BrainVISA

OK. Normally the "best way" is either to source the bv_env.sh script in the terminal before running any program in the brainvisa distriution, or run them through the bv_env program (without .sh extension). They setup all needed environment variables both to set BV environment, and to get o...

Hi, Yes, I think I know: a few new objects types in anatomist do not have an associated icon to display them in the graphical interface, and it was not really expected. Is it linked with a specific kind of object ? I get them when using text objects for instance (but not only). I just forgot to crea...

It seems related to the previous problem. It cannot find bv_unenv in the PATH. However this bv_unenv program should be in the bin/ directory of brainvisa. If it is not (or if it does not have execute permission), then it's probably an install problem. If it is actually here, then it's a PATH problem...

Oh OK it's less mysterious this way... I haven't looked how Intranat sets up its environment, if it does or not by itself, or if it is because you maybe run the python scripts directly from Eclipse, bypassing the startup shell scripts which setup the environment (bin/bv_env). Anyway if it works this...

Hi, For 3D rendering reasons, textures are generally rescaled with values between 0 and 1. Scaling factors are kept, and transformed back to real values when the texture is saved or converted to other objects. But these operations may induce rounding issues, as they are float32 values. I don't remem...

Getting the "standard neuroimaging data types" such as PET or FLAIR in a centralized place in axon would be a good start, and we will do so actually. But it doesn't solve all problems. Toolboxes use these types in different ways, probably place files at different locations in different org...

Hi François, Your fix is OK, but I find it simpler if this env dict is never None, so I suggest a different fix which would initialize it with an empty dict rather than None. You can try putting this file at the same location in your brainvisa installation (python/soma/): ftp://ftp.cea.fr/pub/dsv/an...

what do you mean by circular importation of modules ? I mean that to use getAllDiskItemTypes, you need to import brainvisa.processes, and the list of diskitems should be already here. For that, brainvisa.processes needs to import itself all types files. Then your type file imports processes, proces...

Hi Pierre, The types/formats files are read at startup when you run brainvisa, or when you reload toolboxes, not when updating databases. You can get the list of all types ( getAllDiskItemTypes() ) and formats ( getAllFormats() ), and check if one of them is present in the list: from brainvisa.proce...

Hi François,
Thanks, the instructions on the web site have been updated accordingly.
Denis

Thanks for the installation instructions. I have included them in the install instructions on the download page of the web site:
http://brainvisa.info/web/download.html ... untu-shell

Denis

I'm just thinking: in your snapshot the rendering of the cursor seems OK for an "empty" window (it is just clipped to the bounding box of an empty content). Moreover the tile of the window seems to say that there is no object at all in the window. So the problem is perhaps not in the rende...

Hi, There is a problem in the handling of some temporary files actually on Windows, we have already found and fixed it in our sources, but haven't got time to release the fixed version yet. In your case I thing the problem is triggered by the fact that your image is considered as float voxel values ...

Hi, Well, actually we did not get a chance to try this configuration - our institution does not support Windows 10 yet. I was wondering how graphical / 3D applications would run in the Ubuntu / windows binding... Did you try some other 3D linux application (glxgears to begin withk; does glxinfo outp...

OK in the next update (or if you are building anatomist from sources), it should be included in setMaterial(): Denis