Many in-system debugging tools, such as the Signal Tap Logic Analyzer, the In-System Sources and Probes, or the Nios® II debugger, use the JTAG interface in Altera® FPGAs. The Quartus® Prime Software automatically generates the altera_reserved_tck, altera_reserved_tms, altera_reserved_tdi, and altera_reserved_tdo pins for a design that uses a JTAG accessible module. Because of this, the Timing Analyzer flags these signals as unconstrained when an unconstrained path report is generated.
You can constrain the JTAG signals by applying the SDC commands of the JTAG Signal Constraints template.
In the Quartus® Prime GUI, go to File > New > Synopsys Design Constraints File. Then, in the Text Editor, click on Insert Template and then select Timing Analyzer > SDC Cookbook > JTAG Signal Constraints.
Customize the constraints in the template as needed, where indicated. Save the new SDC file, add it to your project, and compile.