fix(commands): update prime-deep to use canonical mcp__serena__* tool names

Co-authored-by: MarkusNeusinger <2921697+MarkusNeusinger@users.noreply.github.com>

Author: Copilot

agentic/commands/prime-deep.md

@@ -24,25 +24,25 @@ gh pr list --limit 10 2>/dev/null || echo "(gh CLI not available)"
 
 ## Serena
 
-- Run `check_onboarding_performed`
-- Run `list_memories` and read relevant ones
+- Run `mcp__serena__check_onboarding_performed`
+- Run `mcp__serena__list_memories` and read relevant ones
 
-### JetBrains Tools (prefer over brute-force scanning)
+### Serena MCP tools (prefer over brute-force scanning)
 
-Use Serena's JetBrains-backed tools for code navigation — they provide semantic understanding
-that grep/glob cannot:
+Use Serena's symbol-aware tools for code navigation — they provide semantic understanding that grep/glob cannot.
+The canonical, MCP-registered prefix is `mcp__serena__*` (matches `.claude/settings.json`).
 
-- `jet_brains_get_symbols_overview` — get top-level symbols in a file (classes, functions, variables). Use with `depth: 1` to also see methods of classes. Start here to understand a file before diving deeper.
-- `jet_brains_find_symbol` — search for a symbol by name across the codebase. Supports name path patterns like `MyClass/my_method`. Use `include_body: true` to read source code, `include_info: true` for docstrings/signatures.
-- `jet_brains_find_referencing_symbols` — find all usages of a symbol (who calls this function? who imports this class?). Essential for understanding impact of changes.
-- `jet_brains_find_declaration` — jump to where a symbol is defined.
-- `jet_brains_find_implementations` — find implementations of an interface/abstract class.
-- `jet_brains_type_hierarchy` — understand class inheritance chains.
+- `mcp__serena__get_symbols_overview` — get top-level symbols in a file (classes, functions, variables). Use with `depth: 1` to also see methods of classes. Start here to understand a file before diving deeper.
+- `mcp__serena__find_symbol` — search for a symbol by name across the codebase. Supports name-path patterns like `MyClass/my_method`. Use `include_body: true` to read source code, `include_info: true` for docstrings/signatures.
+- `mcp__serena__find_referencing_symbols` — find all usages of a symbol (who calls this function? who imports this class?). Essential for understanding impact of changes.
+- `mcp__serena__find_declaration` — jump to where a symbol is defined.
+- `mcp__serena__find_implementations` — find implementations of an interface/abstract class.
+- `mcp__serena__type_hierarchy` — understand class inheritance chains.
 
 ### Editing via Serena
 
 For structural edits, prefer Serena's symbol-aware tools over raw text replacement:
 
-- `replace_symbol_body` — replace an entire function/class body
-- `insert_after_symbol` / `insert_before_symbol` — add code relative to a symbol
-- `search_for_pattern` — regex search across the codebase (fast, flexible)
+- `mcp__serena__replace_symbol_body` — replace an entire function/class body
+- `mcp__serena__insert_after_symbol` / `mcp__serena__insert_before_symbol` — add code relative to a symbol
+- `mcp__serena__search_for_pattern` — regex search across the codebase (fast, flexible)