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Description:
As the size and complexity of biological data grows, so does the need for standard data formats. The Functional Genomics Experiment [Object Model / Markup-Language] (FuGE-OM, FuGE-ML) has been created to address these needs and facilitate the development of data standards. See http://fuge.sf.net
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Cardinalities in XML
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(Possibly an AndroMDA question but since XmlSchem.vsl is modified ...) I can't get association cardinalities reflected directly in the xsd. I have set up some test cases to look at this and 0..0 yields minOccurs="0" maxOccurs="1" 0..1 yields minOccurs="0" maxOccurs="1" (correct) 0..* yields minOccurs="0" maxOccurs="unbounded" (correct)... more »
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Datatype ontology
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Thanks for the suggestions on data type ontologies. These are helpful. They of course do not allow the XML schema itself to do the checking or allow XML tools to constrain the values at the user interface. Thsi is ou dilema I think. I am still worrying about why Boolean was specially treated in FuGE. Is... more »
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Out of office, returning Monday, sept 14
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I will be out of the office starting 09/11/2009 and will not return until 09/14/2009. I am currently out of the office, returning on Monday. I will respond to your message when I return. If you need immediate assistance, please forward your message to eStrat...@sial.com Take care, Kristy x4559 This message and any files transmitted with it are the property of... more »
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Datatype ontology
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Do any groups have recommended or required ontologies for Measurement/_datatype/@Ontolog y_ref ? Nigel
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type constraint
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I suspect that my question touches on a fundamental policy which I don't know. With a named association to GenericParameter or with an explicit extension to the abstract Parameter, I have the opportunity to use (at least) an AtomicValue or a BooleanValue. If the parameter is, say, "Length" then a value of "True" does not make a lot of sense,... more »
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Antw: Re: Antw: Re: [Flowcyt-fuge] Antw: Re: FUGE, FlowCyt
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Hi all, The 2 errors occured when I used the original FuGE-v1-profile.mdzip from the Hibernate-STK, however when I used the FuGE-v1-profile.mdzip from fugeFlow I got 5 errors. One can find the error log in the attachement. Kind regards, Simon ...Hi all, These errors: [Data::net.sourceforge.fuge::c ommon::protocol::Protocol::pro tocol]:One-to-one... more »
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Antw: Re: [Flowcyt-fuge] Antw: Re: FUGE, FlowCyt
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Hi all, I tested the hibernate-stk installation with the new fugeflow.mdzip file from Josef and unfortunately I got 2 model validation errors. One can find the error log in the attachement. Kind regards, Simon Thanks Allyson, that would actually be really helpful. I believe/hope I have located all the 1-to-1 associations and turned... more »
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[Flowcyt-fuge] FUGE, FlowCyt
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Hi Simon, sorry to hear that. Indeed, the better solution is to modify the "FugeFlow.mdzip" file so that it works with the Hibernate-STK. The problem is that we don't know how to do this and it would also be beyond the scope of our work. We could try to help modifying the FugeFlow.mdzip to work with... more »
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Antw: Re: [Flowcyt-fuge] FUGE, FlowCyt
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Dear Fuge and FugeFlow developers, Thanks for your help. We tried all your suggestions, unfortunately nothing worked. Another possibility we figured out, is to use the Hibernate mapping file of the Hibernate-STK as object model. Therefore we would write the FugeFlow extension on our own, according to... more »
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FUGE, FlowCyt
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Hi, is there a possibility to extend the hibernate-STK with the FuGEFlow.mdzip? By now I imported the SNAPSHOT jars (hibernate-core, hibernate-common...) generated by maven in my Eclipse workspace, because I am currently developing a web application for flow cytometry analyisis with wicket and hibernate as persistence layer.... more »
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