[Mristudio-users] Load ROIs in fibre tracking

[Barbara Bendlin]

That worked, thanks.

>>> susumu mori <susumu at mri.jhu.edu> 6/30/2009 11:43 AM >>>
Hi Barb,

I think the problem is caused by the space in the file path. For example,
your directory path contains "Document[space]and[space]Settings". Our code
is based on MS-DOS, which interprets such a space as the end of each
attribute. So, in your case, the code thought the directory information
ended after "Documents".

I know that it's a silly problem. The code was written using the compiler
provided by Microsoft but it doesn't work for some directory names used in
Windows.....

Anyway, please move all your data to another directory without "space" in
your file path and try again. In general, it is a good idea to avoid any
directories with "space" in the file path when you use our programs.

Susumu

On Tue, Jun 30, 2009 at 12:33 PM, Barbara Bendlin <bbb at medicine.wisc.edu>wrote:

> Hello all,
> I am having a problem loading an ROI for fiber tracking. What happens is
> this:
> After fiber tracking I draw the ROI in DTI Studio (genu of the corpus
> callosum for example).
> The fibers are displayed.
> I then save the ROI as "binary map" format.
> When I attempt to load the ROI again (using the load tab under "ROI
> operation"), I choose the RoiMap_ROI.map file and get this error message:
> "file OPEN error: C:\Documents"
> I get the same error message when the ROI is created in ROI Editor.
> Is this a problem with the location of my files? DTI studio .exe is located
> on C:\Program Files\dtistudio
> My ROI files are located in C:\Documents and Settings\dom-user\My
> Documents\Studies\
> Or maybe I am missing something else?
> Thanks for your help.
> Barb
>
>
> >>> susumu <susumu at mri.jhu.edu> 9/5/2008 11:40 AM >>>
>
>
> Hi Shan,
>
>
>
> Hangyi may have a more "official" answer to your question, but I want to
> introduce you to the "Binary Map" option.
>
>
>
> When you store your ROI, there are several options for the format and one
> of
> them is the "Binary Map". If you click it, you get 3 files. Two 3D binary
> files (your ROI pixels are 1 and all other pixels are 0) and one text file.
> You get the two binary files because you drew 2 ROIs. If you drew 3 ROIs,
> you get 3 binary files. Please open the text file and study what's inside.
> It is like a header file containing information about the ROI binary file
> paths and image dimensions. There you can also find "operation" fields, in
> which you can specify how to use each ROI files. If one ROI have operation
> "0", then it is used as "OR". "1" is for "AND". There is an explanation at
> the end of the file. You can specify the two ROI files for CUT#1 and CUT#2
> too.
>
>
>
> This format is much more powerful because you can import any 1/0 binary
> maps, such as fMRI activation maps, and combine them with different
> operators (OR, AND, NOT, CUT etc). Also in this way, you should not have
> the
> problem you reported.
>
>
>
> Susumu
>
>
>
>  _____
>
> From: mristudio-users-bounces at mristudio.org 
> [mailto:mristudio-users-bounces at mristudio.org] On Behalf Of
> Shan.Shen at surrey.ac.uk 
> Sent: Thursday, August 28, 2008 6:32 AM
> To: mristudio-users at mristudio.org 
> Subject: [Mristudio-users] Save ROIs in fibre tracking
>
>
>
> Hi,
>
>
>
> I would like to use the 'cut' operation to track fibres between two ROIs. I
> did the fibre tracking first, then drew the two ROIs, the fibres displayed
> were those between the two ROIs. However, if I save the ROIs and load them
> again, this time the fibres displayed are not the ones between the ROIs
> anymore, but are fibres passing through one of the ROIs. Could anyone tell
> me what the possible problem is? I tried saving the ROIs as different
> formats, but the problem is the same.
>
>
>
> Many thanks
>
>
>
>
>
> shan
>
>
>
> _______________________________________________
> Mristudio-users mailing list
> Mristudio-users at mristudio.org 
> http://lists.mristudio.org/mailman/listinfo/ 
> Unsubscribe, send a blank email to:
> Mristudio-users-unsubscribe at mristudio.org 
>