ENH: Disable TotalSegmentator sending anonymous usage stats

[aylward]

TotalSegmentator defaults to calling home and sending anonymous usage statistics for each run. This can be disabled via the user-level configuration file, and this modification disables it via the Python API.

Read more at: https://github.com/wasserth/TotalSegmentator/blob/master/README.md#other

Addresses Issue #147

Summary by CodeRabbit

Summary by CodeRabbit

• Bug Fixes
  • Chest segmentation now initializes its configuration before processing and runs with usage-statistics telemetry disabled. The selected segmentation tasks and resulting label combinations remain unchanged.

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ℹ️ Recent review info

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• src/monai_physio/segment_chest_total_segmentator.py

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Walkthrough

The segmentation method initializes TotalSegmentator’s configuration before inference. It disables usage-stat reporting and marks the statistics disclaimer as shown. Task selection and segmentation behavior remain unchanged.

Changes

TotalSegmentator setup

Layer / File(s)	Summary
Initialize TotalSegmentator before inference src/monai_physio/segment_chest_total_segmentator.py	The method calls setup_totalseg(), disables usage-stat reporting, and marks the statistics disclaimer as shown before importing the TotalSegmentator API.

Priority: ⬇️ Low

Estimated code review effort: 1 (Trivial) | ~5 minutes

Change: Bug fix

Merge Risk: ⚪ Minimal · up to 4483b

The Python API now applies the usage-stat opt-out before inference, with no known merge-blocking regression remaining.

🚥 Pre-merge checks | ✅ 5

✅ Passed checks (5 passed)

Check name	Status	Explanation
Description Check	✅ Passed	Check skipped - CodeRabbit’s high-level summary is enabled.
Title check	✅ Passed	The title clearly and concisely describes the main change: disabling TotalSegmentator’s anonymous usage statistics.
Docstring Coverage	✅ Passed	Docstring coverage is 100.00% which is sufficient. The required threshold is 80.00%. Docstring coverage is scoped to functions touched by this diff. Analyzed 1 functions across 1 files.
Linked Issues check	✅ Passed	Check skipped because no linked issues were found for this pull request.
Out of Scope Changes check	✅ Passed	Check skipped because no linked issues were found for this pull request.

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[Copilot]

Copilot review overview

🟡 Changes recommended

The incorrect send_telemetry key leaves usage statistics enabled and lacks regression coverage.

Review effort: Balanced
Findings: 1 · 2

Open (3)

• Use the documented send_usage_stats privacy setting · New
• Sort imported members to satisfy isort · New
• Add regression test for disabling usage statistics · New

What changed in this PR

This PR attempts to disable TotalSegmentator usage-statistics reporting.

Changes:

• Initializes TotalSegmentator configuration.
• Disables telemetry and suppresses its disclaimer.

File	Description
src/​monai_physio/​segment_chest_total_segmentator.py	Updates configuration before segmentation.

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Actionable comments posted: 1

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• 🪄 Fix CodeRabbit comments on this PR

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Inline comments:
Review comments at @src/monai_physio/segment_chest_total_segmentator.py:
- Line 329: Update the TotalSegmentator configuration call using set_config_key
to disable usage reporting by setting the send_usage_stats key to false instead
of send_telemetry; leave the disclaimer configuration unchanged.

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ℹ️ Review info

⚙️ Run configuration

• Configuration used: Organization UI
• Review profile: CHILL
• Plan: Advanced
• Run ID: 8665b497-65a0-4cb6-a773-05402e235fc7

📥 Commits

Reviewing files that changed from the base of the PR and between 6822e3e and 331d60e.

📒 Files selected for processing (1)

• src/monai_physio/segment_chest_total_segmentator.py

Included review availability: This review used your included allowance. Your plan provides up to 1 included review per hour; 0 remain after this review.

[Copilot]

Copilot review overview

🔵 Needs a closer look

The persistent configuration side effect needs documentation and focused regression coverage.

Review effort: Balanced
Findings: 1

Open (1)

• Add regression test for disabling usage statistics

Resolved since last review (2)

• Use the documented send_usage_stats privacy setting
• Sort imported members to satisfy isort

Previously missed (1)

In code that hasn't changed since last review

Document persistent TotalSegmentator configuration side effects

src/​monai_physio/​segment_chest_total_segmentator.py:330

These calls persistently modify TotalSegmentator's user configuration, affecting later standalone TotalSegmentator runs as well as this invocation. The public method's docstring should disclose that process-external side effect so callers are not surprised by the global preference change.