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output measurement
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@mjirik
mjirik committed Jan 15, 2018
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# Parameters and input settings

* Area sampling
* `voxelsize_mm` - size of x,y and z dimmension of voxel in milimeters
* `areasize_mm` - size of sample area in milimeters
* `areasize_px` - size of sample area in pixels (or voxels)
* Appearance
* `skip_volume_generation` - can be used if slice images are not required
* `surface_3d_preview` - enable 3D preview
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* `last_element_can_be_smaller`:


# Outputs:

length [mm]: analytically computed total length of actually generated cylinders (i.e., the distance between the endpoints of the cylinder axis) within the ROI
volume [mm^3]: analytically computed total volume of actually generated objects within the ROI; this includes both the volume of the cylinders and the volume of the hemispheres
surface [mm^2]: analytically computed total surface of actually generated objects with the ROI; this includes both the surface of the cylinders and the surface of the hemispheres
area volume [mm^3]: total volume of ROI
count []: total number of objects actually generated within the ROI
numeric volume [mm^2]: numerically computed total volume of actually generated objects within the ROI; this includes both the volume of the cylinders and the volume of the hemispheres; The calculation is based on surface triangulation of the parametrically defined objects. Cylinder and spheres primitives are connected into one object using vtkBooleanOperationPolyDataFilter (http://hdl.handle.net/10380/3262) and volume is measured using the vtkMassProperties.

. using the……..algorithm.
numeric surface [mm^2]: numerically computed total surface of actually generated objects within the ROI; this includes both the surface of the cylinders and the surface of the hemispheres; The calculation is based on surface triangulation of the parametrically defined objects using the……..algorithm.
length d. [mm^-2]: the length density of the actually generated cylinders i.e., the analytically computed length per volume of the ROI
volume d. []: the volume density (or volume fraction) of the actually generated objects (including cylinders and hemispheres) i.e., the analytically computed volume per volume of the ROI
surface d. [mm^-1]: the surface density the actually generated objects (including cylinders and hemispheres) i.e., the analytically computed surface per volume of the ROI
point1: Cartesian coordinates of the initial point of a vector representing the axis of the generated cylinder
point2: Cartesian coordinates of the terminal point of a vector representing the axis of the generated cylinder
radius: the radius of the actually generated cylinder and its corresponding hemisphere
vector: triples of scalar components identifying the vector representing the axis of the generated cylinder
# Outputs

Output measurement on screen or in `.yaml` or `.csv` file:
* length [mm]: analytically computed total length of actually generated
cylinders (i.e., the distance between the endpoints of the cylinder axis) within the ROI
* volume [mm^3]: analytically computed total volume of actually generated objects within the ROI; this includes both the volume of the cylinders and the volume of the hemispheres
* surface [mm^2]: analytically computed total surface of actually generated objects with the ROI; this includes both the surface of the cylinders and the surface of the hemispheres
* area volume [mm^3]: total volume of ROI
* count []: total number of objects actually generated within the ROI
* numeric volume [mm^2]: numerically computed total volume of actually generated objects within the ROI; this includes both the volume of the cylinders and the volume of the hemispheres; The calculation is based on surface triangulation of the parametrically defined objects. Cylinder and spheres primitives are connected into one object using vtkBooleanOperationPolyDataFilter (http://hdl.handle.net/10380/3262) and volume is measured using the vtkMassProperties.
* numeric surface [mm^2]: numerically computed total surface of actually generated objects within the ROI; this includes both the surface of the cylinders and the surface of the hemispheres; The calculation is based on surface triangulation of the parametrically defined objects using the……..algorithm.
* length d. [mm^-2]: the length density of the actually generated cylinders i.e., the analytically computed length per volume of the ROI
* volume d. []: the volume density (or volume fraction) of the actually generated objects (including cylinders and hemispheres) i.e., the analytically computed volume per volume of the ROI
* surface d. [mm^-1]: the surface density the actually generated objects (including cylinders and hemispheres) i.e., the analytically computed surface per volume of the ROI
* point1: Cartesian coordinates of the initial point of a vector representing the axis of the generated cylinder
* point2: Cartesian coordinates of the terminal point of a vector representing the axis of the generated cylinder
* radius: the radius of the actually generated cylinder and its corresponding hemisphere
* vector: triples of scalar components identifying the vector representing the axis of the generated cylinder



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