XORT

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Revision as of 18:44, 25 January 2007 by 165.124.152.78 (Talk)

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 Chado-XML
 =========
 
 Chado-XML is a direct mapping of the Chado relational schema into
 XML. Currently the only tool for performing this mapping is XML::XORT,
 which can dump or save Chado-XML to and from a chado db.
 
 Contents:
 ---
 chado-xml
         README
         xsl/                    -- useful transforms
         dtd/                    -- DTDs/XSDs defining the xml model
         examples/               -- example XML files
         doc/                    -- documentation
 ---
 
 Documentation in asciidoc - can use asciidoc.py to convert to HTML,
 PDF, RTF etc
 
 See:
 
         SourceForge: http://sourceforge.net/projects/asciidoc/
         Main website: http://www.methods.co.nz/asciidoc/
 
 
 
 Macros
 ------
 
 The basic chado-xml expansion can be extremely verbose - this is
 because chado-xml uses the unique keys from the chado db, yet it does
 not database internal foreign keys.
 
 Macros can be used to capture repeated nodes in the xml and give them
 XML IDs that are valid within a particular document.
 
 
 
 
 See also
 --------
 
 gmod/XML-XORT
 




Chris suggested the inclusion of the chado-xml docs from the schema--I did that.



I should also mention that this README and the child page with chado-xml documentation are dynamically pulled in an included from the sourceforge cvs. While this means it will always be up to date with respect to what is in cvs, it also give an additional point of failure if SF's cvs server is down.


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Facts about "XORT"RDF feed
Available on platformlinux + and unix +
Has URLhttp://sourceforge.net/projects/gmod/files/OldFiles/ +
Has descriptionXORT is a utility written in Perl that canXORT is a utility written in Perl that can be used to read to and write from a relational schema using XML as an interchange format. In GMOD XORT is frequently used to transfer data to and from Chado. XORT’s three major elements are an XML-database schema mapping specification, an XORT language for both data retrieval and data construction, and a collection of tools that are based on the specification to facilitate the mapping and data exchange. The mapping specification specifies the schema requirement, mapping, operation, and object reference mechanism; the XORT language is used to construct the dump specification; the tool collections comprise the data validation, data input, data output and data debug system. Because it originates from the Chado database, we denote the corresponding XML "Chado XML." denote the corresponding XML "Chado XML." +
Has development statusmaintenance +
Has download URLhttp://sourceforge.net/projects/gmod/files/OldFiles/ +
Has software maturity statusmature +
Has support statusactive +
Has topicXORT +
Has websitehttp://gmod.org/wiki/XORT +
Interaction typereads from and writes to +
InteractorXORT +
Interacts withChado - Getting Started +
Is open sourceYes +
Link typedownload +
Tool functionality or classificationDatabase tools + and Middleware +
Written in languagePerl +
Has subobjectThis property is a special property in this wiki.XORT#http://sourceforge.net/projects/gmod/files/OldFiles/ + and XORT +