Possible to add support for Shimadzu XML format?

[mr-september]

Have this old Shimadzu MALDI that doesn't really allow bulk spectra exporting in the usual formats like mzml, but only in just .xml.

I tried using the default import function to try and parse this, but it said something about unknown file format.

I have attached an example XML file (zipped as per github's requirements).

Test Expor A2-D3.zip

Would this be something feasible to add support for?

[sgibb]

Is it supported by msconvert?
e.g., Shimadzu LCD (except ITOF) distributed with ProteoWizard

I am not working in the MS field anymore. While I still maintaining MALDIquantForeign and fixing bugs I won't add new features. But I would happy to help with the existing code base if you want to add it yourself.

[mr-september]

Unfortunately msconvert doesn't seem to recognize it. It is a 7090 model, and while Shimadzu typically uses .lcd, I could not find them from this machine.

I have never worked with XML parsing before, but would be keen to have a go. If you just have a glance at the .xml file above, does it look somewhat similar-ish to perhaps mzXML? Would adapting from the existing mzXML parser be a good way to start?

[sgibb]

Sorry for the late reply. It isn't similar to mz(X)ML, e.g. mz(X)ML use as Base64 encoded string for all mz/intensity values. In this xml every spot has its own children with spot name, x center, y center, ...

[Mailaender]

I think these are just instrument settings and a sequence table saved as XML. No raw data. You need to upload the Axima Confidence raw data files:

• .cal
• .cor
• .lbl
• .raw
• .run
• .stats
• .uap