Ok - I believe I figured out the problem, but I wanted to post it to the
list, so that anyone else who encounters this error can hopefully spend less
time than I did tracking down the culprit!
Essentially, a break was being passed inappropriately to the mri_vol2roi
subroutine called by func2roi-sess. The break (return/enter, etc) was
located in the .txt file that specified the run numbers that I wanted to
analyze (in my case, 007 008 009). These strings were separated by a space
and a break, which caused the srcvol to equal
srcvol = bold/007
/fmcsm8
And this caused func2roi-sess to terminate with errors when it couldn't find
such a file.
-----Original Message-----
From: John Richey
Sent: Friday, December 11, 2009 4:30 PM
To: 'Freesurfer@nmr.mgh.harvard.edu'
Subject: Re: [Freesurfer] func2roi-sess bug?
I am using v4.5.0, on CentOS 5.4.
Here is the log:
[ja...@meehl freesurfer]$ func2roi-sess -roidef l_lingual -analysis
dotprobe_all_hrf -anatlabel lh.lingual -maskcontrast AllvFix -maskthresh 0
-masktail pos -maskmap sig.nii -sf subjectlist.txt -d
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer/
----------------------------------------------------------
func2roi-sess logfile is
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/log/func2ro
i-sess.log
----------------------------------------------------------
-----------------------------------------------------
Session: SAD_C17 1/26
Fri Dec 11 16:05:23 EST 2009
Fri Dec 11 16:05:23 EST 2009
---------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi --srcvol bold/dotprobe_all_hrf/h --roiavg
bold/dotprobe_all_hrf/l_lingual/h --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h.txt
---------------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcvol bold/dotprobe_all_hrf/h --roiavg bold/dotprobe_all_hrf/l_lingual/h
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h.txt
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/h roitxtfile =
bold/dotprobe_all_hrf/l_lingual/h.txt
oldtxtstyle = 0
srcvol = bold/dotprobe_all_hrf/h.nii
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
srcreg Dsrc -------------
0.999 -0.001 -0.043 -6.051;
0.036 -0.523 0.852 -10.837;
0.024 0.852 0.522 1.743;
0.000 0.000 0.000 1.000;
----------------------------------
ras2vox src (tkreg) Qsrc -------------
-0.320 0.000 0.000 32.000;
-0.000 -0.000 -0.320 32.000;
-0.000 0.227 -0.000 16.000;
0.000 0.000 0.000 1.000;
----------------------------------
Reading bold/dotprobe_all_hrf//AllvFix/sig.nii
NOT INVERTING
Loading volume bold/dotprobe_all_hrf/h.nii ...done
INFO: Source volume detected as selxavg format
INFO: Adjusting Frame Power
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 1142 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 93 hits in final mask
label2mask_linear: done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 3673 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 277 hits in final mask
label2mask_linear: done
Averging over ROI
INFO: vol2maskavg: nhits = 93
Done averging over ROI (nhits = 93)
INFO: Readjusting Frame Power
---------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi --srcvol bold/dotprobe_all_hrf/h-offset --roiavg
bold/dotprobe_all_hrf/l_lingual/h-offset --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h-offset.txt
---------------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcvol bold/dotprobe_all_hrf/h-offset --roiavg
bold/dotprobe_all_hrf/l_lingual/h-offset --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h-offset.txt
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/h-offset
roitxtfile = bold/dotprobe_all_hrf/l_lingual/h-offset.txt
oldtxtstyle = 0
srcvol = bold/dotprobe_all_hrf/h-offset.nii
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
srcreg Dsrc -------------
0.999 -0.001 -0.043 -6.051;
0.036 -0.523 0.852 -10.837;
0.024 0.852 0.522 1.743;
0.000 0.000 0.000 1.000;
----------------------------------
ras2vox src (tkreg) Qsrc -------------
-0.320 0.000 0.000 32.000;
-0.000 -0.000 -0.320 32.000;
-0.000 0.227 -0.000 16.000;
0.000 0.000 0.000 1.000;
----------------------------------
Reading bold/dotprobe_all_hrf//AllvFix/sig.nii
NOT INVERTING
Loading volume bold/dotprobe_all_hrf/h-offset.nii ...done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 1142 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 93 hits in final mask
