Display settings - Revision history

Markdayel at 00:43, 17 April 2009

2009-04-17T00:43:09Z

← Older revision		Revision as of 00:43, 17 April 2009
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	===Basic settings===		===Basic settings===
	X_BMP true		X_BMP true # whether to write a bitmap for x axis (default for symmetry breaking plane)
	Y_BMP true		Y_BMP true # whether to write a bitmap for y axis
	Z_BMP true		Z_BMP true # whether to write a bitmap for z axis
	BMP_WIDTH 800		WRITE_BMPS_PRE_SYMBREAK false # whether to write images before symmetry breaks. (mainly useful to see what is going on for conditions when symmetry doesn't break!)
	BMP_HEIGHT 800		BMP_WIDTH 800 # width of bitmap in pixels
	BMP_OUTPUT_FILETYPE jpeg		BMP_HEIGHT 800 # height of bitmap in pixels
	BMP_COMPRESSION 100		VIEW_HEIGHT 30 # bitmap scale (height of image in um)
	DRAW_CAGE false		BMP_OUTPUT_FILETYPE jpeg # graphic type for bitmap save (must be recognized ImageMagick type)
	CAGE_ON_SIDE false		BMP_COMPRESSION 100 # bitmap quality setting (ImageMagick)
	GAUSSFWHM 0.70		DRAW_CAGE false # whether to draw the nucleator on the bitmaps (as a 2D projection of cage of points)
	~~FORCE_BAR_SCALE 10~~		CAGE_ON_SIDE false # whether to draw the cage on the side of the image
	~~VIEW_HEIGHT 30~~		GAUSSFWHM 0.70 # width of the gaussian used to blur the node points to make the pseudo microscope image
	INIT_R_GAIN 80		INIT_R_GAIN 80 # initial gain for red bitmap channel (rescaled at symmetry breaking)
	INIT_G_GAIN 30		INIT_G_GAIN 30 # initial gain for green bitmap channel (rescaled at symmetry breaking)
	INIT_B_GAIN 200		INIT_B_GAIN 200 # initial gain for blue bitmap channel (rescaled at symmetry breaking)
	BMP_AA_FACTOR 1		BMP_AA_FACTOR 1 # antialiasing factor (produces bigger image and resizes)
	~~WRITE_BMPS_PRE_SYMBREAK false~~

	===Plotting forces on bead===		===Plotting forces on bead===
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	PLOTFORCES_INCLUDEIMPACTS true # whether to include surface impacts in force display vectors		PLOTFORCES_INCLUDEIMPACTS true # whether to include surface impacts in force display vectors
	PLOTFORCES_INCLUDELINKFORCES true # whether to include link tension in force display vectors		PLOTFORCES_INCLUDELINKFORCES true # whether to include link tension in force display vectors
			FORCE_BAR_SCALE 10 # scale factor for force plotting

	===Plotting speckle in shell and tail===		===Plotting speckle in shell and tail===
	SPECKLE true		SPECKLE true # whether to color actin with speckles
	SPECKLEGRID true		SPECKLEGRID true # specles as grid?
	SPECKLEGRIDPERIOD 1000		SPECKLEGRIDPERIOD 1000 # grid period (time)
	SPECKLEGRIDTIMEWIDTH 0 #~~250~~		SPECKLEGRIDTIMEWIDTH 0 # grid stripe pulse width (time)
	SPECKLEGRIDSTRIPEWIDTH 0.3 # ~~0.2~~		SPECKLEGRIDSTRIPEWIDTH 0.3 # grid bar width (distance)
	SPECKLE_FACTOR 0.3		SPECKLE_FACTOR 0.3 # density of speckles if no grid


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	===Basic Settings===		===Basic Settings===
	VTK_WIDTH 800		VTK_WIDTH 800 # VTK image width
	VTK_HEIGHT 800		VTK_HEIGHT 800 # VTK image height
	VIS_PROJECTION z		VIS_PROJECTION z # position of camera: x,y,z or rip ; x,y,z correspond to the bitmap images, rip puts the camera ahead of and slightly above bead to view the rip
	VTK_AA_FACTOR 2		VTK_AA_FACTOR 2 # antialias factor
	COLOUR_GAMMA 1.6		COLOUR_GAMMA 1.6 # color scale gamma

