File Formats - 3dct/open_iA GitHub Wiki

open_iA supports several file formats. It reads:

• Raw images (uncompressed binary data)

  • Files with any extension can be opened as raw via dedicated "Open Raw" File menu entry)
  • Some file extensions are automatically detected as raw images: *.pro, *.raw, *.rec, *.vol
  • Parameters can be guessed from the filename:
    • Size: WxHxD (with W, H and D each being integer numbers): Size X = W, Size Y = H, Size Z = D
    • Spacing: Sum / Smm (with S a floating point number, where - can also be used as comma; optionally also 3 entries can be specified separated by x, similar to size); -> Spacing: S in x, y and z direction
    • Data Type: Nbit (with N=8,16,32,64), results in:
      • 8 -> unsigned char (0..255)
      • 16 -> unsigned short (0..65535)
      • 32 -> unsigned int (0..4294967296)
      • 64 -> unsigned long long (0..2^64)

• MetaImage (*.mhd, *.mha)

• VG Studio Scenes (*.vgi)

• DICOM series (*.dcm)

• Olympus FluoView files (*.oif)

• AmiraMesh files (*.am) (only the uncompressed volume data format)

• Serial VTK Image data (*.vti)

• Several common image formats (*.bmp, *.jpg/*.jpeg, *.png, *.tiff/*.tif) (plus stacks of such images as volumes)

• Hierarchical Data Format v5 (HDF5) (*.hdf5, *.he5, *.h5)

• Matlab (*.mat) files (.mat file format version 7.3, which uses HDF5, see https://mathworks.com/help/matlab/import_export/mat-file-versions.html)

• STL files (Polygon data) (*.stl)

It writes:

• Volumes:
  • MetaImage, in its bundled .mha format, or the combination of a .mhd descriptor and a .raw file (the latter is a standard raw file, as can be read by most programs dealing with volumes, if additionally given the volume dimensions and spacing, as given in the .mhd descriptor file)
  • AmiraMesh files (only the uncompressed volume data format)
  • ITK HDF5 files
• Meshes:
  • STL files