classify.otu unclassified sequences issue

Commands in mothur
1

Hi
I am using mothur 1.36.0
When i am running the classify.otu command as given below i think all the sequences which remained unclassified in the clasify.seqs command are not being found in the tree file.
The following is the command
classify.otu(list=BP315.an.0.03.subsample.list, taxonomy=BP315.subsample.taxonomy, name=BP315.subsample.names, label=0.03, probs=f, basis=sequence, group=BP315.subsample.groups, reftaxonomy=gg_13_5_99.pds.tax)

The result
0.03 669
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_83781. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.673602_99634. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_168580. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.673602_280530. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_306973. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.673602_313849. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.673602_373605. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.673602_389764. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_390789. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_467442. This may cause totals of daughter levels not to add up in summary file.
Warning: cannot find taxon g__HB2-32-21_unclassified in reference taxonomy tree at level 6 for SE.20101017.GY.D040S.BC.315.a.673605_491040. This may cause totals of daughter levels not to add up in summary file.

And it goes on and on.
I have never faced this issue before.
Can anyone explain what i am doing wrong here?
Thanks

2

Hi
I found out that you have a serious bug in the classify.seqs command in the Windows version of mothur 1.36.0. I previously had not encountered such an error since i had been working on linux till my PC crashed. I ran the same datasets in linux and windows right now again using the same commands and the linux one turned out okay.

On a sidenote, i also found that v1.36.1 has bugs in the classify.otu command at least in the linux version. Can you suggest me a version where these bugs are remedied?

3

Thanks for reporting this bug. It was caused by our addition of the parent taxon to the unclassified taxons. This issue has been resolved in our current version available here, https://github.com/mothur/mothur/releases.