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Last modified: 13.07.2004
(See /IDL/pro_src/RODENA/pro_neu/test/feat_eval_d3.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/grad3d.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/wd3d.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/widget_3d_ell_cursor.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/widget_box_cursor.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/widget_cir_cursor.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/widget_ell_cursor.pro)
(See /IDL/pro_src/RODENA/pro_neu/test/widget_lin_cursor.pro)
List of Routines
Routine Descriptions
FEAT_EVAL_D3
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NAME:
FEAT_EVAL_D3
function feat_eval_d3,a,aind
res=fltarr(13)
res(0)=n_elements(aind) ; 0 volume
if res(0) eq 0.0 then return,res
res(1)=total(a(aind))/res(0) ; 1 mean
res(2)=max(a(aind),min=t) ; 2 max
res(3)=t ; 3 min
sa=size(a)
kz=aind/(sa(1)*sa(2))
ky=(aind-(kz*sa(1)*sa(2)))/sa(1)
kx=(aind-(kz*sa(1)*sa(2)))-(ky*sa(1))
res(4:6)=[total(kx)/res(0), total(ky)/res(0), total(kz)/res(0)]
4 swx
5 swy
6 swz
res(7)=max(kx,min=t) ; 7 max_kx
res(8)=t ; 8 min_kx
res(9)=max(ky,min=t) ; 9 max_ky
res(10)=t ; 10 min_ky
res(11)=max(kz,min=t) ; 11 max_kz
res(12)=t ; 12 min_kz
return,res
end
GRAD3D
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NAME:
GRAD3D
PURPOSE:
Calculate 3D gradient
CATEGORY:
image processing
CALLING SEQUENCE:
grad = grad3d(image)
INPUTS:
image: 3D image array
OPTIONAL INPUTS:
KEYWORD PARAMETERS:
TWO: take the next neighbors, (def. take left and right neihbor)
OUTPUTS:
grad: gradient image (byte)
OPTIONAL OUTPUTS:
COMMON BLOCKS:
SIDE EFFECTS:
RESTRICTIONS:
With keyword TWO the gradient image is shifted by a half pixel
PROCEDURE:
EXAMPLE:
imag = bytarr(256,256,64)
imag[64:194,64:194,16:48] = 1b
grad = grad3d(imag)
MODIFICATION HISTORY:
Tue Jul 22 09:03:55 1997, Karsten Rodenacker
<iliad@janus.gsf.de>
WD3D
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NAME:
WD3D
PURPOSE:
Display, analysis and count of 3D Daten
CATEGORY:
3D image analysis
CALLING SEQUENCE:
WD3D only after call of d3l_n
OPTIONAL INPUTS:
Labelled image
KEYWORD PARAMETERS:
General
NOGALLERY: No gallery is displayed (def. 0)
XVISIBLE
YVISIBLE: Size of gallery (def. 512,512)
BOX_ALL Start default box size all (32,32,depth)
For automatic signal count
NOSIGNAL_COUNT: No automatic signal count (def. 0)
MIN_SIGNAL_VOLUME: Min. signal volume (voxel) (def. 10)
THRESH_TOPHAT: Threshold TOPHAT (def. 40)
SIZE_TOPHAT: Size of TOPHAT (def. 3)
SIZE_OPENING: Size of opening after tophat (def. 1)
For labelling functions
LABEL: To reserve space for label volumes
NAM_LABEL: Name for label volume file ('')
SIZE_NUCLEUS_OPEN: Size of opening nucleus (def. 2)
MIN_NUCLEUS_VOLUME Minimum nucleus volume (def. 3000)
LONG: integer signal label volume (def. byte)
Misc
GROUP: Widget_id of main widget
REBUILD: Forces rebuild of widgets (for size changes)
COLOR: n/a
VERBOSE: Full messages
Keywords used from d3l_n,
not used from wd3d (see d3l_n) !
