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Hi King-Wai -

First of all, thank you so much for taking the time to investigate my RC file. I made the changes that you suggested, but the error keeps coming up.

I have attached the file.

Thanks again,

Alan

On Fri, Aug 5, 2022 at 2:03 PM King-Wai Chu <kingwai.chu@gmail.com> wrote:

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Hi Alan,

They still don't match.
See attached excel file.

Best,

King-Wai

On Fri, Aug 5, 2022 at 2:35 PM Alan Francis <alandarkenergy@gmail.com> wrote:

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Hello King-Wai -

I made the change to the ncpts. But still an error message persists.

ERROR: length of pathway list (ac cc.bodyc cc.bodyp cc.bodypf cc.bodypm cc.bodyt cc.genu cc.rostrum cc.splenium mcp lh.af rh.af lh.ar rh.ar lh.atr rh.atr lh.cbd rh.cbd lh.cbv rh.cbv lh.cst rh.cst lh.emc rh.emc lh.fat rh.fat lh.fx rh.fx lh.ilf rh.ilf lh.mlf rh.mlf lh.or rh.or lh.slf1 rh.slf1 lh.slf2 rh.slf2 lh.slf3 rh.slf3 lh.uf rh.uf) and endpoint label ID list
ERROR: (0 0 0 0 0 0 0 0 0 0 0 10 49 10 49 0 0 0 0 16 16 0 0 0 0 28 60 0 0 0 0 10 49 0 0 0 0 0 0 0 0) do not match



I have attached the RC file. Could you please shed some light on this?

Thank you

Alan

On Fri, Aug 5, 2022 at 11:29 AM King-Wai Chu <kingwai.chu@gmail.com> wrote:

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Hi Alan,

Your pathlist and "Number of path control points"(ncpts) don't match.
You have more than 3 paths in the pathlist and only 3 numbers in ncpts.

Best,

King-Wai




On Fri, Aug 5, 2022 at 10:53 AM Alan Francis <alandarkenergy@gmail.com> wrote:

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Good morning Anastasia -

I made the changes you suggested and removed "extraneous" commands. But the error message still persists. Could you please shed some light on this? Attached - latest RC file.

The error message is : unmatched ' " '

Thank you

Alan

On Thu, Aug 4, 2022 at 12:04 PM Yendiki, Anastasia <AYENDIKI@mgh.harvard.edu> wrote:
Hi Alan - dcmroot is the root directory under which the dicom files are saved. It's actually optional. In your case, either of the following will have the same, correct effect:

set dcmroot = /home/afrancis/Imaging
set dcmlist = (109123/109123_7T_DWI_dir72_AP_SBRef.nii.gz)

OR

set dcmlist = (/home/afrancis/Imaging/109123/109123_7T_DWI_dir72_AP_SBRef.nii.gz)

In addition, there are a lot of things that you left in there from the example RC file. You should delete them entirely, unless you specifically want to set one of those things to something other than the default. These are examples that may not give you the default behavior. Also the field mapping files - delete those lines because you're just using the example names and they're not going to work. You want your RC file to have the minimum necessary for your analysis.

Best,
Anastasia.


From: freesurfer-bounces@nmr.mgh.harvard.edu <freesurfer-bounces@nmr.mgh.harvard.edu> on behalf of Alan Francis <alandarkenergy@gmail.com>
Sent: Thursday, August 4, 2022 12:23 PM
To: Freesurfer <freesurfer@nmr.mgh.harvard.edu>
Subject: [Freesurfer] Tracula Config file.
 

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Hi Anastasia -

Hope you are well. I am running tracula on FS 7.2. I created the RC file based on your recommendations. However it is giving me an error message when I run it. The error is : Unmatched ' " "

I have attached the RC file. Could you please see where I have made an error.

Thanks so much,

Best regards,

Alan

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|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|

Alan N. Francis PhD
Assistant Professor of Neuroscience
Institute of Neuroscience
University of Texas, School of Medicine
Rio Grande Valley
Texas.
                                                                                                          
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--
|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|

Alan N. Francis PhD
Assistant Professor of Neuroscience
Institute of Neuroscience
University of Texas, School of Medicine
Rio Grande Valley
Texas.
                                                                                                          
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--
King-Wai Chu, Ph.D.
Program Analyst
Mental Illness Research, Education and Clinical Center (MIRECC, VISN3)
James J. Peters Dept. of Veterans Administration Medical Center (OOMH)
130 W. Kingsbridge Road
Bronx, NY 10468
_______________________________________________
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--
|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|

Alan N. Francis PhD
Assistant Professor of Neuroscience
Institute of Neuroscience
University of Texas, School of Medicine
Rio Grande Valley
Texas.
                                                                                                          
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed.  If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline <MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline> .


--
King-Wai Chu, Ph.D.
Program Analyst
Mental Illness Research, Education and Clinical Center (MIRECC, VISN3)
James J. Peters Dept. of Veterans Administration Medical Center (OOMH)
130 W. Kingsbridge Road
Bronx, NY 10468
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
The information in this e-mail is intended only for the person to whom it is addressed.  If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Mass General Brigham Compliance HelpLine at MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline <MailScanner has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://www.massgeneralbrigham.org/complianceline> .


--
|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|~|

Alan N. Francis PhD
Assistant Professor of Neuroscience
Institute of Neuroscience
University of Texas, School of Medicine
Rio Grande Valley
Texas.