	===What to display===		===What to display===
	VIS_NUCLEATOR true		VIS_NUCLEATOR true # whether to display nucleator
	VIS_NODES false		VTK_NUC_WIREFRAME true # whether to display wireframe nucleator in addition (helps show rotation)
	VIS_LINKS false		VIS_NODES false # whether to display individual nodes as balls
	VIS_SHADELINKS true		VIS_LINKS false # whether to display links as lines
	~~VIS_VOLUMENODES false~~		VIS_SHADELINKS true # whether to color links by strain
	VIS_ISONODES false		VIS_ISONODES false # whether to display isosurfaces of node density
	VIS_NUCOPACITY 1.0		VIS_NUCOPACITY 1.0 # opacity of nucleator
	VIS_TRACKS true		VIS_TRACKS true # whether to display node tracks
	~~VIS_TEXT false~~		VIS_USENUCTEXMAP false # whether to put texture on nucleator
	VIS_USENUCTEXMAP false

	===3D view settings===		===3D view settings===
	VTK_MOVE_WITH_BEAD false		VTK_MOVE_WITH_BEAD false # whether to keep bead in center of screen
	VIS_LINETHICKNESS 1.2		VIS_LINETHICKNESS 1.2 # line thickness for links
	~~VIS_VXISCALE 20~~		VIS_PSCALE 55 # scaling factor
	~~VIS_NORMALISEFRAMES false~~		VTK_VIEWANGLE 50 # camera zoom
	VIS_PSCALE 55		VIS_PARALLELPROJECTION true # turns off perspective
	VTK_VIEWANGLE 50		VIS_CAMERADISTMULT 5 # how far to put camera (multiple of radius)
	VIS_PARALLELPROJECTION true		VIS_NORMALISEFRAMES false # whether to normalize intensity of node density isosurface
	VIS_CAMERADISTMULT 5

	==Misc==		==Misc==
	VIS_VTK_HIGHQUAL false		VIS_VTK_HIGHQUAL false # VTK antialiasing
	~~VIS_INTERACTIVE~~ ~~false~~		VIS_FILEPREFIX vtk # output file prefix
	VIS_FILEPREFIX vtk


	==Settings that apply to both bitmaps and VTK==		==Settings that apply to both bitmaps and VTK==

	SYM_BREAK_TO_RIGHT true		SYM_BREAK_TO_RIGHT true # rotate camera to orient symmetry break direction to the right (else just rotate to be in the y-z plane)
	FOCALDEPTH 2.5		FOCALDEPTH 2.5 # restrict plotting of nodes etc. to slab twice this distance thick centered on bead
	BMP_FIX_BEAD_MOVEMENT false		BMP_FIX_BEAD_MOVEMENT false # move camera with bead so bead stays in center of screen
	BMP_FIX_BEAD_ROTATION false		BMP_FIX_BEAD_ROTATION false # rotate the camera with the bead

Markdayel: /* Plotting forces on bead */

2009-04-17T00:18:50Z

Plotting forces on bead

← Older revision		Revision as of 00:18, 17 April 2009
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	===Plotting forces on bead===		===Plotting forces on bead===
	SEGMENT_BINS false		SEGMENT_BINS false # whether to plot radial segments
	RADIAL_SEGMENTS 12		RADIAL_SEGMENTS 12 # number of radial segments
	PLOTFORCES false		PLOTFORCES false # whether to plot forces
			PLOTFORCES_INCLUDEIMPACTS true # whether to include surface impacts in force display vectors
			PLOTFORCES_INCLUDELINKFORCES true # whether to include link tension in force display vectors

	===Plotting speckle in shell and tail===		===Plotting speckle in shell and tail===

