Documentation/4.4/Modules/Contours - Revision history

Unknown user: Text replacement - "slicerWiki/index.php" to "wiki"

2019-11-21T17:34:24Z

Text replacement - "slicerWiki/index.php" to "wiki"

Pinter at 23:01, 12 January 2015

2015-01-12T23:01:54Z

Pinter at 23:00, 12 January 2015

2015-01-12T23:00:25Z

Pinter at 22:59, 12 January 2015

2015-01-12T22:59:12Z

UpdateBot: Nightly -> 4.4

2014-12-25T06:42:51Z

Nightly -> 4.4

New page

<noinclude>{{documentation/versioncheck}}</noinclude>

{{documentation/{{documentation/version}}/module-header}}



{{documentation/{{documentation/version}}/module-section|Introduction and Acknowledgements}}
{{documentation/{{documentation/version}}/module-introduction-start|{{documentation/modulename}}}}
{{documentation/{{documentation/version}}/module-introduction-row}}
This work is part of the SparKit project, funded by An Applied Cancer Research Unit of Cancer Care Ontario with funds provided by the Ministry of Health and Long-Term Care and the Ontario Consortium for Adaptive Interventions in Radiation Oncology (OCAIRO) to provide free, open-source toolset for radiotherapy and related image-guided interventions.<br>
Author: Csaba Pinter (PerkLab, Queen's University)<br>
Contact: Csaba Pinter, <email>pinter@cs.queensu.ca</email><br>
[http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/SlicerRT Back to SlicerRT home]
{{documentation/{{documentation/version}}/module-introduction-row}}
{{documentation/{{documentation/version}}/module-introduction-logo-gallery
|{{collaborator|logo|cco}}|{{collaborator|longname|cco}}
|{{collaborator|logo|sparkit}}|{{collaborator|longname|sparkit}}
|{{collaborator|logo|ocairo}}|{{collaborator|longname|ocairo}}
}}
{{documentation/{{documentation/version}}/module-introduction-end}}


{{documentation/{{documentation/version}}/module-section|Module Description}}
The {{documentation/modulename}} module manages contours and contour hierarchies.


{{documentation/{{documentation/version}}/module-section|Use Cases}}
* Load as ribbon, then compute DVH; the user wants to see the contours in 3D
* Edit contour 1, edit contour 2; see contour 1 while editing contour 2
* Create contour node, convert it to (empty) labelmap; do contouring on the labelmapo representation; convert to model
* Create/load labelmap or surface, create Contour node from that in Subject Hierarchy module

{|align="center"
|[[File:SlicerRT0.5 Contours.png|thumb|720px| Contours module GUI]]
|[[File:SlicerRT_ContourRepresentations.png|thumb|704px| Contours representations]]
|}


{{documentation/{{documentation/version}}/module-section|Tutorials}}
N/A


{{documentation/{{documentation/version}}/module-section|How to}}

; Create contour from scratch
: In Contours module select 'Create new Contour' in the contour selector drop-down to create a new contour
: In Subject Hierarchy module drag&drop new contour from 'Potential subject hierarchy nodes' list to under a structure set in the tree
: The default representation is an empty Ribbon model. It can be converted to Indexed labelmap in the Contours module and then the labelmap '''can be edited in the Editor module'''

; Create contour from labelmap volume or model
: In Subject Hierarchy module drag&drop the existing representation (labelmap or model) from 'Potential subject hierarchy nodes' list to under a structure set in the tree. This way an encapsulating Contour node gets created and associated to the corresponding color table

; Create new Structure set from scratch
: Right-click on an existing Study node and select 'Create child structure set'. This menu item is only available for Study level nodes

;[[Documentation/Nightly/Modules/Contours/HowToEdit|Edit an existing contour]]
: See page via link above


{{documentation/{{documentation/version}}/module-section|Panels and their use}}
* Current contour(s): Currently selected contour node (vtkMRMLContourNode) or conotur hierarchy node (vtkMRMLContourHierarchyNode)
* Active representation: The active representation ('''Ribbon model / Indexed labelmap / Closed surface model''') of the selected contour. If a hierarchy is selected in which the active representations of the contained contours do not match, '''Various''' is indicated
* Change active representation: This box contains controls to convert from one representation to another



{{documentation/{{documentation/version}}/module-section|Similar Modules}}
N/A


{{documentation/{{documentation/version}}/module-section|References}}
Issue on SlicerRT ticketing system [https://www.assembla.com/spaces/slicerrt/tickets/137 here]


{{documentation/{{documentation/version}}/module-section|Information for Developers}}


