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XML toolbox from geodise
From: |
Sonia Martins |
Subject: |
XML toolbox from geodise |
Date: |
Thu, 29 Apr 2010 12:10:07 +0100 |
User-agent: |
Thunderbird 2.0.0.24 (Windows/20100228) |
Hello,
I'm trying to use the XML-tool box downloaded from
http://sourceforge.net/projects/octave-xmltools/ but I don't seem to be
able to run the test scripts. I think there's something wrong with the
way I'm trying to "link" the toolbox .m, .h, .cc files to Octave... I
can't even successfully compile the xml_help.cc, xml_load.cc files using
the mkoctfile method. The other problem is that this toolbox as far as I
understand it uses some libraries from XERCES but can't figure out where
these should be so that they're available to the xml-toolbox for Octave.
The documentation that comes with this toolbox is in .ZUML format, and
after I unzipped I don't know how to read it...
Apart from this, if anyone is aware of a good XML solution to read in
XML files in Octave as the one I'm sending attached to the email, please
let me know...
Finally, as it is probably obvious by now, I'm new to Octave. I'm trying
to move from Matlab so that everything is freeware from the software I
use to run my simulations (iDynoMiCS) to the result analysis... but all
the results are written in XML, hence the need for an XML reader that
can extract information from the nodes, children, data...
Thank you very much for any time you can spare with my case :)
Sonia
--
Sónia Martins
PhD student
Centre for systems biology
School of Biosciences
University of Birmingham
Edgbaston, Birmingham B15 2TT
Email: address@hidden
Website: http://www.biosciences-labs.bham.ac.uk/kreftlab/
Phone: +44 121 414 48850
PhD Program in Computational Biology
Gulbenkian Institute
Email: address@hidden
Website: http://bc.igc.gulbenkian.pt/pdbc/
<idynomics>
<simulation iterate="0" time="0.0" unit="hour">
<grid resolution="8.0" nI="65" nJ="65" nK="1"/>
<species name="HetEPS"
header="family,genealogy,generation,birthday,biomass,inert,capsule,growthRate,volumeRate,locationX,locationY,locationZ,radius,totalRadius">
</species>
<species name="HetSwitchLag1"
header="family,genealogy,generation,birthday,biomass,inert,capsule,growthRate,volumeRate,locationX,locationY,locationZ,radius,totalRadius,state,turnOn,turnOff,timeRequestTurnOn,timeRequestTurnOff">
2,0,0,0.0,11553.383780684591,0.0,0.0,0.0,0.0,2.070408765305566,343.29627808550407,0.0,1.7506064845649867,1.7506064845649867,0,0,0,0.0,0.0;
5,0,0,0.0,10190.39304506386,0.0,0.0,0.0,0.0,1.8432157976500614,179.1067716259571,0.0,1.644104433314138,1.644104433314138,0,0,0,0.0,0.0;
8,0,0,0.0,10709.62561851332,0.0,0.0,0.0,0.0,2.596947081248384,84.0865194725598,0.0,1.6854701965231058,1.6854701965231058,0,0,0,0.0,0.0;
4,0,0,0.0,9929.220599667437,0.0,0.0,0.0,0.0,2.3202882711737542,32.4706036704676,0.0,1.6228990747542473,1.6228990747542473,0,0,0,0.0,0.0;
1,0,0,0.0,9028.20964725846,0.0,0.0,0.0,0.0,2.277502444220676,461.48775758816373,0.0,1.5475145839801185,1.5475145839801185,0,0,0,0.0,0.0;
6,0,0,0.0,10937.195345151358,0.0,0.0,0.0,0.0,1.7177205466895495,489.68821427367004,0.0,1.7032834135955746,1.7032834135955746,0,0,0,0.0,0.0;
3,0,0,0.0,9436.39194008105,0.0,0.0,0.0,0.0,2.1487195173520366,411.6574919459044,0.0,1.5821108843618397,1.5821108843618397,0,0,0,0.0,0.0;
9,0,0,0.0,9300.188860728425,0.0,0.0,0.0,0.0,2.0922322396605475,128.50022036906424,0.0,1.5706514400069111,1.5706514400069111,0,0,0,0.0,0.0;
7,0,0,0.0,9250.722735506408,0.0,0.0,0.0,0.0,1.984455642422732,388.9201906318486,0.0,1.5664688568362501,1.5664688568362501,0,0,0,0.0,0.0;
