Search found 73 matches

by SylvainT
Wed Jan 24, 2018 5:19 pm
Forum: BrainVISA
Topic: problem running a .bvproc from the command line
Replies: 2
Views: 2441

Re: problem running a .bvproc from the command line

Thanks Denis, it works! (I had read about the "enabledb" option somewhere else on the forum when I dug about this yesterday, but I hadn't make the connection with my error... now it makes sense, I've understood that the "Check SPAM model installation" process needs the database t...
by SylvainT
Wed Jan 24, 2018 10:07 am
Forum: BrainVISA
Topic: problem running a .bvproc from the command line
Replies: 2
Views: 2441

problem running a .bvproc from the command line

Hello, I'm trying to run a process that I saved but I'm getting some errors... The file .bvproc has been created by setting up a process in the GUI (the process is "Import FreeSurfer grey/white segmentation to Morphologist", I tested it and it runs perfectly fine from the GUI, then I try t...
by SylvainT
Tue May 19, 2015 3:52 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

Hi Sylvain, Negative color values are not valid, I'm not sure what it will do... For fusions the "neutral" color is normally white (100, 100, 100). To have transparency, you can specify RGBA colors, with 4 values, the 4th being opacity, and use the option color_mode='RGBA' in setColors: p...
by SylvainT
Sat May 16, 2015 3:24 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

Hi Denis, one more question... ;) I need to manually (with the python API) create a color palette that has a transparent component... I've read everything there and found this command to define the RGB colors of a color palette: p.setColors(colors=[100,0,0]*20+[0,100,0]*20+[0,0,100]*20) If I add a c...
by SylvainT
Thu Apr 16, 2015 1:25 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

Hi Sylvain, I guess you are speaking of a texture with a timestep cursor (multitexture displays several textures mixed at the same time). Time is th 4th component of coordinates in anatomist, so to display a given timestep you just have to move the "cursor" to any position with this times...
by SylvainT
Wed Mar 04, 2015 5:21 pm
Forum: BrainVISA
Topic: Sulci recognition, error message
Replies: 5
Views: 3401

Re: Sulci recognition, error message

Hi everybody, Denis, we came across this same problem in a weird situation and we managed to "solve" it... This might help you diagnose the problem... Soooooooooooo, following my question here and your answer to do as indicated in this thread , I removed the brainvisa libstdc++ and we were...
by SylvainT
Mon Feb 09, 2015 4:31 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

Hello Denis, One more time reviving an old thread coz I'd like to have an extra feature to create figures via scripting. Thanks to my script, I display a Fusion object (a textured mesh) in a 3D window... The new thing is that my texture is a time-texture, or a multi-texture (I'm not sure how to call...
by SylvainT
Fri Nov 14, 2014 7:35 pm
Forum: BrainVISA
Topic: bv freesurfer toolbox
Replies: 4
Views: 4071

Re: bv freesurfer toolbox

Hi Denis, Back to this ;) First, here is an extra piece of info: the error I'm gettingactually pops out at the time I launch BV: Loading toolbox brainrat Loading toolbox connectomist Loading toolbox cortical_surface Loading toolbox data management Loading toolbox datamind Loading toolbox editors Loa...
by SylvainT
Fri Nov 14, 2014 2:56 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

thanks a lot, this works perfectly ! ;) Hi Sylvain, You can either: - use the glSetTexRGBInterpolation() method, and then use texture_object.notifyObservers() to trigger update of views and other objects - or use Anatomist().execute("TexturingParams", objects=[texture_object], interpolatio...
by SylvainT
Sun Nov 09, 2014 4:20 pm
Forum: Anatomist
Topic: help scripting to export figures as jpg...
Replies: 17
Views: 14687

Re: help scripting to export figures as jpg...

Hi Denis, I revive an old thread because I need an aditional feature for exporting my figures (I still use everything you explained above regularly, so thanks again!!)... I just need to activate the texture option available in the Texturing contextual menu, which is "RGB space interpolation&quo...
by SylvainT
Tue Sep 23, 2014 9:59 am
Forum: BrainVISA
Topic: bv freesurfer toolbox
Replies: 4
Views: 4071

Re: bv freesurfer toolbox

thanks Denis!
(I've already tried a few things without success, but I need to look at this in more details, I will keep you posted...)
by SylvainT
Thu Sep 18, 2014 8:41 am
Forum: BrainVISA
Topic: bv freesurfer toolbox
Replies: 4
Views: 4071

bv freesurfer toolbox

Hi! I'm trying to use the freesurfer toolbox... (I think I havn't used it since the BV 4.4 upgrade) My BrainVISA is installed and functional, my freesurfer as well, but when I try to use one of the bricks of the freesurfer toolbox (and actually, some bricks, like the "Freesurfer / BrainVISA ful...
by SylvainT
Mon May 26, 2014 5:08 pm
Forum: BrainVISA
Topic: "Start shell" does not work in 4.4
Replies: 5
Views: 3433

Re: "Start shell" does not work in 4.4

OK, it works now, thanks!! Sylvain ps: I get these warning messages at launch time, but it does not seem to prevent me to running things (at least with the little things I tried...) ---------------------------------------- $BRAINVISA_INSTALLDIR/lib/python2.7/site-packages/Crypto/Util/number.py:57: P...
by SylvainT
Thu May 22, 2014 9:52 am
Forum: BrainVISA
Topic: "Start shell" does not work in 4.4
Replies: 5
Views: 3433

Re: "Start shell" does not work in 4.4

You can try this: ftp://ftp.cea.fr/pub/dsv/anatomist/updates/4.4.0/brainvisa-pyzmq.tar.bz2 just untar it in the brainvisa installation root directory, and tell me if it works... Denis Hi Denis, Sorry for the late reply and thanks for your answer ;) I've tried this, and it does not work... I've trie...
by SylvainT
Tue Apr 01, 2014 4:28 pm
Forum: BrainVISA
Topic: "Start shell" does not work in 4.4
Replies: 5
Views: 3433

"Start shell" does not work in 4.4

Hi, I've been using brainvisa-Mandriva-2008.0-x86_64-4.4.0-2013_11_18 for a while now (with success ;) ), and I've just started to try to run some script that used to work in 4.3... They do not work now... And then, I realized that BV actually crashes when you try to open a shell from the main Brain...

Go to advanced search