[upgrade] Proseg: bump v3.1.0 → v3.1.1 (patch release)

[an-altosian]

Current state

• Pinned: container ghcr.io/dcjones/proseg:v3.1.0 at modules/local/proseg/preset/main.nf:5
• Modules: proseg/preset, proseg/proseg2baysor
• Pipeline modes: coordinate (default, when --method is unspecified or proseg)

Latest upstream

• v3.1.1 (released 2026-03-12): https://github.com/dcjones/proseg/releases/tag/v3.1.1
• v3.1.0 (released 2025-12-19) — current pin
• 3-month gap between releases

Why bump

• Patch version → low risk
• Stay current with upstream bug fixes
• Container already published on ghcr.io/dcjones/proseg — no Wave/nf-core build needed

Migration plan

• Read v3.1.1 release notes (https://github.com/dcjones/proseg/releases/tag/v3.1.1) to confirm scope
• Bump container to ghcr.io/dcjones/proseg:v3.1.1
• Re-run coordinate-mode tests on a Xenium v1 bundle (both tiled and non-tiled paths)

Risks

• Patch release — low risk
• No expected CLI changes

Cross-links

• Triggered by: Atera compatibility session 2026-05-28 (broader tool inventory check).