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 _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer