Search found 1348 matches

by riviere
Tue Jul 10, 2018 1:59 pm
Forum: Anatomist
Topic: RGBA palette in pyanatomist
Replies: 6
Views: 4355

Re: RGBA palette in pyanatomist

Hi Guillaume, I guess what is missing is an extra parameter "texture_index=1" in the TexturingParams command: actually a Fusion2D has 2 textures, and the mixing mode you want to apply here is when merging the 2nd texture (index 1) with the previous one, thus the merging textue index is 1. ...
by riviere
Thu Jun 28, 2018 5:52 pm
Forum: BrainVISA
Topic: MRI segmentation using morphologist 2015 error
Replies: 7
Views: 4667

Re: MRI segmentation using morphologist 2015 error

It depends on he context :)
Well morphologist often outputs this kind of messages in a non-harmful way. If the process goes to the end and produces readable results, then it is OK. I admit that the messages are misleading...
Denis
by riviere
Thu Jun 28, 2018 1:28 pm
Forum: BrainVISA
Topic: MRI segmentation using morphologist 2015 error
Replies: 7
Views: 4667

Re: MRI segmentation using morphologist 2015 error

Hi,
Have you used the T1 MRI importation process before running morphologist ? Normally this process takes care of all conversions for Morphologist.
If it still desn't work, then there is a "real" problem...
Denis
by riviere
Fri Jun 08, 2018 2:52 pm
Forum: Anatomist
Topic: RGBA palette in pyanatomist
Replies: 6
Views: 4355

Re: RGBA palette in pyanatomist

Hi Guillaume, Yes normally you are right, except that... there is a bug. The transparency status of the palette is not updated when calling customPalette.setColors(...). I'm fixing this. In the meantime, you can call manually, after setColors(): customPalette.update() Note also that depending on the...
by riviere
Fri Jun 01, 2018 5:13 pm
Forum: BrainVISA
Topic: Off line install for MAC
Replies: 1
Views: 2776

Re: Off line install for MAC

Hi, Well we have a little problem on the Mac currently: the machine we are using to build has partly crashed its disk, and now it curiously fails the step where it builds the .dmg image for the installer (whereas everything else seems to still work). So it breaks all the automatic procedure for pack...
by riviere
Fri Jun 01, 2018 4:29 pm
Forum: BrainVISA
Topic: Importing T1
Replies: 1
Views: 2786

Re: Importing T1

Hi, dcm2nii is part of Mricron , it''s a tool that has to be installed seprately. However there is obviously a missing test in the import process since it should not try to use this converter if Mricron is not detected. Could you give us a bit more details about the error when using AimsFileConvert ...
by riviere
Mon May 28, 2018 6:17 pm
Forum: Anatomist
Topic: Registration issue
Replies: 3
Views: 3096

Re: Registration issue

Preferences are not saved automatically, we consider it's a deliberate user action, especially if they have been modified by a script. You can change them this way: import anatomist.api as ana a = ana.Anatomist() a.config()['setAutomaticReferential'] = 1 a.config()['commonScannerBasedReferential'] =...
by riviere
Mon May 28, 2018 1:11 pm
Forum: Anatomist
Topic: Registration issue
Replies: 3
Views: 3096

Re: Registration issue

Hi, Welcome to the amazing world of coordinates transformations :) If you go in Anatomist preferences, "volumes" tab, and check both options "use referential/transformation information from header" and "assume all 'scanner-based' referentials are the same", then load th...
by riviere
Mon May 21, 2018 10:34 pm
Forum: BrainVISA
Topic: Calling "Import FreeSurfer grey/white segmentation to Morphologist" from a script
Replies: 2
Views: 3035

Re: Calling "Import FreeSurfer grey/white segmentation to Morphologist" from a script

Hi, It should normally work as you had expected but it may behave differently if databases have been disabled at startup in your script. As I don't know how it starts, I cannot really tell... If databases are enabled and setup (you need a Freesurfer database and a Morphologist database for the proce...
by riviere
Mon May 07, 2018 11:53 am
Forum: BrainVISA
Topic: Compilation Error: Ubuntu 16.04 LTS
Replies: 2
Views: 3208

Re: Compilation Error: Ubuntu 16.04 LTS

Hi Alex, There seems to be a problem with the Minc lib configurartion: it is detected (since it tries to compile the minc module) but the headers location is not correct. Can you try moving away the CMakeCache.txt file in the root build directory, and try again doing bv_maker configure build ? If th...
by riviere
Mon Apr 30, 2018 5:59 pm
Forum: BrainVISA
Topic: Database is locked
Replies: 2
Views: 3099

Re: Database is locked

Hi, BrainVisa is using SQlite to manage its databases. SQLite works without a server, and uses a file locking mechanism to avoid concurrent access to the database. However this locking mechanism is provided by the filesystem, and it appears that NFS does not implement it correctly (NFS3 at least). W...
by riviere
Sun Apr 29, 2018 8:21 pm
Forum: Anatomist
Topic: QPixmap::setMask() mask size differs from pixmap size
Replies: 17
Views: 8195

Re: QPixmap::setMask() mask size differs from pixmap size

Hi, There is certainly a way, but it's very difficult to help you since we cannot reproduce the problem, and it doesn't seem to happen outside of your specific script using Intranat, so the only thing I can do is guess and imagine potential explanations... I suppose Intranat is not making use of thr...
by riviere
Sun Apr 29, 2018 8:13 pm
Forum: BrainVISA
Topic: BV on new MAC machine
Replies: 1
Views: 2695

Re: BV on new MAC machine

Hi,
Well I have to check. Does it happen when using the eye buttons ?
I will not be able to try it before wednesday (and I may forget, then...)
Denis
by riviere
Tue Apr 24, 2018 11:28 am
Forum: Anatomist
Topic: Hide/Show chosen sulcus
Replies: 2
Views: 2629

Re: Hide/Show chosen sulcus

Hi, Yes it is possible, but... well I've just found a bug here, I have fixed it but you might have to recompile anatomist with latest updates for everything to work. So it is possible to display a graph without its vertices (thus not display anything by default), then use the selection mechanism to ...
by riviere
Sat Apr 21, 2018 1:06 pm
Forum: BrainVISA
Topic: QC on large database
Replies: 1
Views: 2745

Re: QC on large database

Hi joost,
The QC table will easily tell you if there are missing data, and allow to inspect it one by one, but is not really a tool for the quality of processings.
Snapbase can help you too.
Denis

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