BrainVISA

Hi all, I would like the user of my BrainVisa process to choose a threshold for an MRI, so I use the following method in my process : - open the MRI in Anatomist - popupPalette to open the palette window (by the way, the window appears outside the screen except for a small part of it) - the user cho...

Ok, thank you for the information, for now I will just tell the user not to close the block windows without using my BV process
Please inform me when this is ok, or tell me if I can do something.
Have a merry Christmas !

Ok thanks, it works fine now. But I have some problems related to this one : - if my program closes the windows, I still have the block window (empty) displayed. Should I destroy it with closeWindow too ? - if the user closes the block window, how can I notice this from BrainVisa ? Because right now...

Hi all ! When I try to open a .ima.gz file, Anatomist tries to unzip the file to read it, but it seems to have a problem to create the temporary file. In fact, the path is rather strange : uncompressing file /pclxserver2/home/manik/EricModules/Stereotaxie/Template/StereoFrameTemplate.Leksell.3voxels...

Hi, in a BrainVisa (development version) process, I wanted to create of few windows grouped in a single block. I wonder whether I understand the Anatomist Commands help correctly : I tried to create some windows in a loop : a.createWindow("Sagittal", block = 2) a.createWindow("Axial&q...

Ok, everything works now.
I had already done "linkParameters", so I just needed the voxel size.
Thank you for the explanation.

Hi, I would like to know if I can retrieve the voxel coordinates of a point clicked on in Anatomist from BrainVisa, using a Point3D() parameter (instead of mm coordinates). I need to do this to extract a box-shaped ROI from a T1 MRI, and AimsSubVolume does only work with voxel coordinates. I see onl...

Hi, I just try to open a DICOM image (directly in Anatomist or using AimsFileConvert). In both cases, I get a "segmentation fault". (gdb) bt #0 0x42a485d7 in aims::DicomReader<short>::readData () from ***SHFJ_pack-stable-linux-2.3.2/lib/libaimsdicom.so.2.13 #1 0x42a32deb in aims::DicomForm...

Hi all, I had two problems using AimsMeshTransform on meshes from Graph objects (those in the .data directory of the graph). First, I tried to use AimsMeshTransform -i graph.arg/graph.mesh -t transform.trm, without giving a "-o" option, assuming it would overwrite the input file (as stated...

Did you try to load only one dataset or a few ones ?
I already had some crashes while loading bad data (corrupted files).

Hi all, I juste tried to create a graph from a set of meshes using AimsMeshes2Graph, and I was surprised to notice that all graph nodes created are named "unknown". Wouldn't it be a good idea to name a node from the mesh file used to create it ? The node created for the file "myMesh.m...

Hi Denis,

thanks a lot,

I realize I did not try the alpha channel on the right node of the hierarchy, that is why I thought it was not working...
Thanks for the added functionnality in .minf !

I am not sure of my answer because I do not develop Anatomist/BrainVisa, but : - BrainVisa processes assume the images are in radiological convention, and some of them do not work it they are not. - You can ask Anatomist to display all images in the neurological orientation : just go to "Settin...

Ok, I understand better the way I should use linkParameters. But in fact, I am doing something a little more complicated : I put a "Transform directory" in the signature of my process, then I list all files in it, to compute paths from one referential to another. There may be a better way ...

Hi all,

I am trying to display a 3D image of a brain, using a clipping plane from the MRI of the same brain. By default, when I use an axial plane, I see only the upper part of the brain mesh, but I would like to display the lower part.

Is it possible to do this ?

Thanks in advance,