No data in the output of corr.axes command

Commands in mothur
1

I am running the corr.axes command with a nmds.axes file and a metadata file. I have 3 set of data to run this command. One set of data works fine. However, for the other two, after running corr.axes command, when I opened the output “metadata.spearman.corr.axes” file, there was no data in it, only the first row was there, as “Feature axis1 p-value axie2 p-value length”.

I used exactly same command for the 3 set of data, 1 works fine, but the other two output empty results. Do not know what happened.

Thanks for the suggestions and helps ahead of time.

2

If you look at the three data files (nmds.axes?) how do they differ?

3

Thank you for your response.
I analyzed all the data together, since the beginning, because they belong to one project.
Since “dist.shared” command, I used “groups=” argument to develop 3 different dist files, and I manually add “.A”, “.B”, and “.C” amid the dist file names, to distinguish them.
So, I have 3 different dist files to get 3 different nmds.axes files. Everything is fine by here.
I also have 3 different metadata files. So I tried to run 3 corr.axes command with paird nmds.axes file and metadata file, but only one group worked. The other two produced empty corr.axes files.

Thank you.

4

Could you email the files to mothur.bugs@gmail.com and reference this thread in your email?

Thanks,

Pat

5

Yes, I will.

Thank you.

6

My problem was solved by Sarah. Thanks her.

The issue is caused by the metadata file. I had columns with all 0s.
I need to remove those columns before running.

7

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