Mzml binary system 2018
The connection between the two files is made via links in the XML file which hold the offsets of the mass spectral data in the binary file. It is important to keep in mind that the information of both file is only valid if no file is missing. Therefore the user should be very careful when copying or moving those files; inaccurate file handling can result in data loss. It is recommend to keep the files in the same folder and use the same names for the mzml binary system 2018 part and the ibd part.
Both files carry the same universally unique identifier UUID. This can help to reunite lost files. Comparing both UUIDs allows to find out if the two files build a pair of corresponding files.
The controlled vocabulary was extended in order to include additional parameters which are needed to describe a MS imaging experiment. The function of the binary tag was altered in such a way that it now contains no base64 encoded binary data. It stays empty, which is compatible to mzML 1. Most of the changes in the XML part are related to cvParam mapping rules for the newly introduced parameters of the imaging controlled vocabulary. The first 16 bytes of the binary file are reserved for an Universally Unique Identifier.
It is also saved in the imzML file so that a correct assignment of ibd and imzML file is possible even if the names of both files are different. In order to insure efficient storage, two different formats of mzml binary system 2018 binary data are defined: Integer values may be stored as byte 1 byteword 2 bytesdword 4 byteslong 8 bytes. Floating point values may be stored as single or double cf.
The byte order is always little endian intel style. The efficient data storage of the imzML format is demonstrated by an example file consisting of spectra 50 x 35 pixels, 4 spectra per pixel. Mzml binary system 2018 the size of MS imaging files: The imzML continuous file is almost four times smaller than the mzML file and about the same size as the raw file.
The XML part ontaining the metadata is rather small compared to the size mzml binary system 2018 the binary data file and is readable in a regular text editor.
Mass spectral data in imzML binary files is stored in little endian byte order. Intel processors and clones use little endian, therefore integers in the computer memory are also little endian numbers.
But some widely used programming languages have no such automatic correction. So the programmer has to take care of this. A hexadecimal viewer can be used to examine these bytes, for example: Be aware that in a correct implementation, both representations should have the same sequence mzml binary system 2018 hexadecimal numerals.
Its memory representation is defined by:. In this structure, Data1, Data2, and Data3 are numbers and therefore subject to byte order, whereas Data4 is just an array of 8 bytes and thus independent of byte order. That means when dumping this memory representation on mzml binary system 2018 little endian computer into a binary file Data1, Data2 and Data3 are inverted whereas Data4 is not inverted.
Its memory representation is defined by: