Due to a problem in the Intel® Quartus® Prime Pro Edition Software version 20.3 and earlier, when using the JESD204B Intel® FPGA IP in Subclass mode 1 AND at 16 Gbps < data rate <= 19.2 Gbps you might see the issue described below when using the Intel Agilex® 7 devices.
After the JESD204B Intel® FPGA IP has sampled SYSREF for the first time and cleared the CSR bit csr_sysref_singledet to 0, when this CSR bit is subsequently set by the user to a value of 1 to sample another SYSREF edge, it gets cleared immediately even before the SYSREF is toggled from low to high. This is caused by an internal signal that clears the csr_sysref_singledet being stuck at 1 for data rates greater than 16 Gbps.
This issue can only be recovered by applying txlink_rst_n or rxlink_rst_n.
A patch can be provided upon request through Intel® Premier Support (IPS).
This problem is fixed starting from the Intel® Quartus® Prime Pro Edition Software version 20.4.