I am now getting this error. I am not sure if this is a new issue or related.

fslorient -forceradiological /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/b0pha.nii.gz

mri_probedicom --i //media/Data/Temple/Temple_Tracula/31313422_10128/dti_dicom/31313422_10128.MR.Temple.9.1.20140806.182244.xfrp16.dcm > /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/b0info.dat

TE: Subscript out of range.

fslroi /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/dwi_eddy.nii.gz /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/lowb.nii.gz 0 1

ERROR: Unrecognized format of phase map /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/b0pha.nii.gz

Linux katelinux.psych.northwestern.edu 2.6.32-642.6.2.el6.x86_64 #1 SMP Mon Oct 24 10:22:33 EDT 2016 x86_64 x86_64 x86_64 GNU/Linux

I check all of these images and I can open them. 

On Tue, Dec 13, 2016 at 7:59 PM, Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu> wrote:

Hi Katherine - Can you please use the attached version and tell me if it works? You'll have to copy it into $FREESURFER_HOME/bin, to overwrite the version of xfmrot that you have now. If it works, we'll include it in the next version. Thanks!

a.y

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From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Katherine Damme [katherine.damme@gmail.com]
Sent: Tuesday, December 13, 2016 9:38 AM

To: Freesurfer support list
Subject: Re: [Freesurfer] Tracula Set: No Match

On Tue, Dec 13, 2016 at 8:34 AM, Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu> wrote:

Ok, if you also send me the first file, /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/dwi.ecclog, I'll see if I can replicate the error.

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From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Katherine Damme [katherine.damme@gmail.com]
Sent: Tuesday, December 13, 2016 9:21 AM

To: Freesurfer support list
Subject: Re: [Freesurfer] Tracula Set: No Match

Yes. I immediately tried to enter the command in manually, checked the paths, and looked at the command manual for any format errors. 

[ksd770@katelinux Temple_Tracula]$ xfmrot /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/dwi.ecclog /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs.norot /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs

set: No match.

On Wed, Dec 7, 2016 at 2:41 PM, Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu> wrote:

Thanks. This looks fine. When you run that xfmrot command directly on the linux command line, do you get the same error?

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From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Katherine Damme [katherine.damme@gmail.com]
Sent: Wednesday, December 07, 2016 12:41 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] Tracula Set: No Match

On Mon, Dec 5, 2016 at 12:00 PM, Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu> wrote:

Hi Katherine - The error occurs when processing this file:
/media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs.norot

Can you send this file? Thanks!

a.y

---

From: Katherine Damme [katherine.damme@gmail.com]
Sent: Saturday, December 03, 2016 3:42 PM
To: Freesurfer support list; Anastasia Yendiki
Subject: Tracula Set: No Match

Hello!

I have been getting a "set: No match." error. I haven't been able to sort out what is causing it. 

Attached you will find the configuration file, command, and log files associated with this error. 

"mv -f /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs.norot

xfmrot /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/dwi.ecclog /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs.norot /media/Data/Temple/Temple_Tracula/31313422_10128/dmri/bvecs

set: No match."

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The information in this e-mail is intended only for the person to whom it is
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