mothur

Unweighted.unifrac() generates empty ave.dist file


#1

Dear forum users,
I just recently started using mother, so I hope I don’t forget any important information.
My problem is, that I get empty unweighted.ave.dist and unweighted.std.dist files, when running unifrac.unweighted with the MothurSOP data as well as with my own data:

unifrac.unweighted(tree=stability.trim.contigs.good.unique.good.filter.unique.precluster.pick.pick.pick. phylip.tre, count=stability.trim.contigs.good.unique.good.filter.unique.precluster.denovo.vsearch.pick.pick.pick. count_table, distance=lt, subsample=t)

I get the following output files:
*.uwsummary
*.unweighted.ave.dist
*.unweighted.std.dist
*.phylip.dist

The *.phylip.dist and *uwsummary files are not empty and I don’t receive any error / warning messages.
I’m using Mothur v.1.40.5 on a Ubuntu 16.04.5 system.
Thanks a lot for your help and please let me know if you need any additional information.


#2

Hi - can you tell us how many samples are present in the count file?


#3

Hi the count table contains 19 samples (MothurSOP data) and 30 samples (my own data)


#4

Can you send the *.tre and *.count_table files to mothur.bugs@gmail.com and include a link to this thread? We’ll take a look and get back to you.

Thanks!


#5

I did it. Thanks for your help.