does that file exist? Did that disk run out of space?
Krishna Srihasam wrote:
Hi,
I am trying to analyze my fMRI data ( collected at MGH) using FSFAST
and I was following the tutrial
(http://surfer.nmr.mgh.harvard.edu/fswiki/FsFastWorkFlows).
I was able to unpack the data. But when I run "preproc-sess -s
<subject_name> -fwhm 2", it fails at 3dvolreg. Here is the log file
fmc.nii.mclog.
I checked the tempvol.nii.gz . afni was able to open it and disply the
slice. Any help is welcome.
regards,
krishna
/tmp/sk/FSFAST/abe_090116/bold
/usr/local/imports/freesurfer/fsfast/bin/mc-afni2
--i 005/f.nii --t 005/f.nii --frame 0 --o 005/fmc.nii --mcdat
005/fmc.mcdat
Thu Jan 22 19:07:38 EST 2009
uid=2308(sk) gid=12308(sk)
groups=11(floppy),17(audio),18(video),19(cdrom),12308(sk),12345(spm),12349(numbra)
ives
Linux ives 2.6.24.5-smp #2 SMP Wed Apr 30 13:41:38 CDT 2008 i686
Intel(R) Xeon(R) CPU E5405 @ 2.00GHz GenuineIntel GNU/Linux
/usr/local/imports/freesurfer/bin/3dvolreg
mcdat file is 005/fmc.mcdat
tmp dir is 005/tmp.mc-afni2.15217
#...@# --------------------------------
/tmp/sk/FSFAST/abe_090116/bold
mri_convert 005/f.nii 005/tmp.mc-afni2.15217/tempvol.nii.gz --nskip 0
--ndrop 160 -odt float
mri_convert 005/f.nii 005/tmp.mc-afni2.15217/tempvol.nii.gz --nskip 0
--ndrop 160 -odt float
nskip = 0
ndrop = 160
$Id: mri_convert.c,v 1.146.2.2 2008/03/02 02:53:20 nicks Exp $
reading from 005/f.nii...
TR=2000.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, -0, 0)
j_ras = (-0, -0.34202, -0.939693)
k_ras = (-0, -0.939693, 0.34202)
changing data type from 4 to 3 (noscale = 0)...
Dropping last 160 frames
writing to 005/tmp.mc-afni2.15217/tempvol.nii.gz...
#...@# --------------------------------
/tmp/sk/FSFAST/abe_090116/bold
mri_convert 005/f.nii 005/tmp.mc-afni2.15217/invol.nii.gz -odt float
mri_convert 005/f.nii 005/tmp.mc-afni2.15217/invol.nii.gz -odt float
$Id: mri_convert.c,v 1.146.2.2 2008/03/02 02:53:20 nicks Exp $
reading from 005/f.nii...
TR=2000.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, -0, 0)
j_ras = (-0, -0.34202, -0.939693)
k_ras = (-0, -0.939693, 0.34202)
changing data type from 4 to 3 (noscale = 0)...
writing to 005/tmp.mc-afni2.15217/invol.nii.gz...
#...@# --------------------------------
/tmp/sk/FSFAST/abe_090116/bold
3dvolreg -verbose -dfile 005/fmc.mcdat -base
005/tmp.mc-afni2.15217/tempvol.nii.gz -prefix
005/tmp.mc-afni2.15217/outvol.nii.gz 005/tmp.mc-afni2.15217/invol.nii.gz
++ Program 3dvolreg: AFNI version=AFNI_2006_03_21_1314 [32-bit]
++ Authored by: RW Cox
** ERROR (nifti_image_read): failed to find header file for
'005/tmp.mc-afni2.15217/tempvol.nii.gz'
** Couldn't open -base dataset 005/tmp.mc-afni2.15217/tempvol.nii.gz
ERROR: 3dvolreg
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