I don't know the open command. Try some other editor. Attached is what I
get when I run the cat command below, and it reads fine into FS.
On 08/25/2014 02:50 AM, Robby De Pauw wrote:
Dear Douglas,
The file is created on a mac using the open -e command. I’ve tried
running your command:
cat whiplash.fsgd | sed 's/\r/\n/g' > new.whiplash.fsgd
However, this makes the file unreadable for FreeSurfer. Any ideas?
Thank you in advance,
Robby
Date: Thu, 21 Aug 2014 13:30:19 -0400
From: Douglas N Greve <gr...@nmr.mgh.harvard.edu
<mailto:gr...@nmr.mgh.harvard.edu>>
Subject: Re: [Freesurfer] GLM: Error Matric-Scale
To: freesurfer@nmr.mgh.harvard.edu <mailto:freesurfer@nmr.mgh.harvard.edu>
Message-ID: <53f62cab.1060...@nmr.mgh.harvard.edu
<mailto:53f62cab.1060...@nmr.mgh.harvard.edu>>
Content-Type: text/plain; charset=ISO-8859-1; format=flowed
It looks like your fsgd file may have been created on a windows
computer. Is that possible? Try reformatting it in linux or mac.
doug
On 08/20/2014 12:58 PM, Robby De Pauw wrote:
Hi there FreeSurfer
When trying the GLM-analysis I keep getting the following error. Could
you help me with fixing it?
ERROR: matrix is ill-conditioned or badly scaled, condno = 1e+08
--------------------------------
Possible problem with experimental design:
Check for duplicate entries and/or lack of range of
continuous variables within a class.
If you seek help with this problem, make sure to send:
1. Your command line:
mri_glmfit --y lh.whiplash.thickness.10B.mgh --fsgd whiplash.fsgd dods
--C group_diff.mtx --surf fsaverage lh --cortex --glmdir
lh.whiplash.glmdir
2. The FSGD file (if using one)
3. And the design matrix above
Thank you in advance,
Robby
Robby De Pauw, dra.
*Ghent University*
Department of Physiotherapy and Rehabilitation Sciences
3B3
De Pintelaan 185
B-9000 Ghent
robby.dep...@ugent.be <mailto:robby.dep...@ugent.be>
<mailto:robby.dep...@ugent.be>
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Robby De Pauw, dra.
*Ghent University*
Department of Physiotherapy and Rehabilitation Sciences
3B3
De Pintelaan 185
B-9000 Ghent
robby.dep...@ugent.be <mailto:robby.dep...@ugent.be>
On 22 Aug 2014, at 18:00, freesurfer-requ...@nmr.mgh.harvard.edu
<mailto:freesurfer-requ...@nmr.mgh.harvard.edu> wrote:
Re: [Freesurfer] GLM: Error Matric-Scale
_______________________________________________
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--
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: https://gate.nmr.mgh.harvard.edu/filedrop2
www.nmr.mgh.harvard.edu/facility/filedrop/index.html
Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/
GroupDescriptorFile 1
Class GEZ
Class WAD
Input GEZ_004_HACO GEZ
Input GEZ_006_ELDE GEZ
Input GEZ_014_GRBU GEZ
Input GEZ_033_LOVE GEZ
Input GEZ_038_LIDA GEZ
Input GEZ_042_MADE GEZ
Input GEZ_049_ELWE GEZ
Input GEZ_074_FIOR GEZ
Input GEZ_075_ISKL GEZ
Input GEZ_078_HEVA GEZ
Input WAD_017_CACO WAD
Input WAD_019_NADE WAD
Input WAD_047_JESE WAD
Input WAD_057_PACA WAD
Input WAD_090_MASU_V_1 WAD
Input WAD_IWT021_ALAS WAD
Input WAD_IWT043_NAME WAD
Input WAD_IWT047_KIMO WAD
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