Sources that are a syncedFolder are named for their full path

In our project, we group related targets together in folders. When using syncedFolder it is removing the folders structure and naming the folder for the full path.

Expected

Previously it would produce the following group structure. The full folder structure was preserved by adding Modules to the fileGroups.

Using syncedFolder it was expected that the project would have the same structure, the only change would be that Sources would change from the group to a folder.

Actual

It creates a folder with the name Modules/Example/Sources regardless of whether fileGroups is set or not.

When Modules is added to fileGroups, it also adds groups for Modules, Example, and Sources.

Steps to reproduce

#!/bin/bash

# Create a folder for the project
mkdir -p example-project
cd example-project

# Create the folder structure and sources
mkdir -p Modules/Example/Sources
touch Modules/Example/Sources/main.swift

# Create the project.yml file
cat > project.yml << 'EOF'
name: Example
targets:
  example:
    platform: iOS
    type: framework
    sources:
    - path: "Modules/Example/Sources"
      type: syncedFolder
fileGroups:
- Modules
EOF

xcodegen

Start by running the provided project.yml reproduction with xcodegen and inspect how syncedFolder sources and fileGroups are converted into the generated Xcode project. Done means the Sources folder preserves the Modules/Example hierarchy without creating redundant groups or naming a folder with the full path.