I have a problem with qiime taxa collapse script.
I honestly cannot find the reason why.
I am running this on Mac Qiime 2 ( 2020. 6),
Here is the script that I am running:
qiime taxa collapse
I made sure my taxonomy file is the one from the Greengene Database classifier
and the Error Msg seems to be related to –-o-collapsed-table ???
Here is the error msg:
(1/2) Missing option ‘–o-collapsed-table’. ("–output-dir" may also be
(2/2) Got unexpected extra argument ( )
/var/lib/slurmd/job2224692/slurm_script: line 22: –-o-collapsed-table: command not found
My script includes the Missing option…so I don’t understand why it doesn’t recognize it???
Can anyone tell??? what’s wrong??
I am using this script to create an OTU table…which we need for running analysis on Galaxy/Metagenassist…on different platforms.