STK.doc - Copyright © 1999-2006 Molecular Devices...

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Copyright © 1999-2006 Page 1 11/21/2006 Molecular Devices Corporation All Rights Reserved MetaMorph Stack (STK) Image File Format (Last updated November 21, 2006) The MetaMorph Stack (STK) file format is derived from the TIFF format. Only the differences between STK and TIFF files are documented here. For TIFF information, please consult the TIFF 6.0 Specification, which is available online from Adobe in their Technical Notes for Developers Section (); you will need an Adobe Acrobat Viewer to read it, also freely available from Adobe. Please read the “Suggested Method for Reading STK Files” section at the end of this document for tips on how to read in these files. Definitions Date = Julian date (days since 1/1/4713 B.C.) See section “Julian Date Format” below for more information. Time = Milliseconds since midnight SHORT = 16-bit (2-byte) unsigned integer. LONG = 32-bit (4-byte) unsigned integer. RATIONAL = Two LONGs: the first represents the numerator of a fraction; the second, the denominator. Image File Header STK files must have the Intel (“little-endian”) byte order (least significant byte to most significant byte, for both 16-bit and 32-bit integers.) Standard Tags The following TIFF tags require special handling in STK files: ImageDescription Tag = 270 (10E.H) Type = ASCII Used to store the plane annotations. There is one NULL-terminated string for each plane in the stack. StripOffsets The strips for all the planes of the stack are stored contiguously at this location. The following pseudocode fragment shows how to find the offset of a specified plane planeNum . LONG planeOffset = planeNum * (stripOffsets[stripsPerImage - 1] + stripByteCounts[stripsPerImage - 1] - stripOffsets[0]); Note that the planeOffset must be added to the stripOffset[0] to find the image data for the specific plane in the file. Compression STK files support TIFF compression scheme 5 (LZW). If you plan to support this compression scheme in your own code, please note the following paragraph from the TIFF 6.0 specification (approved by the Unisys Corporation):
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Copyright © 1999-2006 Page 2 11/21/2006 Molecular Devices Corporation All Rights Reserved “The LZW compression method is said to be the subject of United States patent number 4,558,302 and corresponding foreign patents owned by the Unisys Corporation. Software and hardware developers may be required to license this patent in order to develop and market products using the TIFF LZW compression option. Unisys has agreed that developers may obtain such a license on reasonable, non-discriminatory terms and conditions. Further information can be obtained from: Welch Licensing Department, Office of the General Counsel, M/S C1SW19, Unisys Corporation, Blue Bell, Pennsylvania, 19424.” Universal Imaging is licensed to use TIFF LZW compression in its products, but this license does not extend to third parties that support the STK format in their products. Each product must be licensed from Unisys separately.
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  • Spring '13
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  • Array data structure, Julian calendar, Tagged Image File Format, Julian day, METAMORPH

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