OVER_COLOR:
PATH:
NAME:
NOTOPHAT:
NUMBER_FIELD:
EXTENSION:
NUMBER_SECTIONS:
RESULT:
OUTPUTS:
Count informations
Labelled image
OPTIONAL OUTPUTS:
Count informations
Labelled image
COMMON BLOCKS:
WD3D_DAT contains data
WD3D_INT internal data
SIDE EFFECTS:
RESTRICTIONS:
Needs preceeding call of procedure D3L_N,
to load data and establish common's
PROCEDURE:
1 Load data by calling d3l_n or the simple interface main
2 Call wd3d
EXAMPLE:
main,/LAB,PATH='~/series'
MODIFICATION HISTORY:
Fri Jul 25 16:52:54 1997, Karsten Rodenacker
Tue Jul 22 16:28:25 1997, Karsten Rodenacker
Tue Jul 29 08:15:26 1997, Karsten Rodenacker
<iliad@janus.gsf.de>
WIDGET_3D_ELL_CURSOR
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NAME:
widget_3d_ELL_CURSOR
PURPOSE:
Emulate the operation of a variable-sized ellipse cursor (also known as
a "marquee" selector).
CATEGORY:
Interactive graphics.
CALLING SEQUENCE:
widget_3d_ELL_CURSOR, id1,id2,id3, x0,y0,z0, ra,rb,rc,ang,ang1,
[, INIT = init] [, FIXED_SIZE = fixed_size]
INPUTS:
idxy: Widget id xy
idxz: Widget id xz
idzy: Widget id zy
OPTIONAL INPUT PARAMETERS:
x0, y0, z0, ra, rb,rc, ang, ang1 give the initial location (x0,y0,z0) and
radii and orientation of the ellipse if the keyword INIT is set.
Otherwise, the
ellipse is initially drawn in the center of the screen.
KEYWORD PARAMETERS:
INIT: If this keyword is set, x0,y0,z0, ra,rb,ang,ang1
contain the initial parameters for the ellipse.
FIXED_SIZE: If this keyword is set, ra, rb, ang, ang1
contain the initial parameters of the ellipse.
They may not be changed by the user.
MESSAGE: If this keyword is set, print a short message
describing operation of the cursor
OUTPUTS:
x0: X value of center.
y0: Y value of center.
z0: Z value of center.
ra: radius of ellipse in pixels.
rb: radius of ellipse in pixels.
rc: radius of ellipse in pixels.
ang: angle of orientation [-180, 180]
ang1:angle of orientation [-180, 180]
COMMON BLOCKS:
None.
SIDE EFFECTS:
A ellipse is drawn in the currently active windows. It is erased
on exit.
RESTRICTIONS:
Works only with window system drivers.
PROCEDURE:
The graphics function is set to 6 for eXclusive OR. This
allows the ellipse to be drawn and erased without disturbing the
contents of the window.
Operation is as follows:
Left mouse button: Move the ellipse by dragging.
Middle mouse button: Resize the ellipse by dragging.
Right mouse button: Exit this procedure, returning the
current ellipse parameters.
MODIFICATION HISTORY:
DMS, April, 1990.
DMS, April, 1992. Made dragging more intutitive.
June, 1993 - Bill Thompson
prevented the box from having a negative size.
Rodenacker, Jan 1997 Move from BOX_... to ELL_...
Jun 1997 Move from ELL_... to WIDGET_ELL_...
Aug 1997 Move from WIDGET_ELL_... to WIDGET_3D_ELL_...
WIDGET_BOX_CURSOR
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NAME:
widget_BOX_CURSOR
PURPOSE:
Emulate the operation of a variable-sized box cursor (also known as
a "marquee" selector).
CATEGORY:
Interactive graphics.
