Cannot access when fsl is not installed into default path

Question

Cannot access when fsl is not installed into default path

Closed this issue 5 years ago · 1 comments

Hi! The arch AUR installed the fsl into /opt/fsl which is differ from the default /usr/local/fsl and fsl cannot be automatically accessed. After adding . ${FSLDIR}/etc/fslconf/fsl.sh
into .Renviron, it shows $FSLOUTPUTTYPE not setted. My zsh shell can run fsl normally. Thanks!

Answer 1 · 2019-07-17T15:35:51.000Z

Please see ?get.fsl() documentation:

Finds the FSLDIR from system environment or getOption("fsl.path") for location of FSL functions

You can use options(fsl.path = "/opt/fsl") and retry. fslr does not really support non-standard installations of FSL otherwise if that doesn't work.