Re: [Psidev-ms-dev] Possible inconsistency between XSD and documentation

[Race, A. <Ala...@un...>]

Dear all,
I looked into this a little further and there seem to be a few missing reference definitions within the XSD file that could help in the validation of mzML files. Please find attached a patch file for your consideration that includes the proposed changes for adding the missing definitions.

Thanks,

Alan

From: Race, Alan
Sent: 29 March 2017 11:48
To: 'Mass spectrometry standard development' <psi...@li...>
Subject: Possible inconsistency between XSD and documentation

Hello,
I have possibly noticed an inconsistency between the mzML1.1.0.xsd and the documentation as it appears here: http://www.peptideatlas.org/tmp/mzML1.1.0.html#run

The selector for the keyref KEYREF_DEFAULTICREF states that the defaultInstrumentConfigurationRef attribute is found on the spectrumList and the chromatogramList tags, however the documentation states that it should be on the run tag.

Changing:

<xs:keyref name="KEYREF_DEFAULTICREF" refer="dx:KEY_IC_ID">
      ...
               <xs:selector xpath="./dx:run/dx:spectrumList|./dx:run/dx:chromatogramList" />
      ...
</xs:keyref>

To:

<xs:keyref name="KEYREF_DEFAULTICREF" refer="dx:KEY_IC_ID">
      ...
               <xs:selector xpath="./dx:run" />
      ...
</xs:keyref>

Seems to produce the correct output when validating. In a vaguely related note, and out of curiosity - why does the schema constrict the spectrum ID to the pattern "\S+=\S+( \S+=\S+)*"?

Thanks,

Alan