Re: [Psidev-ms-dev] Schema SNAPSHOT update Thursday 21 Feb 2008

[Kessner, D. E. <Dar...@cs...>]

Hi guys,

The two example docs (Lennart, Fredrik) don't seem to agree on the use
of 'id', 'index', and 'spectrumRef'.

My understanding from previous discussions (which may be incorrect):
  id:  unique string identifier for <spectrum>
  spectrumRef:  refers to 'id' attribute of <spectrum>  // previous
  index:  0-based index into <spectrumList> // Randy


Lennart example:
index == scanNumber 
spectrumRef -> refers to index

<spectrum id="S19" index="19" msLevel="1" arrayLength="1313">
...
</spectrum
<spectrum id="S20" index="20" msLevel="2" arrayLength="43">
  <precursor spectrumRef="19">
...
</spectrum>


Fredrik example:
index == 0-based index in the <spectrumList>
spectrumRef -> reference to something in another sourcefile

<spectrum id="S1" index="0" msLevel="2" arrayLength="172">
...
  <acquisition number="0" spectrumRef="0" sourceFileRef="4">
    ...
  </acquisition>
  <acquisition number="1" spectrumRef="1" sourceFileRef="4"/>
...  
 <precursor spectrumRef="0">
</spectrum>


Does this mean that spectrumRef is internal unless there is a
sourceFileRef, in which case the spectrumRef refers to something inside
the external file?

I would prefer to have external references made more explicit.

Perhaps this calls for an html-anchor-like syntax, as Matt suggested in
the conference call?
  <acquisition number="1" spectrumRef="external://4#1"/>
i.e.
  4 is the sourceFile id
  1 refers to something in that external file


Darren







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