fixed opal to work with old java
commit 64 bit
Merge branch '64bit' of https://github.com/smirarab/sate-tools-linux into 64bit

Conflicts:
	mafftdir/libexec/addsingle
	mafftdir/libexec/contrafoldwrap
	mafftdir/libexec/countlen
	mafftdir/libexec/disttbfast
	mafftdir/libexec/dndblast
	mafftdir/libexec/dndfast7
	mafftdir/libexec/dndpre
	mafftdir/libexec/dvtditr
	mafftdir/libexec/f2cl
	mafftdir/libexec/getlag
	mafftdir/libexec/mafft-distance
	mafftdir/libexec/mafft-profile
	mafftdir/libexec/makedirectionlist
	mafftdir/libexec/mccaskillwrap
	mafftdir/libexec/multi2hat3s
	mafftdir/libexec/pair2hat3s
	mafftdir/libexec/pairash
	mafftdir/libexec/pairlocalalign
	mafftdir/libexec/regtable2seq
	mafftdir/libexec/replaceu
	mafftdir/libexec/restoreu
	mafftdir/libexec/score
	mafftdir/libexec/seq2regtable
	mafftdir/libexec/setcore
	mafftdir/libexec/setdirection
	mafftdir/libexec/sextet5
	mafftdir/libexec/splittbfast
	mafftdir/libexec/tbfast
	mafftdir/libexec/version
	muscle
mafft should be a different version