Pitching slices not original sample

So I loaded a sample, sliced it, synced the slices using timestretch, transposed the samples down two octaves, programmed in sustain loops then used the method of playing a note in the note column to control the pitch and used the S command to select the slice.
Instead of playing the slices that I adjusted it simply referenced the original loop ignoring my sustain loops, adjustment to pitch and timestretch.
Is there a way to get it to play the slices rather than reference the original loop?