Critical Issue
After installing Altera Complete Design Suite version 10.1 Service Pack 1 over an existing version 10.1 installation, the first time you start the Nios II SBT for Eclipse, you might not see Nios II-specific launch configurations, such as Run As Nios II Hardware and Run As Nios II ModelSim. Only the Run As Local C/C Application configuration might be visible.
Close and restart the Nios II SBT for Eclipse to see the Nios II-specific launch configurations.
This issue will be fixed in a future release of the Nios II EDS.