Hi Doug,
Thanks for your help. To be sure of my preproc-sess line, I just ran preproc-sess on my other participant:
preproc-sess -s sub00294 -fsd rest -per-run -surface self lhrh -mni305 -fwhm 0
Here's the error output from where it goes south:
<SNIP> Tue Nov 6 16:32:30 CST 2012 mc-sess completed SUCCESSFULLY sub00294 To Surface ----------------------------- rawfunc2surf-sess -fwhm 0 -s sub00294 -d /home/chris/resting/func -fsd rest -self -update instem fmcpr outstem fmcpr.sm0.self.hemi ------------------------------ 1/1 sub00294 1/1 sub00294 001 lh --------- Tue Nov 6 16:32:30 CST 2012 ERROR: cannot find /home/chris/resting/func/sub00294/rest/001/register.dof6.dat Try running register-sess with -per-run sub00294 To MNI305 ----------------------------- rawfunc2tal-sess -fwhm 0 -s sub00294 -d /home/chris/resting/func -fsd rest -update -subcort-mask ------------------------------ 1/1 sub00294 1/1 sub00294 001 ---------------- Tue Nov 6 16:32:30 CST 2012 ERROR: cannot find /home/chris/resting/func/sub00294/rest/001/register.dof6.dat Try running register-sess with -per-run ---------------------------------------- Started at Tue Nov 6 16:32:25 CST 2012 Ended at Tue Nov 6 16:32:30 CST 2012 preproc-sess done </SNIP>
Date: Mon, 05 Nov 2012 21:44:23 -0500 From: Douglas Grevegreve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] fs-fast preprocessing resting state To:freesurfer@nmr.mgh.harvard.edu Message-ID:50987987.7010308@nmr.mgh.harvard.edu Content-Type: text/plain; charset=ISO-8859-1; format=flowed
Hi Chris, it should have been done with preproc-sess. What was your preproc-sess command line? At some point, I had it set up so that it would go to the bold directory by default unless you used "-fsd rest". Newer versions require you to specify the FSD specifically.
doug
Can you send me the full terminal output?
On 11/06/2012 05:39 PM, Chris McNorgan wrote:
Hi Doug,
Thanks for your help. To be sure of my preproc-sess line, I just ran preproc-sess on my other participant:
preproc-sess -s sub00294 -fsd rest -per-run -surface self lhrh -mni305 -fwhm 0
Here's the error output from where it goes south:
<SNIP> Tue Nov 6 16:32:30 CST 2012 mc-sess completed SUCCESSFULLY sub00294 To Surface ----------------------------- rawfunc2surf-sess -fwhm 0 -s sub00294 -d /home/chris/resting/func -fsd rest -self -update instem fmcpr outstem fmcpr.sm0.self.hemi ------------------------------ 1/1 sub00294 1/1 sub00294 001 lh --------- Tue Nov 6 16:32:30 CST 2012 ERROR: cannot find /home/chris/resting/func/sub00294/rest/001/register.dof6.dat Try running register-sess with -per-run sub00294 To MNI305 ----------------------------- rawfunc2tal-sess -fwhm 0 -s sub00294 -d /home/chris/resting/func -fsd rest -update -subcort-mask ------------------------------ 1/1 sub00294 1/1 sub00294 001 ---------------- Tue Nov 6 16:32:30 CST 2012 ERROR: cannot find /home/chris/resting/func/sub00294/rest/001/register.dof6.dat Try running register-sess with -per-run ---------------------------------------- Started at Tue Nov 6 16:32:25 CST 2012 Ended at Tue Nov 6 16:32:30 CST 2012 preproc-sess done </SNIP>
Date: Mon, 05 Nov 2012 21:44:23 -0500 From: Douglas Grevegreve@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] fs-fast preprocessing resting state To:freesurfer@nmr.mgh.harvard.edu Message-ID:50987987.7010308@nmr.mgh.harvard.edu Content-Type: text/plain; charset=ISO-8859-1; format=flowed
Hi Chris, it should have been done with preproc-sess. What was your preproc-sess command line? At some point, I had it set up so that it would go to the bold directory by default unless you used "-fsd rest". Newer versions require you to specify the FSD specifically.
doug
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