rtree index is not syncing remotes to repos

[SuperSandro2000]

When syncing the ~/.rtree/index-carbon.yaml file there might be new remotes in the file than there are in the git repos. When running rtree index the existing remotes from the git repos are written into the yaml file without any regards wether there where new ones in the yaml file which should have been synced to the git repo on disk before writing them back into the config.