Consistent output for SortMeRNA tax assignment

[colinbrislawn]

The script assign_taxonomy.py -m sortmerna works great! However, the resulting taxonomy sometimes omits unassigned levels.

In this output, g__; s__ should be at the end of the second line, but is not. It is at the end of the last line, which is strangely inconsistent. (Scroll to the right 👉 )

OTU_1size=568804       k__Bacteria; p__Proteobacteria; c__Betaproteobacteria; o__Burkholderiales; f__Oxalobacteraceae; g__Ralstonia; s__       0.80    5
OTU_2size=174442       k__Bacteria; p__Proteobacteria; c__Betaproteobacteria; o__Burkholderiales; f__Comamonadaceae    1.00    5
OTU_3size=125310       k__Bacteria; p__Proteobacteria; c__Alphaproteobacteria; o__Rhizobiales; f__Bradyrhizobiaceae    1.00    4
OTU_4size=106515       k__Bacteria; p__Proteobacteria; c__Betaproteobacteria; o__Nitrosomonadales; f__Nitrosomonadaceae        0.75    4
OTU_5size=102290       k__Bacteria; p__Cyanobacteria; c__Chloroplast; o__Streptophyta; f__; g__; s__   1.00    5

I have not taken a look at the code yet, but I'm interested in taking this one.