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11/09/2010

Files Lispix Reads

Allowed characters in file names. | Raw File Format

Lispix reads several types of images, data cubes, spectra and text . 

(I have had problems analyzing data saved on network drives.  If you have problems, move the images to your local hard drive.)


 

These are the file types that Lispix reads using the file menu:

 

Ascii

 

Images

Common types

tif, tiff

Tagged image file format.

  • Lispix does not read compressed files, such as LZW or FAX…
  • Lispix DOES read multiple image files, one image at a time.  9/8/03
jpg, jpeg
Photographic Expert's Group.  Some encoding schemes . 
  • Note  Lispix does not read 'Exif' JPEG files - file commonly written by digital cameras.  As of 2/07, I read digital camera JPEG files with Photoshop6.0.1*  and write them back out from Photoshop as JPEG files using the Boxtop* Pro  JPEG 5.0.  Lispix reads these files.
gif
Graphics interchange format.  Single image files only.
bmp
Windows bitmap       8 bit gray level, 8 bit indexed color, and 24 bit RGB. No encoding. 2/1/08.  Lispix writes bmp files with 8-bit pixmap data only.  Use TIF or RAW to record gray level image data of greater than 8-bits.
raw
"Brick of bytes" - pixel image data without any dimensional or pixel depth information.  Needs an accompanying .rpl file containing image dimensions, pixel type, etc.

 

Special Types

dm2
Digital Micrograph version 2. (Gatan Inc.*)
ras
Princeton Gamma Tech modification of raster file format
dat
Charles Evans* Resistive Anode Encoder, 1- or 2-byte images.
 
Old Special Purpose NIST Formats
pix
512x512 single byte images
16b, 16x
16 bit unsigned.  Usually 512x512.
epm
Quantitated x-ray maps saved as 16 bit integers.
epq
Quantitated x-ray maps saved as 16 bit integers.   Atom percent values (0.0 - 100.0) interpreted as the pixel (integer) values divided by 100,  Except the "TOT" or total image, where the values are divided by 10.

 

Data Cubes

Lispix opens spectrum images or data cubes of these types: 

"Brick of bytes" - pixel image data without any dimensional or pixel depth information.    Needs an accompanying .rpl file containing cube dimensions, pixel type, etc.
ser
Notes
spd
Notes

(Lispix also opens data cubes as a folder of image files.)


Spectra

As of Lx132, raw and spd data cubes that are large are opened as file-based cubes.  Cropping channels and reducing the data types is no longer necessary.

As of Lx61, Lispix will automaticall re-save a data cube (in raw format, with m- appended to the front of the cube file and rpl file names) if it is able to use a reduced data type, such as byte or 16 bit, rather than, 32 bit.

For spectral images of 2048 channels only:  Lispix will give the option of cropping off the 1024 high energy channels in order to save memory.  If the cube is cropped, the cropped cube will be saved automatically, again with "m-" appended to the front of the file name.


Characters in file names:

      Lispix file reader is not case sensitive.
      Use these:  A-Z or a-z, 0-9, -
      Windows allows spaces, underscores and some other symbols.  HTML files might not be found if they have spaces in their file names.
      For moving files to other computer systems, avoid these: space, *, any punctuation character (except when part of a directory specification or as a wild card, or as a 'dot' before the extension).