CALLING SEQUENCE:
widget_BOX_CURSOR, id, x0, y0, nx, ny [, INIT = init] [, FIXED_SIZE = fixed_size]
INPUTS:
id: Widget id
OPTIONAL INPUT PARAMETERS:
x0, y0, nx, and ny give the initial location (x0, y0) and
size (nx, ny) of the box if the keyword INIT is set. Otherwise, the
box is initially drawn in the center of the screen.
KEYWORD PARAMETERS:
INIT: If this keyword is set, x0, y0, nx, and ny contain the initial
parameters for the box.
FIXED_SIZE: If this keyword is set, nx and ny contain the initial
size of the box. This size may not be changed by the user.
MESSAGE: If this keyword is set, print a short message describing
operation of the cursor.
OUTPUTS:
x0: X value of lower left corner of box.
y0: Y value of lower left corner of box.
nx: width of box in pixels.
ny: height of box in pixels.
The box is also constrained to lie entirely within the window.
COMMON BLOCKS:
None.
SIDE EFFECTS:
A box is drawn in the currently active window. It is erased
on exit.
RESTRICTIONS:
Works only with window system drivers.
PROCEDURE:
The graphics function is set to 6 for eXclusive OR. This
allows the box to be drawn and erased without disturbing the
contents of the window.
Operation is as follows:
Left mouse button: Move the box by dragging.
Middle mouse button: Resize the box by dragging. The corner
nearest the initial mouse position is moved.
Right mouse button: Exit this procedure, returning the
current box parameters.
MODIFICATION HISTORY:
DMS, April, 1990.
DMS, April, 1992. Made dragging more intutitive.
June, 1993 - Bill Thompson
prevented the box from having a negative size.
Rodenacker Jun 1997 Move from BOX_... to WIDGET_BOX_...
WIDGET_CIR_CURSOR
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NAME:
Widget_CIR_CURSOR
PURPOSE:
Emulate the operation of a variable-sized circle cursor (also known as
a "marquee" selector).
CATEGORY:
Interactive graphics.
CALLING SEQUENCE:
widget_CIR_CURSOR, id, x0, y0, rad [, INIT = init] [, FIXED_SIZE = fixed_size]
INPUTS:
id: Widget id
OPTIONAL INPUT PARAMETERS:
x0, y0, rad give the initial location (x0, y0) and
radius of the circle if the keyword INIT is set. Otherwise, the
circle is initially drawn in the center of the screen.
KEYWORD PARAMETERS:
INIT: If this keyword is set, x0, y0, rad contain the initial
parameters for the circle.
FIXED_SIZE: If this keyword is set, rad contain the initial
size of the circle. This size may not be changed by the user.
MESSAGE: If this keyword is set, print a short message describing
operation of the cursor
OUTPUTS:
x0: X value of lower left corner of box.
y0: Y value of lower left corner of box.
rad: radius of circle in pixels.
COMMON BLOCKS:
None.
SIDE EFFECTS:
A circle is drawn in the currently active window. It is erased
on exit.
RESTRICTIONS:
Works only with window system drivers.
PROCEDURE:
The graphics function is set to 6 for eXclusive OR. This
allows the circle to be drawn and erased without disturbing the
contents of the window.
Operation is as follows:
Left mouse button: Move the circle by dragging.
Middle mouse button: Resize the circle by dragging.
Right mouse button: Exit this procedure, returning the
current circle parameters.
MODIFICATION HISTORY:
DMS, April, 1990.
DMS, April, 1992. Made dragging more intutitive.
June, 1993 - Bill Thompson
prevented the box from having a negative size.
Rodenacker, Jan 1997 Move from BOX_... to CIR_...
Jun 1997 Move from CIR_... to WIDGET_CIR_...
WIDGET_ELL_CURSOR
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NAME:
widget_ELL_CURSOR
PURPOSE:
Emulate the operation of a variable-sized ellipse cursor (also known as
a "marquee" selector).
CATEGORY:
Interactive graphics.
