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Location: EI/VirtualLeaf/lib/libxml2/include/libxml/DOCBparser.h - annotation

Roeland Merks
In response to referee's comment:

"However, (although it is probably not important for model developers), I was
still unable to load the model ‘Meinhardt 1976 with growth’ example from the
‘Models’ drop down menu, I got the ‘Fatal error’ message ‘stepwise underflow in

rkqs, with h=0.000000 and htry = 0.100000’. The model did work when I selected
the Meinhardt model in both the Models and the File -> Read leaf menus together,
it would be preferable if the models loaded from the Models menu worked

automatically. I am not sure that the update referred to in the author’s
response permits the loading of ‘My First Model in Virtual Leaf’ from the
‘Models’ drop down menu; I only got a cell that wiggled."

I made the following changes:

- meinhardt_plugin now reads "meinhardt_init.xml" by default
- changed the name of 'My First Model in Virtual Leaf’ to '0: Empty model template (does nothing)' to make it clear that the wiggle cell is the intended behavior for this model example.
- Added default parameter files for Tutorial1A-D and Tutorial2 to prevent variable behavior depending on the last parameter settings used.


--
user: Roeland Merks <roeland.merks@cwi.nl>
branch 'default'
added data/leaves/tutorial1_init.xml
added data/leaves/tutorial2_init.xml
changed data/leaves/auxin_growth.xml
changed data/leaves/meinhardt_init.xml
changed src/TutorialCode/Tutorial0/tutorial0.cpp
changed src/TutorialCode/Tutorial1A/tutorial1A.h
changed src/TutorialCode/Tutorial1B/tutorial1B.h
changed src/TutorialCode/Tutorial1C/tutorial1C.h
changed src/TutorialCode/Tutorial1D/tutorial1D.h
changed src/TutorialCode/Tutorial2/tutorial2.h
changed src/build_models/meinhardtplugin.h
/*
 * Summary: old DocBook SGML parser
 * Description: interface for a DocBook SGML non-verifying parser
 * This code is DEPRECATED, and should not be used anymore.
 *
 * Copy: See Copyright for the status of this software.
 *
 * Author: Daniel Veillard
 */

#ifndef __DOCB_PARSER_H__
#define __DOCB_PARSER_H__
#include <libxml/xmlversion.h>

#ifdef LIBXML_DOCB_ENABLED

#include <libxml/parser.h>
#include <libxml/parserInternals.h>

#ifndef IN_LIBXML
#ifdef __GNUC__
#warning "The DOCBparser module has been deprecated in libxml2-2.6.0"
#endif
#endif

#ifdef __cplusplus
extern "C" {
#endif

/*
 * Most of the back-end structures from XML and SGML are shared.
 */
typedef xmlParserCtxt docbParserCtxt;
typedef xmlParserCtxtPtr docbParserCtxtPtr;
typedef xmlSAXHandler docbSAXHandler;
typedef xmlSAXHandlerPtr docbSAXHandlerPtr;
typedef xmlParserInput docbParserInput;
typedef xmlParserInputPtr docbParserInputPtr;
typedef xmlDocPtr docbDocPtr;

/*
 * There is only few public functions.
 */
XMLPUBFUN int XMLCALL
		     docbEncodeEntities(unsigned char *out,
                                        int *outlen,
                                        const unsigned char *in,
                                        int *inlen, int quoteChar);

XMLPUBFUN docbDocPtr XMLCALL             
		     docbSAXParseDoc   (xmlChar *cur,
                                        const char *encoding,
                                        docbSAXHandlerPtr sax,
                                        void *userData);
XMLPUBFUN docbDocPtr XMLCALL             
		     docbParseDoc      (xmlChar *cur,
                                        const char *encoding);
XMLPUBFUN docbDocPtr XMLCALL             
		     docbSAXParseFile  (const char *filename,
                                        const char *encoding,
                                        docbSAXHandlerPtr sax,
                                        void *userData);
XMLPUBFUN docbDocPtr XMLCALL             
		     docbParseFile     (const char *filename,
                                        const char *encoding);

/**
 * Interfaces for the Push mode.
 */
XMLPUBFUN void XMLCALL                  
		     docbFreeParserCtxt      (docbParserCtxtPtr ctxt);
XMLPUBFUN docbParserCtxtPtr XMLCALL     
		     docbCreatePushParserCtxt(docbSAXHandlerPtr sax,
                                              void *user_data,
                                              const char *chunk,
                                              int size,
                                              const char *filename,
                                              xmlCharEncoding enc);
XMLPUBFUN int XMLCALL                   
		     docbParseChunk          (docbParserCtxtPtr ctxt,
                                              const char *chunk,
                                              int size,
                                              int terminate);
XMLPUBFUN docbParserCtxtPtr XMLCALL       
		     docbCreateFileParserCtxt(const char *filename,
                                              const char *encoding);
XMLPUBFUN int XMLCALL                   
		     docbParseDocument       (docbParserCtxtPtr ctxt);

#ifdef __cplusplus
}
#endif

#endif /* LIBXML_DOCB_ENABLED */

#endif /* __DOCB_PARSER_H__ */