Added --skip_viruses option to iva_qc_make_db
Do not get all genbank virus files if skipping kraken virus download
Deal wth empty assembly contigs file
Use mapping to screen new seeds against used ones, instead of perfect matches
Remove commented out old code
Increment version to 0.5.2
onlt use sequences long enough for smalt indexing
Do not report when tryign kmc with different memory option
Major overhaul of main assembly algo
Remove reapr
Write fasta fiel of contigs that hit ref
Write ref files info to main output stats file
Fix first line of tsv output
use -breaklen 500
remove unused options
Write message to log file if cannot make first seed
version 0.6.0