Current data structures - Revision history

AndrewBangham at 06:06, 11 May 2012

2012-05-11T06:06:06Z

← Older revision		Revision as of 06:06, 11 May 2012
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	[[MTtbox documentation#2 B Changing working volumes used for collision detection\|Return to MTtbox documentation]]<br><br>		[[MTtbox documentation#2 B Changing working volumes used for collision detection\|Return to MTtbox documentation]]<br><br>
			==Main data structure==
			To access the data structure from the command line (debugging etc.)
			global data

	data =		data =
Line 18:		Line 21:
	label2organelle: {[] 'nucleus' 'vacuole' 'plasma_membrane' 'cell_wall' 'microtubules' 'actin'}		label2organelle: {[] 'nucleus' 'vacuole' 'plasma_membrane' 'cell_wall' 'microtubules' 'actin'}

	Cell organisation ~~is specified in~~		==Cell organisation==
			Re-initialised with ''Initialise''
	data.cellprops		data.cellprops
	shape: 'Sphere'		shape: 'Sphere'
Line 41:		Line 45:
	sheetPlaneNormal: [0 1 0]		sheetPlaneNormal: [0 1 0]

			==Organelle specification==
			Re-initialised with ''Initialise''
	Not all organelles may be in use - the InUse flag		Not all organelles may be in use - the InUse flag
	data.organelleprops		data.organelleprops
Line 50:		Line 56:
	actin: [1x1 struct]		actin: [1x1 struct]
	vacuole: [1x1 struct]		vacuole: [1x1 struct]

			==Factor specification==
			Re-initialised with ''Initialise''
	Factors represent diffusable, reacting solutes. They occupy the volume (after reshaping) with a value >0. The diffusion constants are also per-voxel.		Factors represent diffusable, reacting solutes. They occupy the volume (after reshaping) with a value >0. The diffusion constants are also per-voxel.

Line 59:		Line 68:
	Color: []		Color: []

	Working arrays ~~are reset on using the~~ Restart ~~button~~		==Working arrays==
			Re-initialised with ''Restart''

	data.working		data.working
	Vol: [25x25x25 int8]		Vol: [25x25x25 int8]
Line 94:		Line 105:
	AgeFormed: 3		AgeFormed: 3

			==GUI and plotted output==
	plotprops used for GUI and plotting - uihandles probably not used at all in the code. The key handles are		plotprops used for GUI and plotting - uihandles probably not used at all in the code. The key handles are
	data.PanelH		data.PanelH

AndrewBangham at 17:54, 2 May 2012

2012-05-02T17:54:10Z

← Older revision		Revision as of 17:54, 2 May 2012
Line 109:		Line 109:
	uihandles: [1x1 struct]		uihandles: [1x1 struct]
	axislabels: [1x1 struct]		axislabels: [1x1 struct]

	~~data.working.dyn.microtubules.Org(1)~~
	~~Type: 0~~
	~~PauseDuration: 0~~
	~~Age: 5~~
	~~TimeNucleated: 0~~
	~~ID: 1~~
	~~Alive: 1~~
	~~Growing: 1~~
	~~Shrinking: 1~~
	~~Catastrophe: 0~~
	~~BoundPLM: 0~~
	~~PLMBindVertNums: []~~
	~~BoundMic: 0~~
	~~MTBindVertNums: []~~
	~~BoundVac: 0~~
	~~VacBindVertNums: []~~
	~~Hit: [1x1 struct]~~
	~~HitMe: [1x1 struct]~~
	~~Verts: [6x3 double]~~
	~~CurrentDirection: [-0.1172 -0.0224 -0.2197]~~
	~~planeNormal: []~~
	~~Props: [1x1 struct]~~
	~~AgeFormed: 3~~

AndrewBangham at 17:53, 2 May 2012

2012-05-02T17:53:35Z

@@ Line 2: / Line 2: @@
    data =
               PanelH: 0.0339
            plotprops: [1x1 struct]
@@ Line 21: / Line 20: @@
 Cell organisation is specified in
   data.cellprops
                     shape: 'Sphere'
                sheetmodel: 0
@@ Line 47: / Line 43: @@
 Not all organelles may be in use - the InUse flag
   data.organelleprops
            cell_wall: [1x1 struct]
      plasma_membrane: [1x1 struct]
@@ Line 60: / Line 53: @@
   data.factorprops
          Name2Index: [0x0 struct]
          Index2Name: []
@@ Line 68: / Line 58: @@
      DiffusionConst: []
               Color: []
 plotprops used for GUI and plotting - uihandles probably not used at all in the code. The key handles are
@@ Line 74: / Line 99: @@
   data.plotprops
                  markers: 0
                     FigH: 1
@@ Line 87: / Line 109: @@
                uihandles: [1x1 struct]
               axislabels: [1x1 struct]

