The ALTLVDS_RX megafunction in the Quartus® II software version 10.0 does not correctly create the required number of input ports for rx_dpll_hold. This port should have a width equal to the number of channels.
To work around this problem open the HDL variation file of the ALTLVDS_RX megafunction in your design and manually edit the port width of rx_dpll_hold.
The port width should follow the format of [number_of_channels-1:0].
This problem is fixed in the Quartus II software version 10.1.