autoSql and autoXml: Code Generators from the Genome Project
autoXml extends the type field of ATTLIST to include INT or FLOAT for numerical rather than string values. Similarly you can use #INT or #FLOAT in place of #PCDATA to put a numerical type in the text field. If you include these extensions, please use the .dtdx rather than .dtd suffix on your DTD file.
Currently autoXml only copes with DTD comments if they start on a line by themselves. autoXml expects all ELEMENTS and ATTLIST declarations to fit on a single line. It doesn't handle reference data types beyond saving the reference ID as a string.
Refer to Listing 3 for a complete example of the source code autoXml generates. In addition to the .h file shown in Listing 3, autoXml generates a corresponding .c file as well. Each XML file has to have a root object. In this case the root object is POLYGON (our DTD as is won't let us have more than one polygon per file). You can read an XML file that respects this DTD using the polyPolygonLoad() function, and save it back out using the polyPolygonSave.
autoSql and autoXml work well on a range of data, as you've seen, anywhere from an address book to gene tracks. We hope you'll find these tools useful on your own projects.
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August 27, 2015
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