Re: [Mged-mage] [Mged-mage2] Meeting Report for MAGEModelling Meeting

[<ro...@eb...>]

Hi Michael,

I should be able to join in

Thanks

Philippe

> Michael,
>
> that works for me, Ugis is probably away though, anyone else?
>
> cheers
>
> Helen
>
> Miller, Michael D (Rosetta) wrote:
>> Hi All,
>>
>> This was what I was hoping to put out as part of an agenda early next
>> month--in fact I would love if there were a teleconference around August
>> 21st to do a presorting out of issues for MAGEv2.  I'm off for vacation
>> next week and a half but when I return I'll start gathering other
>> potential agenda items for MAGEstk and MAGE-TAB and any other items
>> people are interested in.
>>
>> cheers,
>> Michael
>>
>>
>>> -----Original Message-----
>>> From: mge...@li...
>>> [mailto:mge...@li...] On Behalf
>>> Of Helen Parkinson
>>> Sent: Monday, July 24, 2006 12:59 AM
>>> To: Ugis Sarkans
>>> Cc: mged-mage2
>>> Subject: Re: [Mged-mage2] Meeting Report for MAGEModelling Meeting
>>>
>>>
>>> Hi all,
>>>
>>> can we use these and Michael's comments on Array etc as an agenda for
>>> the next meeting - I assume this will be at the MGED Jamboree
>>> in Seattle?
>>>
>>> cheers
>>>
>>> Helen
>>>
>>> Ugis Sarkans wrote:
>>>
>>>> Hi all,
>>>>
>>>> Following up on what I promised to do in the meeting:
>>>>
>>>> 1) A cleaned-up version of the model has been posted on
>>>> http://www.mged.org/Workgroups/MAGE/magev2.html
>>>>
>>>> a) Associations from ArrayManufacture, Hybridization,
>>>>
>>> ImageAcquisition
>>>
>>>> and MeasuredDataExtraction to
>>>> GenericProtocol have been added, derived from
>>>> ProtocolApplication->Protocol. Data Transformation already
>>>> had that, and I didn't touch HLA.
>>>>
>>>> b) general cleanup of diagrams in Array and Data packages -
>>>>
>>> again didn't
>>>
>>>> touch HLA. QPCR is not finished.
>>>>
>>>> c) Michael enquired about some unnamed assoications in the
>>>>
>>> Array diagram
>>>
>>>> - I think this is not quite finished
>>>> either, especially in the light of changes to
>>>>
>>> DesignElements. I still
>>>
>>>> think that a concept of MaterialReporter would
>>>> make sense, and ArrayFeatureMaterial should go.
>>>>
>>>> d) Some small issues I found:
>>>>     - ArrayImage - needs format, since it derives directly
>>>>
>>> from Data,
>>>
>>>> not ExternalData
>>>>     - If we want to support post-ImageAcquisition manipulations of
>>>> HybridizedArray (e.g. another
>>>> ImageAcquisition) like in MAGEv1, then ImageAcquisition should have
>>>> outputMaterial HybridizedArray, not
>>>> just outputData.
>>>>
>>>> 2) Mapping v1 to v2.
>>>>
>>>> I'm trying to describe mapping as a series of diagrams that
>>>>
>>> show how
>>>
>>>> various structures of MAGEv1 (objects+links+
>>>> attribute values) should be translated into MAGEv2 structures. 6
>>>> diagrams are in
>>>>
>>>> http://www.ebi.ac.uk/~ugis/MAGEmapping/
>>>>
>>>> This is not finished, I haven't
>>>> done any explaining text, but I hope that this way the
>>>>
>>> explanation might
>>>
>>>> be easier than when there are only bits
>>>> of object models to look at. Feedback welcome on both the
>>>>
>>> approach and
>>>
>>>> details of the mapping - there are some
>>>> hard bits when dealing with BioAssays. I'll not be able to
>>>>
>>> do anything
>>>
>>>> else with this now till September though.
>>>>
>>>> Cheers,
>>>> Ugis
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>
>>>> Helen Parkinson wrote:
>>>>
>>>>
>>>>
>>>>> Hi
>>>>>
>>>>> a draft version of the meeting report with action items
>>>>>
>>> and comments
>>>
>>>>>
>>>>>
>>>> >from Ugis and Andy Jones has now been posted:
>>>>
>>>>
>>>>> www.ebi.ac.uk/~parkinso/MAGE2_modelling_Meeting_Report2_aj.doc
>>>>>
>>>>> MAGE2_modelling_Meeting_Report2_aj.doc
>>>>>
>>> <http://www.ebi.ac.uk/%7Eparkinso/MAGE2_modelling_Meeting_Repo
>>> rt2_aj.doc>
>>>
>>>>>
>>>>> Final version UML model edited by Ugis is also posted:
>>>>>
>>>>> www.ebi.ac.uk/~parkinso/MAGEv2_uml20_2006_07_13.zip
>>>>>
>>>>> MAGEv2_uml20_2006_07_13.zip
>>>>>
>>> <http://www.ebi.ac.uk/%7Eparkinso/MAGEv2_uml20_2006_07_13.zip>
>>>
>>>>>
>>>>> cheers
>>>>>
>>>>> Helen
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>
>>>>
>>> --------------------------------------------------------------
>>> -----------
>>>
>>>> Take Surveys. Earn Cash. Influence the Future of IT
>>>> Join SourceForge.net's Techsay panel and you'll get the
>>>>
>>> chance to share your
>>>
>>>> opinions on IT & business topics through brief surveys --
>>>>
>>> and earn cash
>>>
>>> http://www.techsay.com/default.php?page=join.php&p=sourceforge
>>>
>> &CID=DEVDEV
>>
>>> _______________________________________________
>>> Mged-MAGE2 mailing list
>>> Mge...@li...
>>> https://lists.sourceforge.net/lists/listinfo/mged-mage2
>>>
>>>
>>
>>
>
> --
> Helen Parkinson, PhD
> Curation Coordinator
> Microarray Informatics Team,
> EBI
>
> and
>
> Seconded Scientific Programme Manager
> NCRI Cancer Informatics Initiative
> www.cancerinformatics.org.uk
>
> Tel:
> EBI 01223 494672
> Skype: helen.parkinson.ebi
>
>
> -------------------------------------------------------------------------
> Take Surveys. Earn Cash. Influence the Future of IT
> Join SourceForge.net's Techsay panel and you'll get the chance to share
> your
> opinions on IT & business topics through brief surveys -- and earn cash
> http://www.techsay.com/default.php?page=join.php&p=sourceforge&CID=DEVDEV
> _______________________________________________
> Mged-mage mailing list
> Mge...@li...
> https://lists.sourceforge.net/lists/listinfo/mged-mage
>