Summary

• Page properties (2 modified, 0 added, 0 removed)

Details

Page properties

Title

...	...	@@ -1,1 +1,1 @@
1		-Widget 3D Head
	1	+Widget 3D

Content

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1		-Source code: [[https:~~/~~/github.com/the-virtual-brain/tvb-widgets>>https://github.com/the-virtual-brain/tvb-widgets]]
	1	+TODO
2	2
3		-Immediate testing: [[https:~~/~~/lab.ch.ebrains.eu/hub/user-redirect/lab/tree/shared/TVB%20Widgets/REPO/tvb-widgets/notebooks/HeadWidget.ipynb>>https://lab.ch.ebrains.eu/hub/user-redirect/lab/tree/shared/TVB%20Widgets/REPO/tvb-widgets/notebooks/HeadWidget.ipynb]]
4		-
5	5	== Purpose ==
6	6
7		-It is a Jupyter widget intended for visualization of the 3D Head data available for a patient:
	5	+It is a Jupyter widget intended for visualization of the 3D data available for a patient:
8	8
9	9	* surfaces of different types (cortex, face, skull, etc)
10	10	* connectivity region centers
...	...	@@ -38,40 +38,22 @@
38	38	from IPython.core.display_functions import display
39	39	)))
40	40
41		-Then, there are 2 options to work with the widget:
	39	+Then, we instantiate the **ThreeDWidget** and a **FaceSurface** datatype that we want to visualize. Using the //**add_datatype**// method we add the surface to our widget and __display__ the widget:
42	42
43		-1. Use a file browser to load the data and automatically display it
44		-1. Use directly the API to load the data and display it
45		-
46		-
47		-
48		-For the first option, you have to run the following 2 lines of code in a notebook cell and then just use the UI controls:
49		-
50	50	(% class="box" %)
51	51	(((
52		-widget = api.HeadBrowser()
53		-display(widget)
54		-)))
	43	+widget_3d = api.ThreeDWidget()
55	55
56		-
57		-For the second option, the API is described below:
58		-
59		-In a new cell, we instantiate the **HeadWidget** and a **FaceSurface** datatype that we want to visualize. Using the //**add_datatype**// method we add the surface to our widget and __display__ the widget:
60		-
61		-(% class="box" %)
62		-(((
63		-widget = api.HeadWidget()
64		-
65	65	face = surfaces.FaceSurface().from_file()
66	66
67	67	face.configure()
68	68
69		-widget.add_datatype(face)
70		-display(widget)
	49	+widget_3d.add_datatype(face)
	50	+display(widget_3d)
71	71	)))
72	72
73	73	{{html}}
74		-<iframe src="https://drive.google.com/file/d/1Egp9Lk-HGMATc9em6Kw_jSHmybTD2vzM/preview" width="840" height="480" allow="autoplay"></iframe>
	54	+<iframe src="https://drive.google.com/drive/file/1Q9oTEqoqMRwjzJpngSCNRAIbJzDfUh4q/preview" width="840" height="480" allow="autoplay"></iframe>
75	75	{{/html}}
76	76
77	77	Next, we can continue adding other datatypes to this widget, by calling //**add_datatype**// multiple times. A maximum of 10 datatypes are supported by this widget.
...	...	@@ -86,7 +86,7 @@
86	86
87	87	conn.configure()
88	88
89		-widget.add_datatype(conn)
	69	+widget_3d.add_datatype(conn)
90	90
91	91
92	92	seeg = sensors.SensorsInternal().from_file()
...	...	@@ -93,13 +93,9 @@
93	93
94	94	seeg.configure()
95	95
96		-widget.add_datatype(seeg, api.HeadWidgetConfig(name='SEEG'))
	76	+widget_3d.add_datatype(seeg, api.Config(name='SEEG'))
97	97	)))
98	98
99		-{{html}}
100		-<iframe src="https://drive.google.com/file/d/1RLwts75Hh31LoPdWLK7QOM61KIsOabF1/preview" width="840" height="480" allow="autoplay"></iframe>
101		-{{/html}}
102		-
103	103	We can also provide a **RegionMapping** to be used as colormap for a surface:
104	104
105	105	(% class="box" %)
...	...	@@ -106,7 +106,7 @@
106	106	(((
107	107	reg_map = region_mapping.RegionMapping.from_file()
108	108
109		-config = api.HeadWidgetConfig(name='Cortex')
	85	+config = api.Config(name='Cortex')
110	110
111	111	config.add_region_mapping_as_cmap(reg_map)
112	112
...	...	@@ -115,14 +115,9 @@
115	115
116	116	cortex.configure()
117	117
	94	+widget_3d.add_datatype(cortex, config)
118	118
119		-widget = api.HeadWidget()
120		-
121		-widget.add_datatype(cortex, config)
122		-
123		-display(widget)
124		-)))
125		-
126	126	{{html}}
127		-<iframe src="https://drive.google.com/file/d/1zrbjdb8Y4V5rqg7Y7LDGlHHMS0RH8luz/preview" width="840" height="480" allow="autoplay"></iframe>
	97	+<iframe src=" https://drive.google.com/file/d/1PXsxLqydNDDORIK85cQaEgGt9QdWLcC7/preview" width="840" height="480" allow="autoplay"></iframe>
128	128	{{/html}}
	99	+)))