CALLING SEQUENCE:
widget_ELL_CURSOR, id, x0, y0, ra, rb, ang [, INIT = init] [, FIXED_SIZE = fixed_size]
INPUTS:
id: Widget id
OPTIONAL INPUT PARAMETERS:
x0, y0, ra, rb, ang give the initial location (x0, y0) and
radii and orientation of the ellipse if the keyword INIT is set.
Otherwise, the
ellipse is initially drawn in the center of the screen.
KEYWORD PARAMETERS:
INIT: If this keyword is set, x0, y0, ra, rb, ang contain the initial
parameters for the ellipse.
FIXED_SIZE: If this keyword is set, ra, rb, ang contain the initial
parameters of the ellipse. They may not be changed by the user.
MESSAGE: If this keyword is set, print a short message describing
operation of the cursor
OUTPUTS:
x0: X value of lower left corner of box.
y0: Y value of lower left corner of box.
ra: radius of ellipse in pixels.
rb: radius of ellipse in pixels.
ang: angle of orientation [-180, 180]
COMMON BLOCKS:
None.
SIDE EFFECTS:
A ellipse is drawn in the currently active window. It is erased
on exit.
RESTRICTIONS:
Works only with window system drivers.
PROCEDURE:
The graphics function is set to 6 for eXclusive OR. This
allows the ellipse to be drawn and erased without disturbing the
contents of the window.
Operation is as follows:
Left mouse button: Move the ellipse by dragging.
Middle mouse button: Resize the ellipse by dragging.
Right mouse button: Exit this procedure, returning the
current ellipse parameters.
MODIFICATION HISTORY:
DMS, April, 1990.
DMS, April, 1992. Made dragging more intutitive.
June, 1993 - Bill Thompson
prevented the box from having a negative size.
Rodenacker, Jan 1997 Move from BOX_... to ELL_...
Jun 1997 Move from ELL_... to WIDGET_ELL_...
WIDGET_LIN_CURSOR
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NAME:
widget_LIN_CURSOR
PURPOSE:
Emulate the operation of a variable-sized line cursor (also known as
a "marquee" selector).
CATEGORY:
Interactive graphics.
CALLING SEQUENCE:
widget_LIN_CURSOR, id, x0, y0, ra, ang [, INIT = init] [, FIXED_SIZE = fixed_size]
INPUTS:
Widget id.
OPTIONAL INPUT PARAMETERS:
x0, y0, ra, ang give the initial location (x0, y0) and
length (ra) and orientation of the line if the keyword INIT is set.
Otherwise, the
line is initially drawn in the center of the screen.
KEYWORD PARAMETERS:
INIT: If this keyword is set, x0, y0, ra, ang contain the initial
parameters for the line.
FIXED_SIZE: If this keyword is set, ra, ang contain the initial
parameters of the line. They may not be changed by the user.
MESSAGE: If this keyword is set, print a short message describing
operation of the cursor
OUTPUTS:
x0: X value of lower left corner of box.
y0: Y value of lower left corner of box.
ra: length of line in pixels.
ang: angle of orientation [-180, 180]
COMMON BLOCKS:
None.
SIDE EFFECTS:
A line is drawn in the currently active window. It is erased
on exit.
RESTRICTIONS:
Works only with window system drivers.
PROCEDURE:
The graphics function is set to 6 for eXclusive OR. This
allows the line to be drawn and erased without disturbing the
contents of the window.
Operation is as follows:
Left mouse button: Move the line by dragging.
Middle mouse button: Resize the line by dragging.
Right mouse button: Exit this procedure, returning the
current line parameters.
MODIFICATION HISTORY:
DMS, April, 1990.
DMS, April, 1992. Made dragging more intutitive.
June, 1993 - Bill Thompson
prevented the box from having a negative size.
Rodenacker, Jan 1997 Move from ELL_... to LIN_...
Jun 1997 Move from LIN_... to WIDGET_LIN_...