Search found 209 matches

by denghien
Mon Sep 21, 2015 4:44 pm
Forum: Anatomist
Topic: opacity on fusion2DMethod for many ROIs
Replies: 1
Views: 6361

opacity on fusion2DMethod for many ROIs

Hi Denis, I'm working on a pyanatomist script in order to create a fusion2Method between a lot of ROIs (12) and a T1 template. It works correctly, but the mixing rate is very automatically low because of the number of ROIs. So the opacity of ROIs is very low. Then I would like to set up the paramete...
by denghien
Mon Mar 03, 2014 2:32 pm
Forum: Anatomist
Topic: transparency on a mesh
Replies: 2
Views: 3140

Re: transparency on a mesh

Hi,

I suppose you use pyanatomist ?
Take a look at http://brainvisa.info/doc/pyanatomist-4 ... _base.html and search "hiddenface_wireframe" .

Isa
by denghien
Thu Feb 20, 2014 12:15 pm
Forum: Anatomist
Topic: pyanatomist / palette / load transformation
Replies: 2
Views: 3262

Re: pyanatomist / palette / load transformation

Thanks Denis, 1) It's exactly what I need. 2) My user case is the second. I want to load an identity transformation between 2 referentials as in the anatomist GUI by using "Ctrl + left button". So I wonder if there is a magic parameter or function instead of using something like a.loadTran...
by denghien
Fri Feb 14, 2014 11:01 am
Forum: Anatomist
Topic: pyanatomist / palette / load transformation
Replies: 2
Views: 3262

pyanatomist / palette / load transformation

Hi Denis, I have written a pyanatomist script in order to create many fusions between anatomy and map activation. It works but : 1) I have a problem with the settings of palette. The value min and max (set in the script) are not the same when the GUI of Anatomist is launched, I suppose that Anatomis...
by denghien
Mon Jun 24, 2013 8:18 am
Forum: BrainVISA
Topic: Rigid registration with MI dialog box
Replies: 3
Views: 2642

Re: Rigid registration with MI dialog box

Hi, If you use the "reduction_reference_factor" (it works on reference image), you will damage the image. For example, if you choose the value "1", then 1 voxel out of 2 in the 3 directions will be damaged. It is interesting if images doesn't have the same modality in particular ...
by denghien
Tue Jun 11, 2013 10:13 am
Forum: BrainVISA
Topic: Rigid registration with MI dialog box
Replies: 3
Views: 2642

Re: Rigid registration with MI dialog box

Hi, You could find some information on this part of documentation (Aims command line): http://brainvisa.info/doc/aimsdata-4.3/aims_training/en/html/ch08s02.html In fact, Brainvisa interfaces the AimsMIRregister command line, which is usable in a terminal too. If you launch : AimsMIRegister -h, you w...
by denghien
Fri Jan 25, 2013 8:46 am
Forum: BrainVISA
Topic: Issue with the mesh format for the latest version
Replies: 5
Views: 2739

Re: Issue with the mesh format for the latest version

Hi Joost,

You will find some examples in this part of documentation at the "Meshes" section:
http://brainvisa.info/doc/aimsdata-4.3/ ... s_training%pyaims .


Isa
by denghien
Tue Nov 13, 2012 11:11 am
Forum: BrainVISA
Topic: affine registration
Replies: 1
Views: 1514

Re: affine registration

Hi, In fact you can't use AimsMIRegister in order to compute an affine registration. Sorry, "AffineTransformation3d" mention has been written by default in the help, but it is an error. AimsBlockMatching command is available to compute an affine registration but set the --transfo option to...
by denghien
Tue Nov 13, 2012 10:51 am
Forum: BrainVISA
Topic: Rigid registration using MI
Replies: 1
Views: 1691

Re: Rigid registration using MI

Hi, I suppose you used AimsMIRegister then AimsResample in order to obtain your result, isn't it ? You can use some options with the AimsResample command to change the size of the output. These options are the following: [ --dx <S32> ] dimx of the resampled volume [ --dy <S32> ] dimy of the resample...
by denghien
Tue Nov 13, 2012 9:41 am
Forum: BrainVISA
Topic: Database problem
Replies: 1
Views: 1501

Re: Database problem

Hi, With this kind of error message, it seems a problem has occurred during the update of database. And in this case, the database stays in a "locked" state. I suppose that you have a file something like <journal...> in the root directory of freesurfer database which has been written by Br...
by denghien
Tue Sep 25, 2012 1:13 pm
Forum: BrainVISA
Topic: Morphologisk
Replies: 3
Views: 1871

Re: Morphologisk

Hi, In order to fill out form automatically, you must: 1) create a database (http://brainvisa.info/doc/axon-4.3/bv_training/en/html/ch02s04.html) 2) import data in this database ( http://brainvisa.info/doc/axon-4.3/bv_training/en/html/ch03s02.html ) After that Brainvisa can fill out all parameters w...
by denghien
Mon Sep 24, 2012 11:05 am
Forum: BrainVISA
Topic: Error in Prepare Subject for Anatomical Pipeline
Replies: 6
Views: 2805

Re: Error in Prepare Subject for Anatomical Pipeline

Hi, I've looked at your log and I suggest that you check a few points : -> Can you visualize correctly the following data "../experiments/bv_database2/prot1/OAS1_0001_orig_001/t1mri/acq1/normalized_norm1_OAS1_0001_orig_001.nii" by clicking on the eye in the brainvisa GUI ? -> Have you sele...
by denghien
Thu Sep 20, 2012 10:21 am
Forum: BrainVISA
Topic: Error in Prepare Subject for Anatomical Pipeline
Replies: 6
Views: 2805

Re: Error in Prepare Subject for Anatomical Pipeline

Hi,

In fact, if the input image is a .nii format, I don't know why it tries to convert into tiff.
Could you post a snapshot ?

Thanks,

Isa
by denghien
Tue Aug 21, 2012 8:09 am
Forum: BrainVISA
Topic: VipSkeleton error
Replies: 6
Views: 2694

Re: VipSkeleton error

ok
I'm going to reply by email.
Isa
by denghien
Mon Aug 20, 2012 9:56 am
Forum: BrainVISA
Topic: VipSkeleton error
Replies: 6
Views: 2694

Re: VipSkeleton error

Could you please send us some snapshots of the result and the data ?
Thanks,

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