Return to Answer

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    target=$(readlink "$link")
    link=${link#./}
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    target=$(readlink "$link")
    link=${link#./}
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    link=${link#./}
    target=$(readlink "$link")
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    target=$(readlink "$link")
    link=${link#./}
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    target=$(readlink "$link")
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +

With the symlinks utility by Mark Lord (offered by many distributions; if yours doesn't have it, build it from source):

chroot /home/user/system symlinks -cr .

Alternatively, on systems that have a readlink command and a -lname predicate to find (warning: untested code):

cd /home/user/system &&
find . -lname '/*' -exec ksh -c '
  for link; do
    link=${link#./}
    target=$(readlink "$link")
    root=${link//+([!\/])/..}; root=${root#/}; root=${root%..}
    rm "$link"
    ln -s "$root${target#/}" "$link"
  done
' _ {} +