check () {
    git fetch

    changes=$(git diff)
    if [ "$changes" != "" ]; then
        echo 'YOU HAVE UNCOMMITTED CHANGES';
        exit
    fi

    changes=$(git ls-files --others --exclude-standard)
    if [ "$changes" != "" ]; then
        echo 'YOU HAVE UNCOMMITTED FILES';
        exit
    fi

    changes=$(git diff HEAD..FETCH_HEAD)
    if [ "$changes" != "" ] ; then
        git pull --quiet > /dev/null
        ~/.dotfiles/scripts/chmod-private-keys.sh
        echo 'Dotfiles updated'
    fi

    git submodule init
    git submodule update --recursive
}

# Check if there are updates to this dotfiles repo
cd ~/.dotfiles
check

# Check if there are updates to ssh
if [ -d ~/.ssh/.git ]; then
    cd ~/.ssh
    check
fi

check () {
    git fetch

    git submodule init
    git submodule update --recursive

    changes=$(git diff)
    if [ "$changes" != "" ]; then
        echo 'YOU HAVE UNCOMMITTED CHANGES';
        exit
    fi

    changes=$(git ls-files --others --exclude-standard)
    if [ "$changes" != "" ]; then
        echo 'YOU HAVE UNCOMMITTED FILES';
        exit
    fi

    changes=$(git diff HEAD..FETCH_HEAD)
    if [ "$changes" != "" ] ; then
        git pull --quiet > /dev/null
        ~/.dotfiles/scripts/chmod-private-keys.sh
        echo 'Dotfiles updated'
    fi
}

# Check if there are updates to this dotfiles repo
cd ~/.dotfiles
check

# Check if there are updates to ssh
if [ -d ~/.ssh/.git ]; then
    cd ~/.ssh
    check
fi

--- 
+++ 
@@ -1,5 +1,8 @@
 check () {
     git fetch
+
+    git submodule init
+    git submodule update --recursive
 
     changes=$(git diff)
     if [ "$changes" != "" ]; then
@@ -19,9 +22,6 @@
         ~/.dotfiles/scripts/chmod-private-keys.sh
         echo 'Dotfiles updated'
     fi
-
-    git submodule init
-    git submodule update --recursive
 }
 
 # Check if there are updates to this dotfiles repo
Update dotfiles submodules after pulling dotfiles itself
