rk. Which wb command would you recommend?
Thank you very much,
Xavier.
From:
hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>
[hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>]
on
Hello,
You will need to convert your data to the CIFTI Label File format using
“wb_command". A label table contains a group of labels and each label consists
of a text name, RGB color components, and an integer value. When the data is
displayed, coloring is performed by matching data values
Hello Kristian,
* Load your files into Workbench and select the first map in your GIFTI file.
* Select File Menu->Animation Control.
* On the Animation Control Dialog, press the Record button (near the top right
of the dialog).
* In the Workbench window, click the mouse in the map index control
Question: I am using wb_view version 1.2.3. I have noticed that it is not
possible to draw a continuous line by holding down the alt/option key and the
left mouse button while dragging the mouse. Drawing a border is possible only
by drawing multiple points.
Is this a known issue, or am I
There is an option for changing the way images are captured:
* Display the Preferences Dialog by selecting File Menu->Preferences.
* On the Preferences Dialog, click the OpenGL tab.
* Change Image Capture Method to Grab Frame Buffer.
* Close the Preferences Dialog and try image capture again.
It
The surface files are in GIFTI format and documentation for the GIFTI format is
available at https://www.nitrc.org/projects/gifti. GIFTI files support several
formats including ASCII (text) that can be viewed in a text editor. A GIFTI
file is converted to ASCII format using Connectome
Hi Keith,
The settings for volume cross-hairs and slice labels are only in the
preferences file; they are not in the scene file.
Both wb_view and wb_command use the same preferences so as long as you are on
the same computer and do not change the status of crosshairs/labels, their
appearance
Keren,
wb_view accepts multiple files when run from the command line (wb_view -help).
If you run “wb_view file_1.nii file_2.nii file_3.nii” you should have one
instance of wb_view with the three files loaded.
John Harwell
On Sep 28, 2017, at 7:52 AM, Keren Kotler
Tim and Kelly,
This error probably occurs when wb_shortcuts runs ‘mris-convert’. A solution
for the “lazy symbol” errors is described at the end of these FreeSurfer
Release Notes: https://surfer.nmr.mgh.harvard.edu/fswiki/ReleaseNotes
If your FreeSurfer installation is up to date, the release
Hi Marta,
Does wb_view start up if you do not try to load any files? Is this the first
time you have run wb_view on this Mac?
Do you know which file is causing the crash? You could use File Menu —> Open
File and try opening just a surface file.
John Harwell
> On Dec 12, 2017, at
change I had these past weeks was the MATLAB_R2017b.
On Dec 12, 2017, at 1:12 PM, Harwell, John
<jharw...@wustl.edu<mailto:jharw...@wustl.edu>> wrote:
Hi Marta,
Does wb_view start up if you do not try to load any files? Is this the first
time you have run wb_view on this Mac?
Hi Corina,
At this time, Connectome Workbench is not able to display RGBA files. I do not
know when, or if, display of RGBA files will be added.
As Matt Glasser indicated in his response, you may want to try using a Label
file. A label file contains integers where each value is an index into
There may be some confusion between annotations and labels. Annotations are
the text characters on the surface that identify the parcels (e.g.: “MST”).
Labels refer to the data file overlayed on the surface that colors
brainordinates (surface vertices) by associating a color with a name.
The
Hello,
If you are on a Linux system, try setting the environment variable
XDG_CONFIG_HOME for each user to a shared directory (search for XDG_CONFIG_HOME
in http://doc.qt.io/qt-5/qsettings.html). This should result in a new config
file path
Changes were made to allow pan/zoom/rotation of the surface while in border
drawing mode. In addition, use of the ALT was removed as a particular
operating systems grabbed the ALT key and used it for other purposes. If you
place the mouse over the “New” button in the border toolbar, a tooltip
Hello,
Is wb_view crashing when loading a file or when you are performing an
operation, perhaps editing annotations?
John
> On Feb 23, 2018, at 12:20 PM, Marta Moreno wrote:
>
> Dear experts,
>
> My wb_view crashes after 1 day of using it, what happens is that the
Hello,
No. Connectome Workbench is unable to convert GIFTI files to OBJ files.
John Harwell
On Feb 21, 2018, at 10:18 AM, Shadi, Kamal
> wrote:
Hi all,
Does human connectome workbench have a tool to convert gii surfaces to obj?
Is wb_view crashing with any file or with specific files? Can I get a copy of
a file that is causing the crash?
John Harwell
> On Dec 26, 2017, at 2:20 PM, Marta Moreno wrote:
>
> Thanks.
