feat: add worktree support and refactor do skill to Python

- Add worktree module for git worktree management
- Refactor do skill scripts from shell to Python for better maintainability
- Add install.py for do skill installation
- Update stop-hook to Python implementation
- Enhance executor with additional configuration options
- Update CLAUDE.md with first-principles thinking guidelines

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Co-Authored-By: SWE-Agent.ai <noreply@swe-agent.ai>

install.sh

@@ -57,14 +57,18 @@ if [[ ":${PATH}:" != *":${BIN_DIR}:"* ]]; then
     echo ""
     echo "WARNING: ${BIN_DIR} is not in your PATH"
 
-    # Detect shell and set config files
-    if [ -n "$ZSH_VERSION" ]; then
-        RC_FILE="$HOME/.zshrc"
-        PROFILE_FILE="$HOME/.zprofile"
-    else
-        RC_FILE="$HOME/.bashrc"
-        PROFILE_FILE="$HOME/.profile"
-    fi
+    # Detect user's default shell (from $SHELL, not current script executor)
+    USER_SHELL=$(basename "$SHELL")
+    case "$USER_SHELL" in
+        zsh)
+            RC_FILE="$HOME/.zshrc"
+            PROFILE_FILE="$HOME/.zprofile"
+            ;;
+        *)
+            RC_FILE="$HOME/.bashrc"
+            PROFILE_FILE="$HOME/.profile"
+            ;;
+    esac
 
     # Idempotent add: check if complete export statement already exists
     EXPORT_LINE="export PATH=\"${BIN_DIR}:\$PATH\""