No abundance information for some bins after running metawrap quant

[Inebriateduck]

I'm trying to use metawrap quant to quantify my MAGs, but a large portion of my bins aren't listed in the abundance table output.

For example my bins vs the abundance table for one of my samples:

bin.10.fa  bin.11.fa  bin.1.fa  bin.2.fa  bin.3.fa  bin.4.fa  bin.5.fa  bin.6.fa  bin.7.fa  bin.8.fa  bin.9.fa

bin.6   87.963838
bin.7   237.188846
bin.2   6087.722815
bin.8   1106.097905

I've classified the bins with GTDBTK classify and have noticed that the missing bins are the same species, and only 1 bin for each species is being quantified - is this normal?

user_genome     classification
bin.1   d__Bacteria;p__Bacillota;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus;s__Enterococcus faecalis
bin.10  d__Bacteria;p__Bacillota;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus;s__Enterococcus faecalis
bin.11  d__Bacteria;p__Pseudomonadota;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli
bin.2   d__Bacteria;p__Actinomycetota;c__Actinomycetes;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium longum
bin.3   d__Bacteria;p__Actinomycetota;c__Actinomycetes;o__Actinomycetales;f__Bifidobacteriaceae;g__Bifidobacterium;s__Bifidobacterium longum
bin.4   d__Bacteria;p__Actinomycetota;c__Actinomycetes;o__Actinomycetales;f__Micrococcaceae;g__Rothia;s__Rothia sp902373285
bin.5   d__Bacteria;p__Pseudomonadota;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli
bin.6   d__Bacteria;p__Bacillota;c__Bacilli;o__Lactobacillales;f__Enterococcaceae;g__Enterococcus;s__Enterococcus faecalis
bin.7   d__Bacteria;p__Bacillota;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus;s__Streptococcus lactarius
bin.8   d__Bacteria;p__Pseudomonadota;c__Gammaproteobacteria;o__Enterobacterales;f__Enterobacteriaceae;g__Escherichia;s__Escherichia coli
bin.9   d__Bacteria;p__Bacillota;c__Bacilli;o__Lactobacillales;f__Streptococcaceae;g__Streptococcus;s__Streptococcus lactarius