Skyline currently prevents you from having a log scale Y-axis when displaying Ratio to Heavy or Ratio to Global Standards. The reason that we disabled that is that there were a few quirky things going on. Once we fix those quirky things we should allow this again.
The things that go wrong are:
1. The plot is completely blank if the maximum value displayed on the graph is less than 1. This is because Skyline sets the y axis scale min to 1, but leaves the y axis scale max as "auto". If ZedGraph decides that the maximum on the scale is less than the min, the graph ends up being completely blank.
2. Stacked bar graphs do not look right when the the Y-axis is a logarithm. If it's set to "Transitions > All" and it's a log plot, it needs to look the same as "Transitions > Total".
3. Make sure that the selection box is drawn in the right spot. It's tricky to figure out how tall it should be because of the logarithms involved.