Enhance setup and testing scripts for improved package management and logging

- Updated setup.sh to check for Nala installation and provide alternative installation methods based on Ubuntu version.
- Added error handling for package installation, allowing fallback to apt if Nala fails.
- Introduced startup.sh to perform container startup checks, including system info and permissions for logs directory.
- Created test-setup.sh to validate bootstrap and setup scripts, including detailed logging of package availability and installation results.
- Implemented checks for missing packages and provided recommendations for manual installation.
- Enhanced logging for better traceability of actions and errors during setup and testing processes.

setup/setup.sh

@@ -25,11 +25,21 @@ echo -e "${YELLOW}Setting up Nala repository...${NC}"
 if apt-cache show nala &>/dev/null; then
     echo -e "${GREEN}Nala is available in standard repositories${NC}"
 else
-    # Try Ubuntu PPA as an alternative
-    echo -e "${YELLOW}Trying Nala from Ubuntu PPA...${NC}"
-    sudo apt-get update
-    sudo apt-get install -y software-properties-common
-    sudo add-apt-repository -y ppa:volitank/ppa
+    echo -e "${YELLOW}Nala not found in standard repositories. Trying alternative installation methods...${NC}"
+    
+    # Check Ubuntu version
+    if grep -q "noble\|lunar\|mantic\|jammy" /etc/os-release; then
+        echo -e "${GREEN}Ubuntu $(grep VERSION_CODENAME /etc/os-release | cut -d= -f2) detected. Ensuring universe repository is enabled...${NC}"
+        # Make sure universe repository is enabled
+        sudo apt-get update
+        sudo apt-get install -y software-properties-common
+        sudo add-apt-repository -y universe
+    else
+        # For older Ubuntu versions try to install directly
+        echo -e "${YELLOW}Older Ubuntu version detected. Trying to install Nala directly...${NC}"
+        sudo apt-get update
+        sudo apt-get install -y software-properties-common
+    fi
 fi
 
 # Setup VS Code repository
@@ -47,21 +57,49 @@ out=$(mktemp) && wget -nv -O$out https://cli.github.com/packages/githubcli-archi
     && rm "$out" \
     && echo "deb [arch=$(dpkg --print-architecture) signed-by=/etc/apt/keyrings/githubcli-archive-keyring.gpg] https://cli.github.com/packages stable main" | sudo tee /etc/apt/sources.list.d/github-cli.list > /dev/null
 
-# Update package lists
-sudo apt update
+# Initialize USING_NALA variable
+USING_NALA=false
+
+# Update package lists (ignoring previous errors)
+echo -e "${YELLOW}Updating package lists...${NC}"
+sudo apt update || echo -e "${YELLOW}Warning: apt update had some errors, but continuing...${NC}"
 
 # Install Nala first
 echo -e "${YELLOW}Installing Nala package manager...${NC}"
-sudo apt-get install -y nala
+if sudo apt-get install -y nala; then
+    USING_NALA=true
+    echo -e "${GREEN}Nala installed successfully!${NC}"
+else
+    echo -e "${YELLOW}Failed to install Nala. Continuing with standard apt...${NC}"
+fi
 
-# Configure Nala mirrors
-echo -e "${YELLOW}Configuring Nala mirrors...${NC}"
-sudo nala fetch --auto --fetches 3
-
-# Install remaining packages using Nala
-echo -e "${YELLOW}Installing packages from packages.list...${NC}"
-mapfile -t pkgs < <(grep -v '^//' "$SCRIPT_DIR/packages.list" | grep -v -e '^$' -e '^nala$')
-sudo nala install -y "${pkgs[@]}"
+# Configure Nala mirrors and install packages
+if [ "$USING_NALA" = true ]; then
+    echo -e "${YELLOW}Configuring Nala mirrors...${NC}"
+    
+    # First, remove any existing nala sources list to avoid issues with invalid mirrors
+    sudo rm -f /etc/apt/sources.list.d/nala-sources.list 2>/dev/null
+    
+    # Try to fetch mirrors with less aggressive settings
+    if ! sudo nala fetch --auto --fetches 1 --country auto; then
+        echo -e "${YELLOW}Mirror selection failed, continuing with system default mirrors...${NC}"
+        # Remove any potentially corrupted Nala sources
+        sudo rm -f /etc/apt/sources.list.d/nala-sources.list 2>/dev/null
+    fi
+    
+    # Install remaining packages using Nala
+    echo -e "${YELLOW}Installing packages from packages.list with Nala...${NC}"
+    mapfile -t pkgs < <(grep -v '^//' "$SCRIPT_DIR/packages.list" | grep -v -e '^$' -e '^nala$')
+    sudo nala install -y "${pkgs[@]}" || {
+        echo -e "${YELLOW}Nala install failed, falling back to apt...${NC}"
+        sudo apt-get install -y "${pkgs[@]}"
+    }
+else
+    # Fall back to apt if Nala installation failed
+    echo -e "${YELLOW}Installing packages from packages.list with apt...${NC}"
+    mapfile -t pkgs < <(grep -v '^//' "$SCRIPT_DIR/packages.list" | grep -v -e '^$' -e '^nala$')
+    sudo apt-get install -y "${pkgs[@]}"
+fi
 
 # Install Zsh if not already installed
 echo -e "${YELLOW}Installing Zsh...${NC}"