oesteban
commented
3 years ago Please check Sherlock's documentation https://www.sherlock.stanford.edu/docs/overview/introduction/ or email the maintainers.
The problem here is that you are probably attempting to bring up FSL's GUI on a headless login- or compute node. For that, I think you'll need to connect to Sherlock with X11Forwarding.
The fact that $DISPLAY is not set is just a confirmation that your session is headless (i.e., there's no screen where the Xorg server will be streaming windows).
The problem, therefore is not with the FSL module.
Hello Poldrack Lab,
I am trying to run FSL on Sherlock and am running into problems.
I logged in requested sdev, moved to the poldrack software directory, loaded modules "labs" and "poldrack," and then loaded "fsl/6.0.4" and then typed "fsl" to try to bring up the gui. I got this message:
DISPLAY is not set. Please set your DISPLAY environment variable!
Tried to fix this with: export DISPLAY=localhost:0.0
But now I get these errors:
Application initialization failed: couldn't connect to display "localhost:0.0" Error in startup script: couldn't connect to display "localhost:0.0" while executing "load /home/groups/russpold/software/fsl-6.0.4/extras/lib/libtk8.4.so Tk" ("package ifneeded" script) invoked from within "package require Tk" invoked from within "if { [ string match -nocase wish $MYSHELL ] } { package require Tk
tk_focusFollowsMouse
bind Button { focus %W ; tk::ButtonEnter ..."
"source [ file dirname [ info script ] ]/fslstart.tcl" (file "/home/groups/russpold/software/fsl-6.0.4/tcl/fsl.tcl" line 71) invoked from within "source ${FSLDIR}/tcl/${origname}.tcl" (file "/home/groups/russpold/software/fsl-6.0.4/bin/fsl" line 22)
Can you advise? Thanks!
PS I'm a postdoc at Stanford in psychiatry