>
> What details do you need to help?
>
> It crashes anytime I try to open
Hello,
You may be able to use wb_command to convert a list of surface coordinates into
a list of surface vertex indices. wb_command is included with Connectome
Workbench and must be run from within a terminal window (Command Prompt).
“wb_command -surface-closest-vertex” accepts as input a
Hi Garren,
Unfortunately, we have never been able to get the “-show-scene” command to
function on Windows. It is available in the Mac and Linux versions of
wb_command.
John Harwell
On Jul 22, 2018, at 1:16 PM, Garren Gaut
mailto:gbiu...@gmail.com>> wrote:
Hi HCP,
I recently downloaded
This error has been reported before (WB-647 in our internal bug tracking
system). The solution for the user that experienced this problem was to use
the version of Workbench distributed through the HCP website
(https://www.humanconnectome.org/software/get-connectome-workbench).
From some
In Caret5:
* Select File Menu -> Save Data File
* In the Save Data File Dialog, set the File Type to GIFTI Functional File
(*.func.gii)
* Change the File Name so that it ends in “.func.gii” (may want to click the
File Name button to choose the name with a file selection dialog)
* Verify that the
;
Version="1.0"
NumberOfDataArrays="0">
On 11 Apr 2018, at 19:24, Harwell, John
&l
ad.jba...@ndcn.ox.ac.uk<mailto:saad.jba...@ndcn.ox.ac.uk>> wrote:
This one
On 12 Apr 2018, at 15:21, Harwell, John
<jharw...@wustl.edu<mailto:jharw...@wustl.edu>> wrote:
Do you know the name and type of the file displayed as the primary overlay on
the surface? It should be
Workbench does not transform the GIFTI Surface Files. Workbench draws volumes
in coordinate space (not voxel IJK space) using the NIFTI ‘sform’ or ‘qform’.
If the software you are using ignores the NIFTI ‘sform’ or ‘qform’ that may be
why the data does not align.
‘wb_command
Will wb_view start without loading a scene file?
Which version of wb_view are you using (File Menu —> About wb_view)?
How was the scene file created? In wb_view or by a script?
If you upload your scene file at http://brainvis.wustl.edu/cgi-bin/upload.cgi,
I can try to determine the cause of
lab.net<http://pateldsclab.net/>
On Oct 9, 2018, at 1:07 PM, Harwell, John
mailto:jharw...@wustl.edu>> wrote:
How huge is huge? When drawing a new border, the symbol size should be about
3% of the longest surface axis. On a human surface, that appears be about 5mm.
There is no wa
lto:demian.wasserm...@inria.fr>
Associate Research Professor (CRN)
Parietal Lab
INRIA Saclay Ile-de-France
1 Rue Honoré d'Estienne d'Orves, 91120 Palaiseau
On 10 Oct 2018, at 10:51, Harwell, John
mailto:jharw...@wustl.edu>> wrote:
There is nothing in the user interface to adjust the size of
h the same surface?
>
> gaurav patel
> gauravpa...@gmail.com
> pateldsclab.net
>
>> On Oct 10, 2018, at 9:50 AM, Harwell, John wrote:
>>
>> There is nothing in the user interface to adjust the size of the spheres
>> while drawing a border. In a prev
Merging scenes is not feasible. A scene contains the entire ‘internal state’
of wb_view. As you have observed, loading a second scene overwrites the first
scene.
In the future, you could try following these steps:
* Load the data files required for all of your scenes
* Setup Tab 1 for your
Hello,
You can export the data loaded (and displayed) from the dynconn file into a
scalar file.
* Click on a surface or volume to display data from the dynconn file.
* Go to Overlay ToolBox—>Connectivity
* Click the Copy button in the row containing the dynconn file.
* Go to Overlay
Hi Michael,
On Mar 18, 2019, at 6:02 AM, Michael Riedel
mailto:mirie...@fiu.edu>> wrote:
I have two questions that are probably easy fixes, but I can’t seem to find the
solution.
First, is there a way to change the contrast of the surface renderings? I know
Caret had this as an option in
Hi Michael,
With the C-shell (csh) and T-shell (tcsh), you may need to use ’setenv’ instead
of ’set’ in the ‘.cshrc’ file. Use ‘printenv’ to show the path.
https://www.cyberciti.biz/faq/unix-linux-difference-between-set-and-setenv-c-shell-variable/
John Harwell
On May 10, 2019, at 12:24 PM,
33 matches
Mail list logo