Fends being completely or significantly filtered out by hic-project step.

[jamesdalg]

I'm running a dataset from literature, much the same in structure to the first, but all the fends are being filtered. Is there something I may be able to change or look into?
bash-4.1$ hifive hic-data -R SRR3467175_allValidPairs.hifive.raw -i 500 --skip-duplicate-filtering mboi_unbinned.fend SRR3467175_unbinned_r.HiCData
62409707 validly-mapped reads pairs loaded. raw...
62409707 total validly-mapped read pairs loaded. 60716291 valid fend pairs
Parsing fend pairs... Done 48701403 cis reads, 13233775 trans reads
bash-4.1$ hifive hic-data -R SRR3467176_allValidPairs.hifive.raw -i 500 --skip-duplicate-filtering mboi_unbinned.fend SRR3467176_unbinned_r.HiCData
43228016 validly-mapped reads pairs loaded. raw...
43228016 total validly-mapped read pairs loaded. 42310523 valid fend pairs
Parsing fend pairs... Done 33278056 cis reads, 9636621 trans reads

bash-4.1$ hifive hic-project -m 1 -n 0 -x 0 SRR3467176_unbinned_r.HiCData SRR3467176_unbinned_r.HiCProject
Filtering fends... Removed 14255268 of 14255268 fends
bash-4.1$ hifive hic-project -f 1 -m 1 -n 0 -x 0 SRR3467176_unbinned_r.HiCData SRR3467176_unbinned_r.HiCProject
Filtering fends... Removed 2547651 of 14255268 fends
bash-4.1$ hifive hic-project SRR3467175_unbinned_r.HiCData SRR3467175_unbinned_r.HiCProject
Filtering fends... Removed 14255268 of 14255268 fends