BrainVISA

I am having difficulty attaching a .bck file to the forum post, let me know if you would like me to email it to you.

Best,
Will

Hello again, Since I last responded I have run Morphologist on 580 subjects and now have lots of tracing data to work with. While I haven't manually quality-checked all 580 brains, all of the files seemed to open well in Anatomist, however in the case that this issue does occur again while I am usin...

Hello, I am trying to overlay and operate on NIFTI files of a sulcus tracing outside of BrainVISA, and so I would like to have NIFTI files in the same space as the original T1 MRI. When I use Create Sulcus Label Volume, the NIFTI output will be the sulcus I am interested in, and when I load that NIF...

Hi Denis,
I could not load those files into scripts that required them as input, but the item.unlockData() worked well (as well as just simply removing the lock file).

Thank you!
Will

Hello, I wrote a script to run morphologist on some brains from the command line, and I am now trying to view the resulting sulci graph (*.arg). The anatomist application stops responding after, and I figured something was wrong with the .data files. I could individually load all the .bck files from...

Hello, I am attempting to convert freesurfer files to those compatible with morphologist using the freezurfer import to morphologist tool. When executing this from the command line using axon-runprocess —enabledb, I will sometimes randomly have outputs become locked, and scripts I use after (such as...

Hello, I have tried to download BrainVISA from Mac and from Linux from http://brainvisa.info/web/download.html, but whenever I click on any of the download hyperlinks, the page is either reloaded or I am redirected to a page that says "The requested URL /packages/4.6.1/osx/brainvisa-installer/b...

Hi Denis, Thank you for the thorough response! I had unchecked a few steps before the brain mask step and also unchecked the brain mask step in BrainVISA Morphologist 2015. I was able to successfully use my own brain mask which helped increase presence of orbitofrontal sulcus tracings. I will likely...

**Correction: brainvisa MRI (not mdi) format

Hi Alexjandro, I've had similar problems before. When you converted to brainvisa mdi format, did you set the voxel type to S16? Try using the Aims Converter tool in BrainVISA (Tools>converters>Aims Converter) and select the output voxel type to be S16. This helped with some errors in the past I have...

Hello, I am trying to use the Morphologist Pipeline (non-UI) (from BrainVISA version 4.5) on a Mac (OSX 10.9), and I am running into a few errors. I am not using the UI because the T1MRI's I have are already preprocessed/masked/skull stripped, and the UI procedure applies another brain mask that cau...