10,0,0,0.0,10921.690389656527,0.0,0.0,0.0,0.0,2.525910059975404,451.73304419890815,0.0,1.702075667961021,1.702075667961021,0,0,0,0.0,0.0;
</species>
<species name="HetSwitchLag3"
header="family,genealogy,generation,birthday,biomass,inert,capsule,growthRate,volumeRate,locationX,locationY,locationZ,radius,totalRadius,state,turnOn,turnOff,timeRequestTurnOn,timeRequestTurnOff">
11,0,0,0.0,8542.95111576802,0.0,0.0,0.0,0.0,1.7151542880156405,382.0949077168427,0.0,1.5053514092587688,1.5053514092587688,0,0,0,0.0,0.0;
20,0,0,0.0,10745.069584022447,0.0,0.0,0.0,0.0,2.5419699215432465,263.19458526685645,0.0,1.688256960666269,1.688256960666269,0,0,0,0.0,0.0;
16,0,0,0.0,8850.065102530372,0.0,0.0,0.0,0.0,1.6791496600919564,148.3539079205623,0.0,1.5321707444020325,1.5321707444020325,0,0,0,0.0,0.0;
17,0,0,0.0,11334.941609955593,0.0,0.0,0.0,0.0,1.6439537761208118,22.10236786285367,0.0,1.7339779738737258,1.7339779738737258,0,0,0,0.0,0.0;
14,0,0,0.0,8638.242565487682,0.0,0.0,0.0,0.0,1.9155027193295597,421.46814569227325,0.0,1.5137237688378644,1.5137237688378644,0,0,0,0.0,0.0;
12,0,0,0.0,11466.385267459418,0.0,0.0,0.0,0.0,1.5206350101094852,45.20188721061089,0.0,1.7440028799850171,1.7440028799850171,0,0,0,0.0,0.0;
13,0,0,0.0,11093.497658792934,0.0,0.0,0.0,0.0,1.7162395012420204,348.6789232888451,0.0,1.715410961392435,1.715410961392435,0,0,0,0.0,0.0;
18,0,0,0.0,10645.961795157442,0.0,0.0,0.0,0.0,2.3029312588965487,404.03646406841125,0.0,1.6804530547500658,1.6804530547500658,0,0,0,0.0,0.0;
19,0,0,0.0,8418.014077825665,0.0,0.0,0.0,0.0,1.7570640905126498,144.8743349837143,0.0,1.4943033039674238,1.4943033039674238,0,0,0,0.0,0.0;
15,0,0,0.0,10206.581064888482,0.0,0.0,0.0,0.0,1.9239362491213576,228.09896629734396,0.0,1.6454097918832367,1.6454097918832367,0,0,0,0.0,0.0;
</species>
<species name="HetSwitchLag5"
header="family,genealogy,generation,birthday,biomass,inert,capsule,growthRate,volumeRate,locationX,locationY,locationZ,radius,totalRadius,state,turnOn,turnOff,timeRequestTurnOn,timeRequestTurnOff">
24,0,0,0.0,10576.753299445065,0.0,0.0,0.0,0.0,2.064281466384868,400.1981505067567,0.0,1.6749819069133378,1.6749819069133378,0,0,0,0.0,0.0;
26,0,0,0.0,9440.947889267887,0.0,0.0,0.0,0.0,2.0876309384606353,61.915884790546166,0.0,1.5824927648005653,1.5824927648005653,0,0,0,0.0,0.0;
21,0,0,0.0,9831.60004105263,0.0,0.0,0.0,0.0,2.129612579726256,252.32262463906574,0.0,1.614901486151026,1.614901486151026,0,0,0,0.0,0.0;
25,0,0,0.0,8893.401864401956,0.0,0.0,0.0,0.0,2.1599040719034734,41.48454563271824,0.0,1.5359175095805058,1.5359175095805058,0,0,0,0.0,0.0;
28,0,0,0.0,9796.150540148134,0.0,0.0,0.0,0.0,2.3788989113752264,378.5719493441234,0.0,1.6119874564637684,1.6119874564637684,0,0,0,0.0,0.0;
22,0,0,0.0,10646.768269597578,0.0,0.0,0.0,0.0,2.1026877459254334,407.88326136553883,0.0,1.6805167040847753,1.6805167040847753,0,0,0,0.0,0.0;
23,0,0,0.0,11113.496902032395,0.0,0.0,0.0,0.0,2.123339391441917,0.08626959889139307,0.0,1.7169565277236334,1.7169565277236334,0,0,0,0.0,0.0;
27,0,0,0.0,9535.366822402179,0.0,0.0,0.0,0.0,2.412538578256463,440.2689581500834,0.0,1.5903863341849398,1.5903863341849398,0,0,0,0.0,0.0;
29,0,0,0.0,9194.50077526157,0.0,0.0,0.0,0.0,2.0590925690243482,320.5204694473033,0.0,1.5617014363100443,1.5617014363100443,0,0,0,0.0,0.0;
30,0,0,0.0,10189.834793898333,0.0,0.0,0.0,0.0,1.7209666769662284,425.0943819642817,0.0,1.6440593989478232,1.6440593989478232,0,0,0,0.0,0.0;
</species>
</simulation>
</idynomics>
- XML toolbox from geodise,
Sonia Martins <=