Linear mixed effects models errors with --p- state-column and --p-individual-id-column

[idapantoja]

Hi,

I am using version 2018.8 and trying to run the command *qiime longitudinal linear-mixed-effects *

I am getting the errors:
Error: Missing option: --p-state-column
Error: Missing option: --p-individual-id-column
Error: Missing option: --o-visualization

It is not recognizing my p-state and the p-individual id column. I am not sure why.
This is the command I ran:
qiime longitudinal linear-mixed-effects
--m-metadata-file mapping_file_RS_linear_mixed__effect_models.txt
--m-metadata-file shannon_vector.qza
--p-metric shannon
--p-group-columns Diet\
--p-state-column Time
--p-individual-id-column Sample.ID
--o-visualization linear-mixed-effects.qzv --output-dir Linear_mixed_effect_models

And the metadata.
mapping_file_RS_linear_mixed__effect_models.csv (10.2 KB)

I would appreciate any input on this. I thought the --p-state information should be in the form of text and no numbers. Initially, I was trying to do the analysis with the "Time_Points" column and because it is a mixture of letters and numbers, it was not running. So, I changed it in another column called "Time" but it didn't work either. Seems the issue is on the way the metadata is presented.

Thanks!
@idapantoja

[thermokarst]

Please see this existing thread for details:

–o-denoising stats: command not found

@farhad63, The issue is that your command is separated onto multiple lines. Put your entire command on a single line like to prevent this issue from occurring. Alternatively, put a backslash character (\) at the end of each line to let the computer know that your command continues onto the next line. You will note this is what is done in the QIIME 2 documentation — breaking up the command onto multiple lines makes it easier to read in the tutorial, but requires the backslashes to the computer …

Thanks!

[idapantoja]

Great! that was exactly my problem! Easy fix!

Thanks a lot!
@idapantoja