Search found 310 matches

by Yann Cointepas
Mon Mar 08, 2010 6:21 pm
Forum: AIMS
Topic: AimsMesh: ima TO mesh
Replies: 8
Views: 20843

Re: AimsMesh: ima TO mesh

My suggestion to fusion your image with a mesh is a bit stupid because you do not have such a mesh. To build such a mesh, you may have to do some kind of segmentation before using AimsMesh.
by Yann Cointepas
Mon Mar 08, 2010 6:13 pm
Forum: AIMS
Topic: AimsMesh: ima TO mesh
Replies: 8
Views: 20843

Re: AimsMesh: ima TO mesh

What is the content of your image ? Is it a binary image or an image of labels representing ROIs ? If not (for instance if your image is an MR image), you should not use AimsMesh but create a fusion object in Anatomist (for instance a Cut Mesh fusion) to combine your image and your mesh. Anyway, Ana...
by Yann Cointepas
Tue Jan 26, 2010 2:55 pm
Forum: BrainVISA
Topic: error in import T1 with brainvisa3.2
Replies: 14
Views: 10954

Re: error in import T1 with brainvisa3.2

After your previous message I also fixed the mixing of "/" and "\" in file names. There are only "\" now on Windows. I attached the modified file (located in python/brainvisa/data directory) if you want to try it.
by Yann Cointepas
Fri Jan 22, 2010 11:39 pm
Forum: BrainVISA
Topic: BrainVISA / Anatomist 3.2.0
Replies: 4
Views: 5793

Re: BrainVISA / Anatomist 3.2.0

Quite strange because libc is a core library of the system. I did not had any problem on Ubuntu 9.04 (now I use 9.10) but I had many package installed for the compilation of BrainVISA. Are you using a 64 bits Ubuntu version ?
by Yann Cointepas
Fri Jan 22, 2010 12:04 pm
Forum: BrainVISA
Topic: error in import T1 with brainvisa3.2
Replies: 14
Views: 10954

Re: error in import T1 with brainvisa3.2

To solve the problem, you can replace two Python files in your BrainVISA directory with the ones attached to this message. Then restart BrainVISA and update your databases (including the shared database) even if BrainVISA does not ask for it. I will remind the fMRI/HRF developers that there are ques...
by Yann Cointepas
Thu Jan 21, 2010 6:16 pm
Forum: BrainVISA
Topic: error in import T1 with brainvisa3.2
Replies: 14
Views: 10954

Re: error in import T1 with brainvisa3.2

Ok, I found it. A Windows specific bug had been introduced in 3.2.0 version. This is due to a wrong usage of system directory separator ("/" on Linux and MacOS but "\" on Windows) when reading database ontology (only "/" must be used here). Hopefully, we are going to re...
by Yann Cointepas
Mon Jan 18, 2010 11:38 am
Forum: Anatomist
Topic: Convert .ucf and .dx files to Anatomist compatible files
Replies: 2
Views: 4851

Re: Convert .ucf and .dx files to Anatomist compatible files

Long ago I posted a message with blender plugins to import/export meshes:

http://brainvisa.info/forum/viewtopic.p ... nder#p3396

But I do not know if these plugins are stiil working with recent blender releases.
by Yann Cointepas
Mon Jan 18, 2010 11:33 am
Forum: BrainVISA
Topic: error in import T1 with brainvisa3.2
Replies: 14
Views: 10954

Re: error in import T1 with brainvisa3.2

In the error message from the process, the output file name is in "G:\laure\..." whereas the database directory you showed is in "G:\isabelle\...". This can explain the error message. But what I cannot understand, is how BrainVISA had been able to create a file name starting with...
by Yann Cointepas
Sat Jan 16, 2010 3:32 pm
Forum: BrainVISA
Topic: error in import T1 with brainvisa3.2
Replies: 14
Views: 10954

Re: error in import T1 with brainvisa3.2

I suppose that you did not use the red database icon to select output file name. BrainVISA have a problem with the output file name. To find in which database to store the file, BrainVISA compares databases directory name with the begining of the output file name. If no matching database directory i...
by Yann Cointepas
Thu Dec 17, 2009 11:40 am
Forum: BrainVISA
Topic: Major changes planned for 2010
Replies: 0
Views: 30442

Major changes planned for 2010

Dear all, BrainVISA core team has planned some changes for future releases. Since some of these change are major and can impact toolboxes development and usage, an agenda had already been set-up for the main releases of 2010 in order to give the opportunity for concerned people to be prepared for th...
by Yann Cointepas
Wed Nov 25, 2009 4:45 pm
Forum: BrainVISA
Topic: BrainVISA and Mac OS X 10.6
Replies: 12
Views: 8775

Re: BrainVISA and Mac OS X 10.6

We do not have a recent Mac with OS X 10.6 in our lab but a collaborator will probably test the latest package on his wife laptop soon. Could you give us more information about what happen when you try to install the package ?
by Yann Cointepas
Wed Nov 25, 2009 4:05 pm
Forum: BrainVISA
Topic: Nuclear Imaging Toolbox
Replies: 1
Views: 2818

Re: Nuclear Imaging Toolbox

Hi,

Unfortunately, people developping this toolbox have decided not to release it in the public BrainVISA release. I do not know if they agree to distribute it on demand. We draw their attention on your message several days ago...

Yann
by Yann Cointepas
Thu Oct 29, 2009 8:19 am
Forum: BrainVISA
Topic: How to export the cortical mesh
Replies: 2
Views: 4034

Re: How to export the cortical mesh

I do not know what formats are supported by Matlab but youy may use Gifti mesh format. There is a free library for reading this format in Matlab (included in SPM8): http://www.artefact.tk/software/matlab/gifti/ . In the current 3.1 BrainVISA release, there are processes that can be used to convert m...
by Yann Cointepas
Thu Oct 15, 2009 10:28 pm
Forum: AIMS
Topic: series of 3D files to a 4D file
Replies: 3
Views: 14320

Re: series of 3D files to a 4D file

AimsTCat is probably what you are looking for.
by Yann Cointepas
Mon Oct 12, 2009 5:05 pm
Forum: BrainVISA
Topic: 'list index out of range' when trying to use registration
Replies: 3
Views: 4146

Re: 'list index out of range' when trying to use registration

The process is expecting that volume_dimension attribute is a list with four values. That is not the case in your image. What is the result of AimsFileInfo on your reference image ?