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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|Available on platform||linux + and unix +|
|Has URL||http://sourceforge.net/projects/gmod/files/OldFiles/ +|
|Has description||XORT is a utility written in Perl that can … XORT 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 status||maintenance +|
|Has download URL||http://sourceforge.net/projects/gmod/files/OldFiles/ +|
|Has software maturity status||mature +|
|Has support status||active +|
|Has topic||XORT +|
|Has website||http://gmod.org/wiki/XORT +|
|Interaction type||reads from and writes to +|
|Interacts with||Chado - Getting Started +|
|Is open source||Yes +|
|Link type||download +|
|Tool functionality or classification||Database tools + and Middleware +|
|Written in language||Perl +|
|Has subobjectThis property is a special property in this wiki.||XORT#http://sourceforge.net/projects/gmod/files/OldFiles/ + and XORT +|