label2mask_linear: done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 3673 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 277 hits in final mask
label2mask_linear: done
Averging over ROI
INFO: vol2maskavg: nhits = 93
Done averging over ROI (nhits = 93)
009ist: 007
-------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/fmcs.txt07
-------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/fmcs.txt07
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
.txtxtfile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
oldtxtstyle = 0
/fmcsm8= bold/007
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
/fmcsm8. Does it exist?lume bold/007
[ja...@meehl freesurfer]$ mri_modify
Usage: mri_modify <-xras xr xa xs> <-yras yr ya ys> <-zras zr za zs> <-cras
cr ca cs> \
<-xsize size> <-ysize size> <-zsize size> \
<-tr recoverytime> <-te echotime> <-ti inversiontime> <-fa
angledegree> \
<-xform new_file_name> \
involume outvolume
[ja...@meehl freesurfer]$ func2roi-sess -roidef l_lingual -analysis
dotprobe_all_hrf -anatlabel lh.lingual -maskcontrast AllvFix -maskthresh 0
-masktail pos -maskmap sig.nii -sf subjectlist.txt -d
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer/ -rawstem
fmcsm8 -rawrlf dotprobe.txt
----------------------------------------------------------
func2roi-sess logfile is
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/log/func2ro
i-sess.log
----------------------------------------------------------
-----------------------------------------------------
Session: SAD_C17 1/26
Fri Dec 11 16:57:34 EST 2009
Fri Dec 11 16:57:34 EST 2009
---------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi --srcvol bold/dotprobe_all_hrf/h --roiavg
bold/dotprobe_all_hrf/l_lingual/h --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h.txt
---------------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcvol bold/dotprobe_all_hrf/h --roiavg bold/dotprobe_all_hrf/l_lingual/h
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h.txt
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/h roitxtfile =
bold/dotprobe_all_hrf/l_lingual/h.txt
oldtxtstyle = 0
srcvol = bold/dotprobe_all_hrf/h.nii
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
srcreg Dsrc -------------
0.999 -0.001 -0.043 -6.051;
0.036 -0.523 0.852 -10.837;
0.024 0.852 0.522 1.743;
0.000 0.000 0.000 1.000;
----------------------------------
ras2vox src (tkreg) Qsrc -------------
-0.320 0.000 0.000 32.000;
-0.000 -0.000 -0.320 32.000;
-0.000 0.227 -0.000 16.000;
0.000 0.000 0.000 1.000;
----------------------------------
Reading bold/dotprobe_all_hrf//AllvFix/sig.nii
NOT INVERTING
Loading volume bold/dotprobe_all_hrf/h.nii ...done
INFO: Source volume detected as selxavg format
INFO: Adjusting Frame Power
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 1142 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 93 hits in final mask
label2mask_linear: done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 3673 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 277 hits in final mask
label2mask_linear: done
Averging over ROI
INFO: vol2maskavg: nhits = 93
Done averging over ROI (nhits = 93)
INFO: Readjusting Frame Power
---------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi --srcvol bold/dotprobe_all_hrf/h-offset --roiavg
bold/dotprobe_all_hrf/l_lingual/h-offset --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h-offset.txt
---------------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcvol bold/dotprobe_all_hrf/h-offset --roiavg
bold/dotprobe_all_hrf/l_lingual/h-offset --srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/h-offset.txt
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/h-offset
roitxtfile = bold/dotprobe_all_hrf/l_lingual/h-offset.txt
oldtxtstyle = 0
srcvol = bold/dotprobe_all_hrf/h-offset.nii
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
srcreg Dsrc -------------
0.999 -0.001 -0.043 -6.051;
0.036 -0.523 0.852 -10.837;
0.024 0.852 0.522 1.743;
0.000 0.000 0.000 1.000;
----------------------------------
ras2vox src (tkreg) Qsrc -------------
-0.320 0.000 0.000 32.000;
-0.000 -0.000 -0.320 32.000;
-0.000 0.227 -0.000 16.000;
0.000 0.000 0.000 1.000;
----------------------------------
Reading bold/dotprobe_all_hrf//AllvFix/sig.nii
NOT INVERTING
