Thank you, now it works!

Best Francesca

2014-09-08 15:24 GMT+03:00 Douglas Greve greve@nmr.mgh.harvard.edu:

It is not looking for fmc.sm5.DM.lh.nii.gz but rather fmcsm5.nii.gz in

/usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01/bold/001

does that file exist? Have you run preproc-sess? doug

On 8/28/14 9:49 AM, Francesca Strappini wrote:

...

Dear all,

I've run selxavg3-sess and I got this error message when it tried to read the fmcsm file (fmc.sm5.DM.lh.nii.gz).

Thank you for your help, Francesca

shalim-ubuntu:/usr/local/freesurfer/fsfast/MeytalRetinotopy> selxavg3-sess -a rtopy.DM.lh -s SUBJ01 Surface data DM lh

---

selxavg3-sess logfile is /usr/local/freesurfer/fsfast/MeytalRetinotopy/log/selxavg3-sess-bold-rtopy.DM.lh-140828163352.log

---

---

/usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01 Thu Aug 28 16:33:53 IDT 2014 anadir = /usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01/bold/rtopy.DM.lh DoGLMFit = 1 DoContrasts = 1 UpdateNeeded = 1

---

------- matlab output -------------------- No window system found. Java option 'MWT' ignored. Warning: Unable to open display 'iconic'. You will not be able to display graphics on the screen. Warning: No window system found. Java option 'MWT' ignored.

                         < M A T L A B (R) >
               Copyright 1984-2013 The MathWorks, Inc.
                 R2013b (8.2.0.701) 64-bit (glnxa64)
                           August 13, 2013

To get started, type one of these: helpwin, helpdesk, or demo. For product information, visit www.mathworks.com.

sxa3pwd =

/usr/local/freesurfer/fsfast/MeytalRetinotopy

sxa3cmd =

/usr/local/freesurfer/fsfast/bin/selxavg3-sess -a rtopy.DM.lh -s SUBJ01

...

...

/usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m

#@# SUBJ01 ############################### /usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01

---

$Id: fast_selxavg3.m,v 1.100.2.2 2012/11/30 18:40:38 greve Exp $ /usr/local/freesurfer/fsfast/toolbox/fast_selxavg3.m /usr/local/freesurfer/fsfast/toolbox/fast_ldanaflac.m /usr/local/freesurfer/fsfast/MeytalRetinotopy/MRIread.m

---

outtop = /usr/local/freesurfer/fsfast/MeytalRetinotopy Extension format = nii.gz ERROR: cannot determine format of /usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01/bold/001/fmcsm5 ERROR: attempting to read /usr/local/freesurfer/fsfast/MeytalRetinotopy/SUBJ01/bold/001/fmcsm5

---

ERROR: fast_selxavg3() failed\n _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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