Bug fixed. Was still referring to quality filter when trying to run preprocess
Removed redundant variable declaration
Merge pull request #15 from nds/add_sga_step

Add sga step
Merge branch 'master' of github.com:sanger-pathogens/assembly_improvement into variable_read_length_tools
Code to calculate kmer size and coverage for a fastq file
Can now deal with a zipped fastq file