Description
Due to a problem in the Quartus® II software version 15.0 Update 1 and earlier, you may see clocks are missing from the list of clock domains in the Reports section in the Design Space Explorer II. This occurs when clock names contain special characters such as [ ] | as in generated_inst[3]|clk.
These clocks are correctly analyzed and are just missing from the list of clock domains in the DSE II report.
Resolution
To fix this problem, download and install Patch 1.02 for the Quartus II software version 15.0 Update 1 from the appropriate link below.