When using the sequencer to start and stop runs which use a deferred transition,
the sequencer fails with a "Cannot stop run: ..." error.

Checking for the "CM_DEFERRED_TRANSITION" case in the first-pass block of the
'Stop' code in sequencer.cxx is one way to solve the problem - though there may
well be better solutions. 

My edited portion of sequencer.cxx is below.  Is this an acceptable solution
that could be introduced to the master branch?

} else if (equal_ustring(mxml_get_value(pn), "Stop")) {
    if (!seq.transition_request) {
       seq.transition_request = TRUE;
       size = sizeof(state);
       db_get_value(hDB, 0, "/Runinfo/State", &state, &size, TID_INT, FALSE);
       if (state != STATE_STOPPED) {
          status = cm_transition(TR_STOP, 0, str, sizeof(str), TR_MTHREAD |
TR_SYNC, TRUE);
          if (status == CM_DEFERRED_TRANSITION) {
             // do nothing
          } else if (status != CM_SUCCESS) {
             sprintf(str, "Cannot stop run: %s", str);
             seq_error(str);
          }
       }
    } else {
       // Wait until transition has finished
       size = sizeof(state);
       db_get_value(hDB, 0, "/Runinfo/State", &state, &size, TID_INT, FALSE);
       if (state == STATE_STOPPED) {
          seq.transition_request = FALSE;

          if (seq.stop_after_run) {
             seq.stop_after_run = FALSE;
             seq.running = FALSE;
             seq.finished = TRUE;
             cm_msg(MTALK, "sequencer", "Sequencer is finished.");
          } else
             seq.current_line_number++;

          db_set_record(hDB, hKeySeq, &seq, sizeof(seq), 0);
       } else {
         // do nothing
       }
    }
}