[Psidev-ms-dev] Semantic validator checking for m/z and intensity binaryDataArrays

[Matthew C. <mat...@va...>]

Hi all,

Looking at the current semantic mapping file 
(https://psidev.svn.sourceforge.net/svnroot/psidev/psi/mzml/validator/ms-mapping.xml), 
it seems that Spectrum does not require an m/z and intensity 
binaryDataArray and according to the spec it should. However, we have a 
problem where only mass spectra must have m/z and intensity. PDA spectra 
must have wavelenth and intensity instead. Both mass and PDA spectra use 
the Spectrum element so the type cvParam would have to be used to 
distinguish which rules to apply to a particular element. Chromatograms 
have a separate element so giving it its own required arrays should be 
simple. The semantic validator should be capable of validating these 
arrays, but can it currently do that?


-Matt