Your answer crossed my question in cyber space. I always knew the freesurfer
people were superhuman!
Brian
> From: Bruce Fischl <[EMAIL PROTECTED]>
> Date: Sat, 25 Mar 2006 19:27:11 -0500 (EST)
> To: Shahabuddin Ansari <[EMAIL PROTECTED]>
> Cc: "freesurfer@nmr.mgh.harvard.edu"
> Subject: [Frees
Hi Folks,
I have a related issue. My problem could be easy to solve if I could
maintain original resolution from AFNI to Freesurfer and then back to AFNI.
For instance, I would like to force no reslicing/interpolation with
mri_convert. My original resolution is .938 x .938 x 1. I thought that there
Just in case someone hasn't mentioned it yet, try 3dWarpDrive or convert to
analyze and use the AIR suite.
Graham is correct. There are past posts about this on the AFNI forum that
would be helpful to you.
Good luck.
Brian
--
Brian C. Schweinsburg, Ph.D.
Assistant Adjunct Professor of Psychiatr
Dear Antao,
Check the recent archives with the subject "make_average_subject error?" and
the recent exchange with Nick. On Doug's advice, I added 'xv' to the
beginning of each make_average* script
So,
#!/bin/tcsh -efxv
Instead of #!/bin/tcsh -ef
This produced the output that allowed the freesurf
; #endif
>
> #set n = `echo $argv | grep -e --version | wc -l`
> #if($n != 0) then
> # echo $VERSION
> # exit 0;
> #endif
>
> This appears to be where your script is stopping, and I would like to
> see what it does if it gets beyond this point.
>
> Thanks
>
> On F
oug Greve <[EMAIL PROTECTED]>
Date: Tue, 27 Sep 2005 15:04:59 -0400
To: "Brian Schweinsburg, Ph.D." <[EMAIL PROTECTED]>
Cc: "freesurfer@nmr.mgh.harvard.edu"
Subject: Re: [Freesurfer] make_average_subject error?
Try editing those scripts so that the first line is:
#!/b
average_bcs --subjects SC010 SC011 SC012 SC013 SC015 SC016 SC017 SC018 SC019 SC020 SC021 SC022 SC023 SC024 SC025 SC026 SC027 SC030 SC031 SC032 SC033 SC034 SC035 SC036
grep -e --help
wc -l
From: Doug Greve <[EMAIL PROTECTED]>
Date: Tue, 27 Sep 2005 15:04:59 -0400
To: "Brian Schweinsb
-8585 x6109
Cell: 858-354-3756
From: Doug Greve <[EMAIL PROTECTED]>
Date: Tue, 27 Sep 2005 11:16:00 -0400
To: "Brian Schweinsburg, Ph.D." <[EMAIL PROTECTED]>
Cc: "freesurfer@nmr.mgh.harvard.edu"
Subject: Re: [Freesurfer] make_average_subject error?
Can
xit 0"
Brian
> From: Doug Greve <[EMAIL PROTECTED]>
> Date: Mon, 26 Sep 2005 16:40:48 -0400
> To: "Brian Schweinsburg, Ph.D." <[EMAIL PROTECTED]>
> Cc: "freesurfer@nmr.mgh.harvard.edu"
> Subject: Re: [Freesurfer] make_average_subject error?
&
Hi Folks,
I tried running the latest make_average_subject script (and the
make_average_surface/volume scripts) using the expected command line syntax
and after hitting enter it immediately exits to the csh without error, but
does not produce anything.
make_average_subject --subjects SC010 SC011 S
Is there a way to run recon-all (the new dev version) in the background,
while still saving all the relevant info to the .log and .status files? I
tried recon-all -subjid XXX -autorecon-all & but it still sends info to the
screen.
Thanks,
brian
___
Fr
ructures)?
Thanks for such a great program!
Brian
--
Brian C. Schweinsburg, Ph.D.
Assistant Adjunct Professor of Psychiatry
University of California, San Diego
Office: 858-552-8585 x6109
Cell: 858-354-3756
> From: Nick Schmansky <[EMAIL PROTECTED]>
> Date: Tue, 06 Sep 2005 11:16:22
Hi Nick,
I downloaded freesurfer-Linux-rh9-dev20050905-full.tar.gz and installed it
on the following system:
Fedora Core 4; AMD Sempron 2600+ on an ECS KT600-A board; Nvidia GeForce 2;
1 GB DDR 400 RAM.
'recon-all -subjid XXX -autorecon-all' would not run at first because it
could not find some o
Thanks Kevin. I will do that.
Brian
> From: Kevin Teich <[EMAIL PROTECTED]>
> Date: Mon, 25 Apr 2005 15:20:34 -0400 (EDT)
> To: "Brian Schweinsburg, Ph.D." <[EMAIL PROTECTED]>
> Cc: "freesurfer@nmr.mgh.harvard.edu"
> Subject: Re: [Freesurfer]
Hi,
After installing the freesurfer-Linux-rh9-20050415.tar.gz and setting up the
SetUpFreeSurfer and FreesurferEnv, I get an error message when csurf loads.
It states that it cannot find numerous binaries in
/usr/local/freesurfer/beta/bin. This issue seemed to resolve by
symbollically linking the
7 at 11:44, Yasunari Tosa wrote:
>>
>>
>>> Fixed MacOSX version of tksurfer is available on our ftp page.
>>>
>>> $ ftp surfer.nmr.mgh.harvard.edu
>>>> username: anonymous
>>>> passwd: (your email address)
>>>> cd /transfer/
Sounds good. Thanks.
Brian
> From: Bruce Fischl <[EMAIL PROTECTED]>
> Date: Tue, 7 Dec 2004 11:50:50 -0500 (EST)
> To: "Brian Schweinsburg, Ph.D." <[EMAIL PROTECTED]>
> Cc: <[EMAIL PROTECTED]>
> Subject: Re: [Freesurfer] Stats and viewing parcellatio
Hi All,
I am having problems computing stats using the parcellation file. In
addition, when I try to display the parcellation results in tksurfer (File
-> Label -> Import Annotation -> rh.aparc.annot), which were completed
without an error message using parcellate_subject-rh, I get an error
messag
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