[Psidev-ms-dev] PSI-MSS WG Tuesday call minutes

[Eric D. <ede...@sy...>]

Attendees: Matt, Darren, Jim, Fredrik, Eric, Marc

 

Agenda:

 

- Approve/refine http://psi.hupo.org/ms/mzml xmlns and schemaLocation

 

Fine. Fredrik suggests trying to get a redirect at psi.hupo.org.

Marc points out that overriding the remote URL for xsd is possible.

 

- pwiz examples

 

Pwiz examples are complete except NS. Darren will update.

Fredrik will update/complete the neutral loss scan and precursor ion
spectrum examples and post

 

- validator(s)

 

Marc says that he updated validator today to the latest version of mzML
1.1.0

Marc wants to change the mapping file rule names to ones more readable ones.
He will do so.

Still need some mapping rules for neutral loss scan and precursor ion
spectrum?

The terms are just the same as regular scans. Marc will update mapping file

Marc points out that <scan> is now optional. Is this intentional or a
problem?

If there's no retention time, then scan would not be needed.

Seems like it's not a problem.

Make sure there is a hyperlink to the TOPP validator at the web site.

 

- Web site and spec doc

 

Web site is currently down.

Eric will update the web site or spec doc.

 

- Issue tracker: https://sourceforge.net/tracker/?atid=1126041
<https://sourceforge.net/tracker/?atid=1126041&group_id=65472&func=browse>
&group_id=65472&func=browse

 

"spectrum type" issue still open?

Still need to make sure that we have needed validation rules

Can we specify how the centroiding intensities are derived? Max? AUC? Maybe
this should be in the data processing section instead of spectrum section.
Marc will email a proposal

Marc will refresh the tracker, retiring as necessary, and alert us to other
things.

 

- PSI document process

 

The 1.1 release may need to go through the doc proc. SG will decide.

 

- mzML at US HUPO

 

No poster at US HUPO

Darren has a pwiz poster and willl include mzML info

 

- mzML at ASMS

 

Matt sent around abstract. Review and discuss

 

- Spectrum type hierarchy.

 

This issue is still open. Discuss this further via email.

 

- Next call? Jan 27th?

 

Yes Tue 27th

 

 

 

 

 

 

 

 

  _____  

From: Eric Deutsch [mailto:ede...@sy...] 
Sent: Monday, January 19, 2009 11:51 PM
To: 'Mass spectrometry standard development'
Cc: 'Eric Deutsch'
Subject: PSI-MSS WG Tuesday call reminder

 

Hi everyone, the next PSI Mass Spectrometry Standards Working Group call
will be Tuesday 8am PST:

 

http://www.timeanddate.com/worldclock/fixedtime.html?day=20
<http://www.timeanddate.com/worldclock/fixedtime.html?day=20&month=01&year=2
009&hour=16&min=0&sec=0&p1=136>
&month=01&year=2009&hour=16&min=0&sec=0&p1=136

 

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+ Switzerland: 0800000860

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+ USA: 1-866-314-3683

Generic international: +44 2083222500 (UK number)

 

access code: 297427

 

Agenda:

 

- Approve/refine http://psi.hupo.org/ms/mzml xmlns and schemaLocation

- pwiz examples

- validator(s)

- Web site and spec doc

- Issue tracker: https://sourceforge.net/tracker/?atid=1126041
<https://sourceforge.net/tracker/?atid=1126041&group_id=65472&func=browse>
&group_id=65472&func=browse

- PSI document process

- mzML at US HUPO

- mzML at ASMS

- Next call? Jan 27th?