Hi,
I am a bit stucked. I am using a clean Linux Debian distribution with only qiime1&2 installed according to the install docs. There should be no existing R/R Studio installation.
Based on the description in the .RProfile trick I tested the command:
R -e ".libPaths()"
This command returned:
> .libPaths()
[1] "/home/martin/miniconda3/envs/qiime2-2017.12/lib/R/library"
>
>
I guess this means that everything is okay and no conflicting R installations should be expected?
I even tried to create an ~/.Rprofile file, including the line .libPaths(.libPaths()[1]).
This didn't changed anything and I still encounter the return code -11 while running DADA2.
Cheers,
Martin
[EDIT]
I tried to remove old qiime2 environments (remove -n qiime2-2017.10, remove -n qiime2-2017.11, remove -n qiime2-2017.12, conda clean -y --all) and qiime2 re-installation, but without any success.