When I completed the last step (E.), opened a new terminal and ran:
I got a long output terminating in this:
setenv: Too many arguments.
Now when I run this again ( afni_system_check.py -check_all ), I get "command not found."
Running this produces no file: afni_system_check.py -check_all > out.ASC.txt
I’d be grateful for help. Please let me know what to try or if you want to see my hist_commands.txt or hist_messages.txt.
Just to follow up, when compiling the AFNI package, it is generally a good idea not to be in any conda environment (including base). That can cause the compiler to look for libraries in the wrong place. But once the compilation is finished it is generally okay to be in a conda environment when actually running the AFNI programs.
That is to say, when building/updating AFNI: deactivate, build, activate again.
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