Remove deprecated score-compose run command

[Copilot]

The score-compose run command has been deprecated in favor of score-compose init + score-compose generate. This PR removes all associated code.

Description

• Deleted internal/command/run.go and run_test.go
• Relocated scoreFileDefault constant from run.go → init.go (still referenced there)
• Relocated executeAndResetCommand test helper from run_test.go → root_test.go (used across all command tests)
• Updated TestInitNominal in init_test.go: replaced run invocation with generate score.yaml --output -; updated expected output (no auto-published ports — that was run-only deprecated behavior) and state assertions (generate persists workload state, run did not)
• Updated README.md: removed deprecation note referencing run

What does this PR do?

Cleans up the deprecated run command and all its supporting code, tests, and documentation references.

Types of changes

• New chore (expected functionality to be implemented)

Checklist:

• My change requires a change to the documentation.
  • I have updated the documentation accordingly.
• I've signed off with an email address that matches the commit author.

[github-actions]

Overview

Image reference	score-compose:latest	score-compose:latest
- digest	5341224c4d0f	d0a99baac526
- tag	latest	latest
- provenance	2452306	497bc20
- vulnerabilities
- platform	linux/amd64	linux/amd64
- size	6.3 MB	6.2 MB (-11 kB)
- packages	54	54

Policies (0 improved, 0 worsened)

Policy Name	score-compose:latest	score-compose:latest	Change	Standing
Default non-root user	✅	✅		No Change
No AGPL v3 licenses	✅	✅		No Change
No fixable critical or high vulnerabilities	✅	✅		No Change
No high-profile vulnerabilities	✅	✅		No Change
No outdated base images	✅	✅		No Change
No unapproved base images	✅	✅		No Change
Supply chain attestations	✅	✅		No Change
Valid Docker Hardened Image (DHI) or DHI base image	⚠️ 2	⚠️ 2		No Change

Packages and Vulnerabilities (1 package changes and 0 vulnerability changes)

• ♾️ 1 packages changed
• 53 packages unchanged

Changes for packages of type golang (1 changes)

	Package	Version score-compose:latest	Version score-compose:latest
♾️	github.com/score-spec/score-compose	0.0.0-20260410133641-245230645018+dirty	0.0.0-20260411193104-497bc2023a0e+dirty

[mathieu-benoit]

LGTM