Search found 310 matches

by Yann Cointepas
Thu Apr 06, 2017 2:15 pm
Forum: BrainVISA
Topic: Error at the configure step
Replies: 2
Views: 3709

Re: Error at the configure step

A quick look makes me believe that it is not an error in our code but in a CMake code used to assess some configuration of the system. Do you have libpthread.so installed ? On Ubuntu-16.04, it is located in /usr/lib/x86_64-linux-gnu/libpthread.so and installed by package libc6-dev.
by Yann Cointepas
Wed Feb 15, 2017 9:12 am
Forum: BrainVISA
Topic: Error using the --username option of bv_maker
Replies: 4
Views: 4825

Re: Error using the --username option of bv_maker

Hi,

Yes, it is a bug. I started to look at it but failed to find time to fix it.

Yann
by Yann Cointepas
Fri Dec 09, 2016 1:39 pm
Forum: BrainVISA
Topic: preclinical modules
Replies: 4
Views: 6147

Re: preclinical modules

Hi, The processes you are talking about are part of the Nuclear Processing toolbox (that was named Nuclear Imaging years ago). According to some research in our source code management system, there is almost no activity since the beginning of 2011. No one in CATI is using nor maintaining this toolbo...
by Yann Cointepas
Tue Jul 26, 2016 8:17 am
Forum: BrainVISA
Topic: Morphologist bias correction crash.
Replies: 14
Views: 10750

Re: Morphologist bias correction crash.

It seem that using build for Glibc 2.6 does not always solve the problem. I know one case where both package were not working. It is possible that these problems are related to missing dynamic libraries in the package. These libraries are found on the system but, even if they have the same version, ...
by Yann Cointepas
Mon Jul 25, 2016 2:19 pm
Forum: BrainVISA
Topic: Morphologist bias correction crash.
Replies: 14
Views: 10750

Re: Morphologist bias correction crash.

Hi, I also have the crash of Morphologist* on a Laptop running Ubuntu 16.04. Commenting the two plugins only partially solve the problem. Hopefully, I managed to run Morphologist with sulci recognition by using another build of BrainVISA 4.5.0. The build compiled for Glibc 2.6 under Mandriva 2008 (i...
by Yann Cointepas
Mon Mar 18, 2013 3:00 pm
Forum: BrainVISA
Topic: Converter / Roi Volume / AimsVoiStats
Replies: 2
Views: 3060

Re: Converter / Roi Volume / AimsVoiStats

Hi Laurie, If you only need to use the result of AimsVoiStat, you shoud use AimsRoiFeatures because it is a replacement to AimsVoiStat and you can use either an image or a Graph as ROI (i.e. you do not have to convert). But, in order to investigate the conversion bug anyway, we would need one of you...
by Yann Cointepas
Wed Aug 29, 2012 12:40 pm
Forum: BrainVISA
Topic: Error: Not enough memory
Replies: 7
Views: 5062

Re: Error: Not enough memory

If the problem comes from dcm2nii, it is strange that the problem only arise at the third step. Have you looked at the intermediate results of steps 1 and 2 ? Could you send us one of your image with problem ?
by Yann Cointepas
Tue Jul 03, 2012 4:49 pm
Forum: BrainVISA
Topic: BrainVisa and Fedora 12
Replies: 10
Views: 6641

Re: BrainVisa and Fedora 12

Denis and I have found a way to patch a BrainVISA installation in order to fix the problem with Gnome. I wrote a Python script (attached to this message) that must be run with the Python from the BrainVISA package to patch. This script simply modify a Qt dynamic library to make it unable to identify...
by Yann Cointepas
Fri Jun 22, 2012 4:58 pm
Forum: BrainVISA
Topic: BV 4.0.1 error
Replies: 11
Views: 5372

Re: BV 4.0.1 error

Hi Manik,

You can try to change the Qt style of the appliaction. See the following post:

http://brainvisa.info/forum/viewtopic.php?f=2&t=1533&p=6070#p6070

Best,

Yann
by Yann Cointepas
Wed Jun 20, 2012 10:35 am
Forum: BrainVISA
Topic: BrainVisa and Fedora 12
Replies: 10
Views: 6641

Re: BrainVisa and Fedora 12

I found a way to make BrainVISA work with Gnome. The problems comes from a Qt plugins that adds the GTK+ style to the application. This plugin is installed on some systems and is used for default style when a Qt application is started from a Gnome desktop. Using this plugin may crash the application...
by Yann Cointepas
Fri May 04, 2012 10:29 am
Forum: BrainVISA
Topic: Diffusion tensor estimation and brain extraction
Replies: 2
Views: 2799

Re: Diffusion tensor estimation and brain extraction

For eddy current correction and diffusion tensor estimation I think BrainVISA still rely on methods described in the following paper. ftp://static.lnao.fr/lnao/static/papers/poupon-MIA01.pdf The brain extraction from T2 images (i.e. not the brain extraction from T1 done in Morphologist toolbox) is d...
by Yann Cointepas
Mon Dec 12, 2011 10:05 am
Forum: BrainVISA
Topic: Installation problem on Mac OSX Lion 2.7
Replies: 16
Views: 8798

Re: Installation problem on Mac OSX Lion 2.7

The snow leopard (Uncia uncia or Panthera uncia) is a moderately large cat native to the mountain ranges of South Asia and Central Asia.
Sorry for the bad joke. According to Google results it is MacOS 10.6.
by Yann Cointepas
Tue Sep 13, 2011 3:57 pm
Forum: BrainVISA
Topic: exporting .tex files into Matlab
Replies: 1
Views: 1630

Re: exporting .tex files into Matlab

The tex format can be in binary or in ascii. To convert in ascii, you can use the following:

Code: Select all

AimsFileConvert -i input.tex -o output.tex -e 1

You can do the same with a Gifti output:

Code: Select all

AimsFileConvert -i input.tex -o output.gii -e 1
by Yann Cointepas
Mon Jul 11, 2011 7:59 am
Forum: BrainVISA
Topic: Hippocampus and amygdala segmentation (SACHA)
Replies: 1
Views: 2240

Re: Hippocampus and amygdala segmentation (SACHA)

This toolbox is not yet ready to be distributed. Authors of SACHA are working on its packaging for distribution. When its done they will choose their distribution policy. In the meantime you should contact them directly.

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