{{documentation/{{documentation/version}}/module-footer}}

@@ Line 93: / Line 93: @@
 =FAQ=
 * Extract model from a contour<br>
-There is currently no UI solution to extract a model node from a contour node, but it can be done via the python console:
+:There is currently no UI solution to extract a model node from a contour node, but it can be done via the python console:
 <pre>
 >>> contour = getNode('Bladder_Contour')
@@ Line 111: / Line 111: @@
 >>> modelNode.SetAndObserveDisplayNodeID(displayNode.GetID())
 </pre>
-This script uses a contour node with a specific name. If you want to do this for all contours, then just iterate over the vtkMRMLContourNode nodes in the scene, like this:
+:This script uses a contour node with a specific name. If you want to do this for all contours, then just iterate over the vtkMRMLContourNode nodes in the scene, like this:
 <pre>
 >>> allContours = slicer.util.getNodes('vtkMRMLContourNode*')

@@ Line 11: / Line 11: @@
 Author: Csaba Pinter (PerkLab, Queen's University)<br>
 Contact: Csaba Pinter, <email>pinter@cs.queensu.ca</email><br>
-[http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Extensions/SlicerRT Back to SlicerRT home]
+[http://www.slicer.org/wiki/Documentation/Nightly/Extensions/SlicerRT Back to SlicerRT home]
 {{documentation/{{documentation/version}}/module-introduction-row}}
 {{documentation/{{documentation/version}}/module-introduction-logo-gallery

@@ Line 83: / Line 83: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|References}}
-Issue on SlicerRT ticketing system [https://www.assembla.com/spaces/slicerrt/tickets/137 here]
+* Issue for original Contours effort on SlicerRT Assembla ticketing system [https://www.assembla.com/spaces/slicerrt/tickets/137 here]
 <!-- ---------------------------- -->

@@ Line 22: / Line 22: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Module Description}}
-The {{documentation/modulename}} module manages contours and contour hierarchies.
+The {{documentation/modulename}} module manages contours and contour hierarchies.<br><br>
 <!-- ---------------------------- -->
@@ Line 32: / Line 34: @@
 {|align="center"
-|[[File:SlicerRT0.5 Contours.png|thumb|720px| Contours module GUI]]
+|[[File:20150112_ContoursModuleUI.png|thumb|720px| Contours module GUI]]
 |[[File:SlicerRT_ContourRepresentations.png|thumb|704px| Contours representations]]
 |}
@@ Line 45: / Line 47: @@
 ; Create contour from scratch
 : In Contours module select 'Create new Contour' in the contour selector drop-down to create a new contour
-: In Subject Hierarchy module drag&drop new contour from 'Potential subject hierarchy nodes' list to under a structure set in the tree
+: In Subject Hierarchy module drag&drop new contour to under a contour set in the tree
-: The default representation is an empty Ribbon model. It can be converted to Indexed labelmap in the Contours module and then the labelmap '''can be edited in the Editor module'''
+: The default representation is an empty Ribbon model. It can be converted to Indexed labelmap in the Contours module, then the labelmap extracted in SH, which '''can be edited in the Editor module'''
 ; Create contour from labelmap volume or model
-: In Subject Hierarchy module drag&drop the existing representation (labelmap or model) from 'Potential subject hierarchy nodes' list to under a structure set in the tree. This way an encapsulating Contour node gets created and associated to the corresponding color table
+: In Contours module use the Create contour from representation section
-; Create new Structure set from scratch
+; Create new Contour set from scratch
-: Right-click on an existing Study node and select 'Create child structure set'. This menu item is only available for Study level nodes
+: Right-click on an existing Study node and select 'Create child contour set'. This menu item is only available for Study level nodes
 ;[[Documentation/Nightly/Modules/Contours/HowToEdit|Edit an existing contour]]
@@ Line 60: / Line 69: @@
 {{documentation/{{documentation/version}}/module-section|Panels and their use}}
 * Current contour(s): Currently selected contour node (vtkMRMLContourNode) or conotur hierarchy node (vtkMRMLContourHierarchyNode)
-* Active representation: The active representation ('''Ribbon model / Indexed labelmap / Closed surface model''') of the selected contour. If a hierarchy is selected in which the active representations of the contained contours do not match, '''Various''' is indicated
+* Representations: The active representation ('''Ribbon model / Indexed labelmap / Closed surface model''') of the selected contour. If a hierarchy is selected in which the active representations of the contained contours do not match, '''Various''' is indicated
 * Change active representation: This box contains controls to convert from one representation to another
 <!--
 {{documentation/{{documentation/version}}/module-parametersdescription}}
@@ Line 76: / Line 87: @@
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-section|Information for Developers}}
+<!-- ---------------------------- -->
 <!-- ---------------------------- -->
 {{documentation/{{documentation/version}}/module-footer}}
 <!-- ---------------------------- -->