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Hi Steve,
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<div class="">Thanks for sending in the report and welcome to the community. I attempted to reproduce the problem but was unable to get the fatal error to occur, my Matlab did seem to use ISO-8859-1 as the default character set though.</div>
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<div class="">The dumpXML call should be returning a String from <a href="https://github.com/dgault/ome-common-java/blob/master/src/main/java/loci/common/xml/XMLTools.java#L252" class="">https://github.com/dgault/ome-common-java/blob/master/src/main/java/loci/common/xml/XMLTools.java#L252</a> which
is set to be encoded with UTF-8 <a href="https://github.com/dgault/ome-common-java/blob/master/src/main/java/loci/common/Constants.java#L40" class="">https://github.com/dgault/ome-common-java/blob/master/src/main/java/loci/common/Constants.java#L40</a>. </div>
<div class="">Do you think it is possible that using char to convert it has changed the encoding? </div>
<div class="">Does setting the character set in Matlab correct it? For example using : feature('DefaultCharacterSet', 'UTF-8’)</div>
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<div class="">With Thanks,</div>
<div class="">David Gault</div>
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<div class="">On 16 Oct 2018, at 17:49, Stephen D. Van Hooser <<a href="mailto:vanhoosr@brandeis.edu" class="">vanhoosr@brandeis.edu</a>> wrote:</div>
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Hi all -
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<div class="">I'm new to the Open Microscopy effort but it looks really nice, thank you.</div>
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<div class="">It's always dangerous to post a bug as one's first message, but I think there's a bug in dumpXML. I'm using Matlab, but it tells me that the object is loci.formats.ome.OMEXMLMetadataImpl</div>
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<div class="">If I call </div>
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<div class="">r = bfGetReader('~/Downloads/myfile.lif');</div>
<div class="">m=r.getMetadataStore();</div>
<div class="">x = char(m.dumpXML()); % char converts Java string to Matlab character string</div>
<div class="">str2text('myfilename.xml',x); % my own function that simply writes text files
<a href="https://github.com/VH-Lab/vhlab-toolbox-matlab.git" class="">https://github.com/VH-Lab/vhlab-toolbox-matlab.git</a></div>
<div class="">s = xml2struct('myfilename.xml')</div>
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<div class="">I get a fatal error because the encoding type described in opening of the xml string in x is UTF-8 but the actual encoding of the document is iso-8859-1. If I edit the x string manually, it can be processed correctly.</div>
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<div class="">Best</div>
<div class="">Steve</div>
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<span class="" style="float: none; display: inline !important;">------------------------------------------</span><br class="">
<span class="" style="float: none; display: inline !important;">Stephen D. Van Hooser, PhD</span><br class="">
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<span class="" style="float: none; display: inline !important;">Associate Professor of Biology</span><br class="">
<span class="" style="float: none; display: inline !important;">Brandeis University</span><br class="">
<span class="" style="float: none; display: inline !important;">781-736-2721 (phone)</span><br class="">
<span class="">{</span><a href="http://www.vhlab.org/" class="">www</a><span class="">,</span><a href="http://wiki.vhlab.org/" class="">wiki</a><span class="">,</span><a href="http://code.vhlab.org/" class="">code</a><span class="">,</span><a href="http://dataclass.vhlab.org/" class="">dataclass</a>,<a href="https://twitter.com/VanHooserLab/" class="">twitter</a><span class="">}.</span><a href="http://vhlab.org/" class="">vhlab.org</a></div>
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