Hi,
Does the input image look "nornal" ? Is it possible to send the example image to me so that I can try it ?
Denis
Search found 1351 matches
- Sun Nov 04, 2018 2:30 am
- Forum: BrainVISA
- Topic: Error with process Import_FROM_FreeSurfer_TO_Morpho.py
- Replies: 6
- Views: 20634
- Sun Nov 04, 2018 2:28 am
- Forum: BrainVISA
- Topic: Error message: htmllib.HTMLParseError: unexpected call to parse_starttag
- Replies: 1
- Views: 13399
Re: Error message: htmllib.HTMLParseError: unexpected call to parse_starttag
Hi, Strange. I have catched the exception in the code and print the message which causes problem in a modified version of processes.py: ftp://ftp.cea.fr/pub/dsv/anatomist/updates/4.6.1/python/brainvisa/processes.py It should at least continue the execution, and print the message in the terminal like...
- Sun Nov 04, 2018 2:24 am
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27410
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Oh I'm sorry I left again a bug in the debug info prints. Could you please replace again the file sqlFSODatabase.py and try again ?
Denis
Denis
- Wed Oct 31, 2018 7:08 pm
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27410
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Hi, (it would probably better to use several topics for several problems, here the answers will not be clear). For now I only answer to the 1st problem. The problem occurs when re-inserting or updating a file in the database when it has already been inserted. Normally the system should check and upd...
- Fri Oct 26, 2018 6:31 pm
- Forum: BrainVISA
- Topic: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
- Replies: 12
- Views: 27410
Re: Error message: Cannot insert ... because its uuid is in conflict with the uuid of another file in the database
Hi, That's right we have been observing this for a while, and have not found the cause yet (I must admit we have not searched very thoroughly). It isn't very harmful but the database has to be updated from time to time. I have put here a modified version of the database module which should print mor...
- Wed Oct 24, 2018 9:47 am
- Forum: Anatomist
- Topic: Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
- Replies: 2
- Views: 14428
Re: Displaying FreeSurfer aparc.a2009s+aseg atlas with correct colors
Hi François, The min/max you see in the interface are the min/max values of the image voxels (aparc.a2009s+aseg.mgz), not the palette. At the beginning palettes were meant to have an arbitrary number of colors, which are linearly mapped to the interval of the voxel image values. In this situation th...
- Wed Oct 24, 2018 9:03 am
- Forum: BrainVISA
- Topic: Problem Downloading from http://brainvisa.info/web/download.html
- Replies: 1
- Views: 13284
Re: Problem Downloading from http://brainvisa.info/web/download.html
Hi,
Oh you are right, a link to the download directory has been erroneously removed on the web server. I think it is OK now.
Denis
Oh you are right, a link to the download directory has been erroneously removed on the web server. I think it is OK now.
Denis
- Mon Oct 22, 2018 9:46 am
- Forum: BrainVISA
- Topic: BrainVisa Suite installation error
- Replies: 5
- Views: 17686
Re: BrainVisa Suite installation error
Hi,
Yes, there was the same issue on different systems, I have made some fixes (on Ubuntu 16, Mac, Windows 32/64, Mandriva), I didn't take time to test all of them but as it was the same problem, I hope they are fixed now. Tell us...
Denis
Yes, there was the same issue on different systems, I have made some fixes (on Ubuntu 16, Mac, Windows 32/64, Mandriva), I didn't take time to test all of them but as it was the same problem, I hope they are fixed now. Tell us...
Denis
- Mon Oct 15, 2018 3:59 pm
- Forum: BrainVISA
- Topic: BrainVisa Suite installation error
- Replies: 5
- Views: 17686
Re: BrainVisa Suite installation error
Hi, Yes you are right the Ubuntu 16.04 version had broken dependencies. I don't really know how this got messed up (I did a manual fix afterwards and I must have done something wrong). I have rebuilt the entire packages so I hope it is better now. The thing is I can't remember why I did this manual ...
- Sat Oct 06, 2018 4:09 pm
- Forum: BrainVISA
- Topic: bvproc : parameter is not readable or does not exist ERROR
- Replies: 2
- Views: 14402
Re: bvproc : parameter is not readable or does not exist ERROR
Hi, There was probably a problem of access right on the attachments directory on our server. I have changed it, I hope it works better but I haven't tested it. What kind of normalization have you configured in brainvisa (SPM, FSL...), and which one is selected in your pipeline ? Depending on it the ...
- Sat Oct 06, 2018 3:54 pm
- Forum: BrainVISA
- Topic: KeyError while running Morphologist on command line
- Replies: 9
- Views: 23271
Re: KeyError while running Morphologist on command line
Hi Durai, When I copy/paste the commandline to try it I don't get exactly the same error, but I get a different one (however I'm not using version 4.6.0, I am using the bugfix branch of the sources): ValueError: invalid literal for int() with base 10: 'true' This is due the the boolean value of &quo...
- Tue Sep 25, 2018 6:28 pm
- Forum: BrainVISA
- Topic: New update 4.6.1 of BrainVisa
- Replies: 0
- Views: 45199
- Fri Sep 07, 2018 2:57 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38384
Re: Difference of behavior in cutMesh
I have fixed the problem but you will need a new compiled package. I'll do that next week. Otherwise the forum notification seems to be broken, I also don't receive any email when new posts or answers are in the forum. I don't know why, and I'm afraid I really have no time to investigate right now. ...
- Thu Sep 06, 2018 4:42 pm
- Forum: AIMS
- Topic: Difference of behavior in cutMesh
- Replies: 5
- Views: 38384
Re: Difference of behavior in cutMesh
Hi François,
I get the same behavior so I can reproduce the problem. It's obviously a bug, probably in the way the function is called since the algorithm has not changed and is still working inside anatomist. I'll investigate.
Denis
I get the same behavior so I can reproduce the problem. It's obviously a bug, probably in the way the function is called since the algorithm has not changed and is still working inside anatomist. I'll investigate.
Denis
- Wed Aug 15, 2018 9:18 pm
- Forum: Anatomist
- Topic: save an image of the colormap like a colorbar in matlab/matplotlib
- Replies: 1
- Views: 13076
Re: save an image of the colormap like a colorbar in matlab/matplotlib
Hi Guillaume, Sorry I didn't see your post, the forum notification seems broken... Palette images are all images in jpeg, png, or ima formats, but I guess what you want is the colormaps with scale factors applied, and associated image or texture values, right ? Well, there is nothing builtin for tha...