Kevin has just made a change to the default way that the DEV version of tksurfer displays colors in overlays. The change has to do with the way the color is displayed near the threshold (fthresh). Previously, as a superthreshold value approached the threshold, its color and opacity would change. The result was that voxels at or just above threshold would be transparent, making them look like they were not active. The default now is to make them opaque regardless of value (as long as they are above threshold).
When you look at the overlay configuation GUI, you will now see three items under "Threshold":
Linear Linear Opaque Piecewise
By default, "Linear Opaque" will be checked. To use the old behavior, check "Linear".
Note that you can still control the overall opacity with the slider at the top of the GUI.
Kevin is working on changing tkmedit. I'll let you know when that is ready.
doug
Kevin has now implemented this in tkmedit in dev.
doug
Doug Greve wrote:
Kevin has just made a change to the default way that the DEV version of tksurfer displays colors in overlays. The change has to do with the way the color is displayed near the threshold (fthresh). Previously, as a superthreshold value approached the threshold, its color and opacity would change. The result was that voxels at or just above threshold would be transparent, making them look like they were not active. The default now is to make them opaque regardless of value (as long as they are above threshold).
When you look at the overlay configuation GUI, you will now see three items under "Threshold":
Linear Linear Opaque Piecewise
By default, "Linear Opaque" will be checked. To use the old behavior, check "Linear".
Note that you can still control the overall opacity with the slider at the top of the GUI.
Kevin is working on changing tkmedit. I'll let you know when that is ready.
doug
What is the corresponding tcl variable called (i.e. the one that selects between the three options Linear/Linear Opaque/Piecewise)?
Thanks,
Tommi
Kevin has now implemented this in tkmedit in dev.
doug
Doug Greve wrote:
Kevin has just made a change to the default way that the DEV version of tksurfer displays colors in overlays. The change has to do with the way the color is displayed near the threshold (fthresh). Previously, as a superthreshold value approached the threshold, its color and opacity would change. The result was that voxels at or just above threshold would be transparent, making them look like they were not active. The default now is to make them opaque regardless of value (as long as they are above threshold).
When you look at the overlay configuation GUI, you will now see three items under "Threshold":
Linear Linear Opaque Piecewise
By default, "Linear Opaque" will be checked. To use the old behavior, check "Linear".
Note that you can still control the overall opacity with the slider at the top of the GUI.
Kevin is working on changing tkmedit. I'll let you know when that is ready.
doug
-- Douglas N. Greve, Ph.D. MGH-NMR Center greve@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422
In order to help us help you, please follow the steps in: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting
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There are is nothing that simple, as it does all the threshold calculating in the tcl code. You can use:
set gaLinkedVars(fopaqueflag) <1 or 0> SendLinkedVarGroup overlay
to turn on and off the opaque flag, and:
set gaLinkedVars(fthresh) <float> set gaLinkedVars(fmid) <float> set gaLinkedVars(fslope) <float> SendLinkedVarGroup overlay
to change the threshold values. When in 'linear' mode, the tcl code disables the mid and slope fields and calculates fthresh/fmid/fslope from the min and max you enter, and then sends those values back to tksurfer.
On Fri, 2007-04-13 at 20:09 -0400, raij@nmr.mgh.harvard.edu wrote:
What is the corresponding tcl variable called (i.e. the one that selects between the three options Linear/Linear Opaque/Piecewise)?
Thanks,
Tommi
Kevin has now implemented this in tkmedit in dev.
doug
Doug Greve wrote:
Kevin has just made a change to the default way that the DEV version of tksurfer displays colors in overlays. The change has to do with the way the color is displayed near the threshold (fthresh). Previously, as a superthreshold value approached the threshold, its color and opacity would change. The result was that voxels at or just above threshold would be transparent, making them look like they were not active. The default now is to make them opaque regardless of value (as long as they are above threshold).
When you look at the overlay configuation GUI, you will now see three items under "Threshold":
Linear Linear Opaque Piecewise
By default, "Linear Opaque" will be checked. To use the old behavior, check "Linear".
Note that you can still control the overall opacity with the slider at the top of the GUI.
Kevin is working on changing tkmedit. I'll let you know when that is ready.
doug
freesurfer@nmr.mgh.harvard.edu
-
Doug Greve -
Kevin Teich -
raij＠nmr.mgh.harvard.edu