When exporting the EPS from OmniGraffle
- Change the Export Area to "All Objects"
- Set the margin to 0 (no margin)
To make PNGs from EPS
- Go into ../images
- Open the eps with TexShop (assuming it is installed)
- TexShop will autovconvert and save as PDF
- Open PDF in preview and export as PNG - set DPI to 300
- Delete the PDF
Sadly, OmniGraffle's Export to PNG leaves an asymetric black border and makes things look bad.