AI tooling and documentation for ProteoWizard/Skyline development
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ProteoWizard
Source: github_code
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LABKEY_SERVEROSPREY_RUNS_DIROSPREY_PASS1_QCUTTool annotations
No tools have read-only/destructive annotations
Add readOnlyHint or destructiveHint annotations to every tool so hosts can warn users before invoking.
All four hints declared on every tool
68/68 tools missing one or more hints — get_project_status (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint); get_status (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint); get_last_screenshot (missing: readOnlyHint, destructiveHint, idempotentHint, openWorldHint), +65 more. OpenAI's directory rejects tools where any of the four hints are missing or non-boolean.
For every tool, set all four hints (readOnlyHint, destructiveHint, idempotentHint, openWorldHint) to explicit true/false values that match the handler’s actual behaviour.
Descriptions match behaviour
2 tools describe read intent but their handlers mutate — fetch_labkey_page (line 813: filepath.write_text(html_content, encoding='utf-8')); mailchimp_get_campaign (line 203: html_file.write_text(html, encoding="utf-8"))
Rename the tool, rewrite the description, or move the side-effect into a separate clearly-named tool.
License file
No license file
Add a LICENSE file (MIT, Apache-2.0, etc.).
Tool test coverage
Only 0/68 tools referenced in tests (0%)
Write tests that reference each tool by name so every tool has at least one test.
No eval / new Function
1 eval() or new Function() call — dynamic code execution
Replace eval / Function with explicit parsing or safer alternatives.
Readable source code
1 file appear obfuscated
Ship unminified, readable source.
Tool description accuracy
fetch_labkey_page: description implies read-only but handler writes/deletes/executes; mailchimp_get_campaign: description implies read-only but handler writes/deletes/executes
Update tool descriptions to accurately reflect all capabilities — especially write, delete, or execute operations.
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