Loading volume bold/dotprobe_all_hrf/h-offset.nii ...done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 1142 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 93 hits in final mask
label2mask_linear: done
Lxyz2Scrs:
-0.320 0.000 0.014 33.936;
-0.008 -0.273 -0.167 31.442;
0.008 -0.119 0.194 13.537;
0.000 0.000 0.000 1.000;
INFO: label2mask_linear: there were 3673 label hits voxsize = 42.9687,
rszthresh = 1e-07, thresh = 4.29687e-06
INFO: label2mask_linear: there were 277 hits in final mask
label2mask_linear: done
Averging over ROI
INFO: vol2maskavg: nhits = 93
Done averging over ROI (nhits = 93)
009ist: 007
-------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/fmcs.txt07
-------------------------------------------
--------------------------------------------------------
/mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C17
mri_vol2roi
--srcreg bold/register.dat --label
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label --mskvol bold/dotprobe_all_hrf//AllvFix/sig.nii
--msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
bold/dotprobe_all_hrf/l_lingual/fmcs.txt07
version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
--------------------------------------------------------
roifile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
.txtxtfile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
oldtxtstyle = 0
/fmcsm8= bold/007
srcfmt = bvolume
srcreg = bold/register.dat
srcregold = 0
srcwarp unspecified
label file =
/home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C17/lab
el/lh.lingual.label
labelreg unspecified
label fill thresh = 1e-07
mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
mskfmt unspecified
msk volume same as source
msk tail = pos
msk threshold = 0.000000
msk invert = 0
msk frame = 0
/fmcsm8. Does it exist?lume bold/007
that is bizarre. What version of freesurfer and what operating system are
you using?
doug
John Richey wrote:
> Dear freesurfer experts:
>
> I am trying to extract roi from my fMRI data using func2roi-sess.
> However, I encounter an error that I wonder might be a bug in the
> code? My input is func2roi-sess -roidef l_lingual -analysis hrf
> -anatlabel lh.lingual -maskcontrast AllvFix -maskthresh 0 -masktail
> pos -maskmap sig -sf subjects.txt
>
> (the last 25 or so lines of the log are pasted below). Basically, I
> believe that line in the log that reads:
>
> /fmcsm8= bold/007
>
> should read:
>
> srcvol = bold/007/fmcsm8.nii
>
> The result is that the func2roi-sess routine terminates with the error
> displayed on the last line: /fmcsm8. Does it exist?lume bold/007
>
> Has anyone else encountered this problem? Or maybe I am skipping a
> step? I am using v4.5.0. If it helps, I can also paste my source
> code that seems to produce this error. Thanks in advance
>
> John Richey
>
>
> --------------------------------------------------------
> /mnt/users/jar62/hill/data/Dichter/DotPro.01/Analysis/freesurfer/SAD_C
> 17
> mri_vol2roi
> --srcreg bold/register.dat --label
> /home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C
> 17/lab el/lh.lingual.label --mskvol
> bold/dotprobe_all_hrf//AllvFix/sig.nii
> --msksamesrc --mskthresh 0 --msktail pos --mskframe 0 --finalmskvol
> bold/dotprobe_all_hrf/l_lingual/mask --roiavgtxt
> bold/dotprobe_all_hrf/l_lingual/fmcs.txt07
> version $Id: mri_vol2roi.c,v 1.26.2.2 2008/04/02 22:28:56 greve Exp $
> --------------------------------------------------------
> roifile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
> .txtxtfile = bold/dotprobe_all_hrf/l_lingual/fmcsm8-007
> oldtxtstyle = 0
> /fmcsm8= bold/007
> srcfmt = bvolume
> srcreg = bold/register.dat
> srcregold = 0
> srcwarp unspecified
> label file =
> /home/jar62/net/hill/data/Dichter/DotPro.01/Analysis/freesurfer//SAD_C
> 17/lab
> el/lh.lingual.label
> labelreg unspecified
> label fill thresh = 1e-07
> mskvol = bold/dotprobe_all_hrf//AllvFix/sig.nii
> mskfmt unspecified
> msk volume same as source
> msk tail = pos
> msk threshold = 0.000000
> msk invert = 0
> msk frame = 0
> /fmcsm8. Does it exist?lume bold/007
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
>
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
gr...@nmr.mgh.harvard.edu
Phone Number: 617-724-2358
Fax: 617-726-7422
Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
