PCI: altera: Check link status before retrain link

Check the link status before retraining.  If the link is not up, don't
bother trying to retrain it.

[bhelgaas: split code move to separate patch, changelog]
Signed-off-by: Ley Foon Tan <lftan@altera.com>
Signed-off-by: Bjorn Helgaas <bhelgaas@google.com>