fix some copyright dates
add paml at 4.7a
add muscle at 3.8.31
clean up paml Makefile
add t-coffee
fix up biosrc script
update dependency searching
update bioperl GARNAME
add python-biopython at 1.63
update README
add gblocks at 0.91b
fix Gblocks archictecture dependencies
add oma at 0.99u.3, but it still needs some work