata.metadata retrieval logic in build_clusterless_training_data_from_pfnd that assigned to an unused variable.
  3. Cleaned up outdated initialization and fitting logic of ClusterlessClassifier from _perform_clusterless_position_decoding_computation, as it is fully abstracted inside ClusterlessRTCPositionDecoder initialization and .compute_all().

PR created automatically by Jules for task 1929046915036150442 started by @CommanderPho

Summary by Sourcery

Fix clusterless position decoding bugs and remove redundant legacy code related to training data and decoder initialization.

Bug Fixes:

  • Correct 2D position index reconstruction in most_likely_positions_from_posterior to match the posterior tensor’s memory ordering.

Enhancements:

  • Simplify clusterless decoder construction by delegating movement variance estimation and classifier setup to ClusterlessRTCPositionDecoder.
  • Remove unused position sampling rate retrieval and outdated ClusterlessClassifier initialization logic from clusterless decoding helpers.

Co-authored-by: CommanderPho <962210+CommanderPho@users.noreply.github.com>
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sourcery-ai Bot commented Jul 1, 2026

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Reviewer's guide (collapsed on small PRs)

Reviewer's Guide

Fixes incorrect posterior index-to-position mapping for F-ordered PfND grids and removes now-unnecessary clusterless decoder setup and unused metadata access, relying instead on ClusterlessRTCPositionDecoder abstractions.

File-Level Changes

Change Details Files
Correct posterior argmax index mapping from flat indices back to 2D position bin centers for F-ordered PfND grids.
  • Switch x/y index computation from C-order style to F-order-aware mapping using x-bin count
  • Ensure clipping of indices against x and y bin array bounds remains unchanged
src/pyphoplacecellanalysis/Analysis/Decoder/rtc_clusterless_adapters.py
Remove outdated ClusterlessClassifier initialization and movement variance estimation logic now handled inside ClusterlessRTCPositionDecoder.
  • Drop estimate_movement_var import and associated movement_var computation
  • Delete commented-out ClusterlessClassifier/environment/transition setup code and replace with a single explanatory comment
  • Keep downstream decoder construction intact, assuming external initialization and compute_all handle classifier setup
src/pyphoplacecellanalysis/General/Pipeline/Stages/ComputationFunctions/DefaultComputationFunctions.py
Clean up unused position sampling rate metadata access when building clusterless training data from PfND.
  • Remove redundant metadata.metadata sampling_rate retrieval that assigned to an unused variable
  • Leave the rest of training data construction (time extraction, etc.) untouched
src/pyphoplacecellanalysis/Analysis/Decoder/rtc_clusterless_adapters.py

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@sourcery-ai sourcery-ai Bot left a comment

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Hey - I've left some high level feedback:

  • The comment # pos_sampling_rate_Hz removed in build_clusterless_training_data_from_pfnd is a bit confusing; if the value is no longer needed, consider removing the line entirely or replacing it with a more descriptive comment about how sampling rate is now determined.
  • Given the subtlety around F-order reshaping and flat index decoding in most_likely_positions_from_posterior, consider adding a brief comment or small helper function documenting the assumed memory order so future changes to reshaping logic don’t accidentally break the indexing again.
Prompt for AI Agents
Please address the comments from this code review:

## Overall Comments
- The comment `# pos_sampling_rate_Hz removed` in `build_clusterless_training_data_from_pfnd` is a bit confusing; if the value is no longer needed, consider removing the line entirely or replacing it with a more descriptive comment about how sampling rate is now determined.
- Given the subtlety around F-order reshaping and flat index decoding in `most_likely_positions_from_posterior`, consider adding a brief comment or small helper function documenting the assumed memory order so future changes to reshaping logic don’t accidentally break the indexing again.

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