AndrewBangham at 17:46, 2 May 2012

2012-05-02T17:46:00Z

← Older revision		Revision as of 17:46, 2 May 2012
Line 1:		Line 1:
	[[MTtbox documentation#2 B Changing working volumes used for collision detection\|Return to MTtbox documentation]]<br><br>		[[MTtbox documentation#2 B Changing working volumes used for collision detection\|Return to MTtbox documentation]]<br><br>

	data =		data =

	PanelH: 0.0339		PanelH: 0.0339

AndrewBangham at 16:59, 27 April 2012

2012-04-27T16:59:49Z

← Older revision		Revision as of 16:59, 27 April 2012
Line 1:		Line 1:
	[[MTtbox documentation\|Return to MTtbox documentation]]<br><br>		[[MTtbox documentation#2 B Changing working volumes used for collision detection\|Return to MTtbox documentation]]<br><br>

	data =		data =

AndrewBangham at 16:59, 27 April 2012

2012-04-27T16:59:05Z

← Older revision		Revision as of 16:59, 27 April 2012
Line 1:		Line 1:
	data =		[[MTtbox documentation\|Return to MTtbox documentation]]<br><br>

			data =

	PanelH: 0.0339		PanelH: 0.0339

AndrewBangham: Created page with ' data = PanelH: 0.0339 plotprops: [1x1 struct] cellprops: [1x1 struct] iterations: 0 projectname: 'MT_Edinb_20120427' …'

2012-04-27T16:56:39Z

Created page with ' data = PanelH: 0.0339 plotprops: [1x1 struct] cellprops: [1x1 struct] iterations: 0 projectname: 'MT_Edinb_20120427' …'

New page

data =

PanelH: 0.0339
plotprops: [1x1 struct]
cellprops: [1x1 struct]
iterations: 0
projectname: 'MT_Edinb_20120427'
parentdir: 'C:\MyDocuments2012\Matlab\Microtubules'
factorprops: [1x1 struct]
organelleprops: [1x1 struct]
useoforganelle: [1x1 struct]
CustomMode: 1
oldcolour: [0.7020 0.7020 0.7020]
view_steps: 1
FlashCollision: 0
working: [1x1 struct]
label2organelle: {[] 'nucleus' 'vacuole' 'plasma_membrane' 'cell_wall' 'microtubules' 'actin'}

Cell organisation is specified in
data.cellprops

ans =

shape: 'Sphere'
sheetmodel: 0
maxLengthMicrons: 20
secondsPerStep: 1
micronsPerVoxelEdge: 0.8000
cubicMicronsPerVoxel: 0.5120
cellsize: [25 25 25]
colourType: 1
Vol: [25x25x25 int8]
Smooth: 'None'
dynamic: {1x8 cell}
bound_distance: 5
collide_distance: 10
vacuole: [1x1 struct]
cell_wall: [1x1 struct]
plasma_membrane: [1x1 struct]
cytoplasm: [1x1 struct]
Diameter: [1x1 struct]
microtubules: [1x1 struct]
sheetPlaneNormal: [0 1 0]

Not all organelles may be in use - the InUse flag
data.organelleprops

ans =

cell_wall: [1x1 struct]
plasma_membrane: [1x1 struct]
cytoplasm: [1x1 struct]
nucleus: [1x1 struct]
microtubules: [1x1 struct]
actin: [1x1 struct]
vacuole: [1x1 struct]
Factors represent diffusable, reacting solutes. They occupy the volume (after reshaping) with a value >0. The diffusion constants are also per-voxel.

data.factorprops

ans =

Name2Index: [0x0 struct]
Index2Name: []
Concentration: []
DiffusionConst: []
Color: []

plotprops used for GUI and plotting - uihandles probably not used at all in the code. The key handles are
data.PanelH
data.plotprops.AxesH

data.plotprops

ans =

markers: 0
FigH: 1
VolViewerFoldername: 'D:\ab\Matlab stuff\VolViewer\WatchedData'
AxesH: 287.0339
TitleH: 288.0339
XlabelH: 289.0339
YlabelH: 290.0339
cameratoolbarH: 291.0339
uihandles: [1x1 struct]
axislabels: [1x1 struct]