Re: [Psidev-ms-dev] PSI-MSS WG call notes

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Am Tuesday, den 23.03.2010, 09:30 -0700 schrieb Eric Deutsch:
> Present: Matt, Richard, Eric, Pierre-Alain, 
> 
>  
> 
> Agenda:
> 
> 1) mzML 1.1.0
> 
> - Manuscript has been submitted
> 
> - Matt will release updated 1.1.1 of indexedmzML schema: <indexList>
> name attribute will be enumerated to “spectrum” or “chromatogram”
> 
> - Matt will update the example files to reference mzML 1.1.0 but
> indexedmzML 1.1.1
> 
> - How do we handle lock mass corrections? Matt will make an example
> 
> - We should assemble list of calibrants and make them specific terms
> 
> - Bruker uses Lithium Fromiate; others?
> 
> - Jim will find out what Thermo is using
> 
> - Matt will contact David Anderson and Mike Ashton and ask about a
> date in lieu of checksum
> 
> + Matt will follow up again
> 
> - Other items?
> 
> + What about FAIMS and mzML?
> 
> + Might need a term for “compensation voltage” and for FAIMS itself?
> 
> + Eric will ask Kristian
> 
>  
> 
> ----
> 
> 2) MIAPE-MS revision
> 
> - Pierre-Alain has submitted the latest MIAPE-MS to the doc proc
> 
> + Need to have 3 examples to go along with a document submission
> 
> + Until we provide the examples, it is not officially in the document
> process
> 
> + We can use the sample MIAPE-compliant mzML file
> 
> + Pierre-Alain will contact Juan-Pablo to see if he has some suitable
> examples in Proteo-Red
> 
> + Richard will look into PRIDE to see if there may be a good example
> there
> 
> + When officially in the process, send out submitted document to
> journal editors and everyone else to get the word out
> 
>  
> 
> ----
> 
> 3) TraML development
> 
> - Current version 0.9.3 is available at
> http://www.psidev.info/index.php?q=node/405
> 
> - Fredrik sent out an inclusion list example. Everyone look and
> comment.
> 
> - Andreas also sent out an example
> 
> - Need to finish writing the spec doc and submit to doc proc
> 
> - Eric will update schema to 0.9.4 with previously-discussed updates
> to <RetentionTime>
> 
> - Eric will update the spec document with contributions from Steffen,
> etc.
> 
> - We will also need a few more example files
> 
> - Andreas says he is up to date at 0.9.3
> 
> - Jim has an implementation but just will need to update to 0.9.4
> 
> - Implementations?
> 
>   - Matt will implement in ProteoWizard
> 
>   - Andreas will implement in OpenMS and update on-line validator
> 
>   - ISB implementation in ATAQS nearly done
> 
>   - Jim will implement as a test
> 
>   - David Cox at Sciex will test implement?
> 
> - Are we ready to update validator page?:
> http://www.psidev.info/index.php?q=node/304
> 
> + Draft manuscript in preparation
> 
> + Will get the final changes made soon
> 
>  
> 
> ----
> 
> 4) PSI workshop in Seoul preparation
> 
> - Workshop is next week
> 
> - Need to figure out who will give the PSI-MS WG activities summary
> and otherwise represent the group
> 
> + Andy Jones will present. Eric will send slides
> 
> + Perhaps try to meet at ASMS briefly
> 
>  
> 
>  
> 
> ----
> 
> 5) Working with ASMS on controlled vocabulary
> 
> - Eric is coordinating with David Sparkman and others related to ASMS
> who will contribute to our CV as the single standard CV
> 
> - Eric will update this email list with activities and non-trivial
> changes
> 
> + Nothing new to report
> 
>  
> 
> + Next meeting: April 6  at 8am PDT
> 
>  
> 
>  
> 
> From: Eric Deutsch [mailto:ede...@sy...] 
> Sent: Monday, March 22, 2010 12:43 PM
> To: Mass spectrometry standard development
> Cc: Eric Deutsch
> Subject: PSI-MSS WG call reminder
> 
> 
>  
> 
> Hi everyone, the next PSI Mass Spectrometry Standards Working Group
> call will be Tuesday 9am PDT:
> 
>  
> 
> http://www.timeanddate.com/worldclock/fixedtime.html?day=23&month=3&year=2010&hour=16&min=0&sec=0&p1=136
> 
>  
> 
> Note: due to DST imbalance, the meeting time will be 1 hour later in
> the US and regular time for Europe.
> 
>  
> 
> 09:00 San Francisco
> 
> 12:00 New York
> 
> 16:00 London
> 
> 17:00 Geneva
> 
>  
> 
> + Germany: 08001012079
> 
> + Switzerland: 0800000860
> 
> + UK: 08081095644
> 
> + USA: 1-866-314-3683
> 
> Generic international: +44 2083222500 (UK number)
> 
>  
> 
> access code: 297427 #
> 
>  
> 
> Agenda:
> 
> 1) mzML 1.1.0
> 
> - Manuscript has been submitted
> 
> - Matt will release updated 1.1.1 of indexedmzML schema: <indexList>
> name attribute will be enumerated to “spectrum” or “chromatogram”
> 
> - Matt will update the example files to reference mzML 1.1.0 but
> indexedmzML 1.1.1
> 
> - How do we handle lock mass corrections? Matt will make an example
> 
> - We should assemble list of calibrants and make them specific terms
> 
> - Bruker uses Lithium Fromiate; others?
> 
> - Jim will find out what Thermo is using
> 
> - Matt will contact David Anderson and Mike Ashton and ask about a
> date in lieu of checksum
> 
> - Other items?
> 
>  
> 
> ----
> 
> 2) MIAPE-MS revision
> 
> - Pierre-Alain has submitted the latest MIAPE-MS to the doc proc
> 
> - And send out submitted document to journal editors and everyone else
> to get the word out
> 
>  
> 
> ----
> 
> 3) TraML development
> 
> - Current version 0.9.3 is available at
> http://www.psidev.info/index.php?q=node/405
> 
> - Fredrik sent out an inclusion list example. Everyone look and
> comment.
> 
> - Andreas also sent out an example
> 
> - Need to finish writing the spec doc and submit to doc proc
> 
> - Eric will update schema to 0.9.4 with previously-discussed updates
> to <RetentionTime>
> 
> - Eric will update the spec document with contributions from Steffen,
> etc.
> 
> - We will also need a few more example files
> 
> - Andreas says he is up to date at 0.9.3
> 
> - Jim has an implementation but just will need to update to 0.9.4
> 
> - Implementations?
> 
>   - Matt will implement in ProteoWizard
> 
>   - Andreas will implement in OpenMS and update on-line validator
> 
>   - ISB implementation in ATAQS nearly done
> 
>   - Jim will implement as a test
> 
>   - David Cox at Sciex will test implement?
> 
> - Are we ready to update validator page?:
> http://www.psidev.info/index.php?q=node/304
> 
>  
> 
> ----
> 
> 4) PSI workshop in Seoul preparation
> 
> - Workshop is next week
> 
> - Need to figure out who will give the PSI-MS WG activities summary
> and otherwise represent the group
> 
>  
> 
> ----
> 
> 5) Working with ASMS on controlled vocabulary
> 
> - Eric is coordinating with David Sparkman and others related to ASMS
> who will contribute to our CV as the single standard CV
> 
> - Eric will update this email list with activities and non-trivial
> changes
> 
>  
> 
> Next meeting: 
> 
>  
> 
>  
> 
> 
> ------------------------------------------------------------------------------
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