contig classification and start on score optimisation
Merge branch 'master' into fastasplit

Conflicts:
	lib/transrate/contig.rb
score optimiser broken implementations
flush
Merge branch 'master' into fastasplit
finalise fasta splitting
fix typo in fasta printing
Merge branch 'master' into fastasplit
Merge branch 'master' into fastasplit
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit
fix new score calculation
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit
refer to assembly ivar in scoreoptimiser
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit
add geomean to score optimiser
map contigs to scores before geomean
more ivar mistakes fixed
Merge branch 'fastasplit' of https://github.com/Blahah/transrate into fastasplit