Markdayel at 19:49, 15 April 2009

2009-04-15T19:49:51Z

@@ Line 1: / Line 1: @@
-Many settings in the <code>cometparams.ini</code> affect the way data is displayed.
+These settings in the <code>cometparams.ini</code> affect the way data is displayed. There are two display outputs, bitmaps (2D) and VTK (3D).  Bitmaps are automatically created during the initial calculation run, but usually start only after the symmetry breaking direction is determined (since this determines the observer position).  Bitmaps can also be produced after the initial calculation run is complete with <code>comet post</code>, and VTK output is produced only after the initial calculation run with <code>comet view</code> or <code>comet vtk</code>:
 ==Bitmap display settings==
@@ Line 7: / Line 27: @@
   Y_BMP                   true
   Z_BMP                   true
   BMP_OUTPUT_FILETYPE     jpeg
   BMP_COMPRESSION         100
@@ Line 17: / Line 39: @@
   INIT_G_GAIN             30
   INIT_B_GAIN             200
 ===Plotting forces on bead===
@@ Line 71: / Line 95: @@
 ==Settings that apply to both bitmaps and VTK==
   FOCALDEPTH 2.5
   BMP_FIX_BEAD_MOVEMENT false
   BMP_FIX_BEAD_ROTATION false

Markdayel: Created page with 'Many settings in the `cometparams.ini` affect the way data is displayed. ==Bitmap display settings== ===Basic settings=== X_BMP true Y_BMP ...'

2009-04-15T19:37:00Z

Created page with 'Many settings in the <code>cometparams.ini</code> affect the way data is displayed. ==Bitmap display settings== ===Basic settings=== X_BMP true Y_BMP ...'

New page

Many settings in the <code>cometparams.ini</code> affect the way data is displayed.

==Bitmap display settings==

===Basic settings===
X_BMP true
Y_BMP true
Z_BMP true
BMP_OUTPUT_FILETYPE jpeg
BMP_COMPRESSION 100
DRAW_CAGE false
CAGE_ON_SIDE false
GAUSSFWHM 0.70
FORCE_BAR_SCALE 10
VIEW_HEIGHT 30
INIT_R_GAIN 80
INIT_G_GAIN 30
INIT_B_GAIN 200

===Plotting forces on bead===
SEGMENT_BINS false
RADIAL_SEGMENTS 12
PLOTFORCES false

===Plotting speckle in shell and tail===
SPECKLE true
SPECKLEGRID true
SPECKLEGRIDPERIOD 1000
SPECKLEGRIDTIMEWIDTH 0 #250
SPECKLEGRIDSTRIPEWIDTH 0.3 # 0.2
SPECKLE_FACTOR 0.3

==VTK settings (3D)==

===Basic Settings===
VTK_WIDTH 800
VTK_HEIGHT 800
VIS_PROJECTION z
VTK_AA_FACTOR 2
COLOUR_GAMMA 1.6

===What to display===
VIS_NUCLEATOR true
VIS_NODES false
VIS_LINKS false
VIS_SHADELINKS true
VIS_VOLUMENODES false
VIS_ISONODES false
VIS_NUCOPACITY 1.0
VIS_TRACKS true
VIS_TEXT false
VIS_USENUCTEXMAP false

===3D view settings===
VTK_MOVE_WITH_BEAD false
VIS_LINETHICKNESS 1.2
VIS_VXISCALE 20
VIS_NORMALISEFRAMES false
VIS_PSCALE 55
VTK_VIEWANGLE 50
VIS_PARALLELPROJECTION true
VIS_CAMERADISTMULT 5

==Misc==
VIS_VTK_HIGHQUAL false
VIS_INTERACTIVE false
VIS_FILEPREFIX vtk

==Settings that apply to both bitmaps and VTK==

FOCALDEPTH 2.5
BMP_FIX_BEAD_MOVEMENT false
BMP_FIX_BEAD_ROTATION false

Display settings - Revision history

Markdayel at 00:43, 17 April 2009

Markdayel: /* Plotting forces on bead */

Markdayel at 19:49, 15 April 2009

Markdayel: Created page with 'Many settings in the cometparams.ini affect the way data is displayed. ==Bitmap display settings== ===Basic settings=== X_BMP true Y_BMP ...'

Markdayel: Created page with 'Many settings in the `cometparams.ini` affect the way data is displayed. ==Bitmap display settings== ===Basic settings=== X_BMP true Y_BMP ...'