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Re: XML tools for Octave
From: |
Alois Schloegl |
Subject: |
Re: XML tools for Octave |
Date: |
Mon, 12 Jun 2006 10:55:03 +0200 |
User-agent: |
Mozilla Thunderbird 0.9 (Windows/20041103) |
Andy,
thanks for your comments.
Andy Adler wrote:
On Sat, 10 Jun 2006, Schloegl Alois wrote:
This works very well. Although the OCT version is not as fast as the
MEX version, it works also for a case, were the MEX function causes a
bad crash.
Andy, what do you think about the solution?
It does not recognize the example 1) as an invalid XML. How big of a
problem is this?
Alois,
It depends on what you want to do with it.
I did a comparison of the various XML tools for available for matlab,
and wasn't impressed with any of them; this one has at least the
advantage
of being simple and robust.
However, it has a few defects:
1. Parses non-XML files ( <b><i>tag</b></i> )
2. These files are identical in the infoset, but are
parsed differently
<XML> <tag/> </XML> vs <XML> <tag></tag> </XML>
<XML> " </XML> vs <XML> " </XML>
<XML> <![CDATA[ text ]]> </XML> vs <XML> text </XML>
3. Doesn't manage xml comments (<!-- -->)
Comments are loaded and appear in the substructure data as strings.
4. Confused by processing instructions
<?xml version="1.0" encoding="UTF-8"?>
What do you mean by "confused"? So far I've not observed a problem with
this.
Are these a big issue for you? I would suspect that 3 and
4 are probably quite important.
No, not really. I do not care about comments. I'm a little bit concerned
though that some non-XML data could cause some indefinite state.
Currently, the biggest issue for me is that the outcome needs some
postprocessing.
Instead of
X.data.='aECG'
X.sub = {anystruct}
I'd like to see
X.aECG = {anystruct}
What features are you looking for in a XML parser?
Basically, I want to load large XML data sets, e.g. like this one
http://hci.tugraz.at/schloegl/biosig/xml/Exa01.xml
and extract the information which is needed for the common interface on
biomedical data formats in the "BioSig for Octave and Matlab" toolbox.
Moreover, reading OpenOffice Spreadsheet files (which are just zipped
XML) would be a nice and useful feature.
--
Andy Adler <address@hidden> 1(613)562-5800x6218
I've included a link at the wiki site.
APPENDIX: My comments on XML tools:
1. XML4MAT
http://bioinformatics.org/project/?group_id=172
LICENCE: GPL V2
*.m code throughout
Uses regexps to parse XML.
Fails for many simple examples (ie <tag att="<<"/>)
2. XML Toolbox for Matlab
http://www.geodise.org/toolboxes/generic/xml_toolbox.htm
LICENCE: Custom (BSD with advertising)
Output format looks interesting
Appears to only offer p-code downloads and to link
to Java xml parsers
3. XML Tree
http://www.artefact.tk/software/matlab/xml/
LICENCE: GPL
Extensive use of Matlab classes
BUGS:
Doesn't record attributes
Misses mixed contents:
Misses <b to end: <i> adsf <b/> asbf </i>
Misses asbf: <i> adsf <b> </b> asbf </i>
Confused by Processing Instructions
Confused by Entities
Confused by CDATA
Crashes with namespaces
OK:
XML procesing instructions
XML comments
XML entities
4. XML Tools
http://www.mathworks.com/matlabcentral/fileexchange/loadFile.do?objectId=1742&objectType=FILE
LICENCE: GPL
BUGS:
Parses non XML: <c t="C">F S</cd>
<b><i>tag</b></i>
Infoset equivalent files aren't: <a></a> ~= <a/>
Doesn't parse entities
Doesn't manage comments
Doesn't manage CDATA
Confusted by <?xml ?>
OK:
Multiple attributes
- Re: XML tools for Octave, Alois Schloegl, 2006/06/08
- Re: XML tools for Octave, David Bateman, 2006/06/08
- Re: XML tools for Octave, Alois Schloegl, 2006/06/08
- Re: XML tools for Octave, David Bateman, 2006/06/08
- Re: XML tools for Octave, Schloegl Alois, 2006/06/09
- Re: XML tools for Octave, David Bateman, 2006/06/09
- Re: XML tools for Octave, David Bateman, 2006/06/09
- Re: XML tools for Octave, Schloegl Alois, 2006/06/10
- Re: XML tools for Octave, David Bateman, 2006/06/10
- Re: XML tools for Octave, Andy Adler, 2006/06/10
- Re: XML tools for Octave,
Alois Schloegl <=
- Re: XML tools for Octave, Andy Adler, 2006/06/12
- Re: XML tools for Octave, Alois Schloegl, 2006/06/13
- Re: XML tools for Octave, Andy Adler, 2006/06/13
- Re: XML tools for Octave, Schloegl Alois, 2006/06/21
- Re: XML tools for Octave, Andy Adler, 2006/06/28
- Re: XML tools for Octave, John W. Eaton, 2006/06/28
- Re: XML tools for Octave, Bill Denney, 2006/06/29
- Re: XML tools for Octave, Andy Adler, 2006/06/29
- Re: XML tools for Octave, Bill Denney, 2006/06/29
- Re: XML tools for Octave, Andy Adler, 2006/06/29