Table of Contents
fScan Reference Manual, Chapter 2 (CmdLineOptions): create
Create -- Create surface reconstructions or paint surfaces from images
usage:
-create surface SURFNAME COLOR IMIN IMAX FLAG DOTSIZE EDGEFLAG EDGEVAL
-create plane WIDTH NPIXS FLAG
-create corner
-create sphere
-create paint PAINTNAME SURFNAME FLAG IMIN IMAX THICKNESS SMOOTHFLG
-create paint FLAG IMIN IMAX THICKNESS SMOOTHFLG
-create paint PAINTNAME label SRCFILE LABELFILE CTABFILE
-create paint PAINTNAME annot SRCFILE
The CREATE command is used to create a new data set.
Create SURFACE
This will sample intensity values in the current image volume to create a new 3-D surface data.
- FLAG - The FLAG argument lets you specify sampling options:
- 1 - binary: use low bit (maskbits) as voxel values for creating surface
- 2 - fastsurf: flag this as a FAST surface (coarser 2nd surface version within data set)
- 4 - ROI: only include image voxels within current active ROI
- 010 - growonly: just set flag (bit=4) on image voxels that would be included on surface
- 020 - colors: set surface color to image color (default if COLOR not specified)
- 040 - height: set Z value to intensity
- 0100 - notriangles: vertices only, don't create triangles
- 0200 - nosmooth: don't smooth vertex locations across neighboring triangles (smooth is default)
- 0400 - boundary: create surface at all image intensity boundaries
- 01000 - objects: make different colors different objects
- 02000 - gtdepth: reverse depth flag; show points with higher (usually lower) Z values
- 010000 - noshow: create surface data but don't create surface display window
- 040000 - append: append to existing data set
- 0100000 - outside: include voxels ⇐ IMIN or >= IMAX (usually only >= IMIN and ⇐ IMAX)
- DOTSIZE -
- EDGEFLAG:
- 0 - don't include edge of ROI as surface points
- 1 - treate edge of ROI as part of surface
- >=2 - process edges in EDGEFLAG/2 passes (not sure why)
- EDGEVAL - surface edge value flag (default=2)
Create PAINT
This will sample intensity values in the current image volume to create a 'paint' overlay for existing 3-D surface data. The inputs are the image volume (current data set) and surface (previous data set).
Names for paint and surf can be omitted
-create paint PAINTNAME SURFNAME FLAG IMIN IMAX THICKNESS create PAINTNAME for SURFNAME from intensities in IO_IN volume SURF is previous window by default -create paint FLAG IMIN IMAX THICKNESS names of paint and surf can be omitted -create paint PAINTNAME label SRCFILE LABELFILE CTABFILE create PAINTNAME by combining SRCFILE LABELFILE CTABFILE -create paint PAINTNAME annot SRCFILE ?? FLAG: 1 MKPT_MAKEVTX 2 MKPT_NMLOUT 4 MKPT_ZEROS 010 MKPT_FILTERED - paint filtered values from window 020 MKPT_NMLFIRST 040 MKPT_NOFRAMELIMIT
Note: If the input voxel data set (io) has multiple time points (up to 50), a separate paint “frame” will be created for each time point. If NT > 50 you must specify the NOFRAMELIMIT flag to get multiple frames, otherwise it only generates 1 frame (assuming a movie is not really wanted).
See Also:
fScan Home,
fScan Manual,
CmdLineOptions,
Manual Help