Hello,
I am running featquery in order to extract mean % of PE. The procedure runs
without problem from GUI, however since I have large number of subjects it
is a tedious way. I tried therefore to run featquery from command line but
than I encountered problem. Basically it seems that when I run featquery
from prompt the settings in the fsl.csh (setenv FSLOUTPUTTYPE ANALYZE) does
not work and avwmats tries to read a nifti image instead of analyze image. I
encountered this problem with avwmaths also on other occasions but here I
can present the appropriate log:
The featquery run from GUI – works OK
/usr/local/fsl/bin/avwmaths stats/pe1 -mul 100 -div
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/tmp2 -mul
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/mask
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/tmp
The featquery run from prompt – does not work
/usr/local/fsl/bin/avwmaths pe1 -mul 100 -div
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/tmp2 -mul
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/mask
C:/cygwin/usr/local/analisys/neg/K_CHMIELEWSKA_NEGx.feat/featquery/tmp
** ERROR: nifti_image_read(pe1): can't open header file
** ERROR: nifti_image_open(pe1): bad header info
Error: failed to open file pe1
Error:: FslGetIntensityScaling: Null pointer passed for FSLIO
Is there any solution to this problem?
Thanks in advance
Best regards
Michal Kuniecki Ph.D.
Dpt. of Psychophysiology
Institute of Psychology
Jagiellonian University
Al. Mickiewicza 3
31-120 Kraków
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