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Hi Elsa,
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<div class="">Have you consulted this piece of documentation?</div>
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<div class=""><a href="https://www.fieldtriptoolbox.org/getting_started/brainvision/" class="">https://www.fieldtriptoolbox.org/getting_started/brainvision/</a></div>
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<div class="">It is not clear to me why you use a mix of low-level functionality (ft_read_data) and high level functionality (ft_definetrial), in combination with exported already epoched data to try to achieve what you want to achieve.</div>
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<div class="">If you already have segmented data, why would you need to epoch your data once more (as suggested by your intention to call ft_definetrial, followed by ft_redefinetrial)?</div>
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<div class="">Best wishes,</div>
<div class="">Jan-Mathijs</div>
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<blockquote type="cite" class="">
<div class="">On 17 Sep 2021, at 15:16, Elsa Sangaran via fieldtrip <<a href="mailto:fieldtrip@science.ru.nl" class="">fieldtrip@science.ru.nl</a>> wrote:</div>
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<div dir="ltr" class=""><font face="arial, sans-serif" class="">Dear all, </font>
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</font></div>
<div class=""><font face="arial, sans-serif" class="">I am having some trouble with the exported data (averages of different conditions in my experiment) which I preprocessed on Brain Vision Analyzer. </font>I used the generic data export option on BVA, which
generated 3 files (.seg, .vhdr, .vmrk), which I then imported to Fieldtrip. When reading in the exported data, I get the following error messages and warnings: </div>
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<div class="">Script: </div>
<div class="">
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:blue" class="">for</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> subj = (name_subj)</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% (re)set directory to the directory that contains the trialfun</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> subject = subj{:};</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> </span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">seg_file =[dir_raw_data_external subject
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(160,32,240)" class="">'.seg'</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">];
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%Subject's .seg file, ie. 'pilot1.seg'</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">header_file =[dir_raw_data_external subject
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(160,32,240)" class="">'.vhdr'</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">];
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%Subject's .vhdr file, ie. 'pilot1.vhdr'</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg = [];
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.dataset = seg_file;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">hdr = ft_read_header(header_file);</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">nTrials = hdr.nSamples/trial_length;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">hdr.nTrials = nTrials;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">hdr.nSamples = trial_length;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">dat = ft_read_data(seg_file,</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(160,32,240)" class="">'header'</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">,
hdr); </span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.label = channel_labels;
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.trial = squeeze(num2cell(dat,[1 2]))';</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.hdr = hdr;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.time = repmat({[time_start:(time_end-time_start)/trial_length:time_end-(time_end-time_start)/trial_length]},1,nTrials);</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.label = cfg.hdr.label;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.trialinfo = [];</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.sampleinfo = [0 300];
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">cfg.fsample = 250;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">data_raw = cfg;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> </span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% make variables for header and eeg file</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% headerfile = [dir_raw_data_external subject '.vhdr'];</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% segfile = [dir_raw_data_external subject '.seg'];</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="DE" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%
</span><span lang="DE" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="DE" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% cfg = [];</span><span lang="DE" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="DE" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% cfg.headerfile = headerfile;</span><span lang="DE" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% cfg.dataset = segfile;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">% data_raw = ft_preprocessing(cfg);</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> </span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%cfg.trialdef.eventtype = 'string'</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(60,118,61)" class="">%cfg.trialdef.eventvalue = number, string or list with numbers or strings</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg = [];</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.prestim = 0.2;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.poststim = 1;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.eventtype =
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(160,32,240)" class="">'Time 0'</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.eventvalue =
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:rgb(160,32,240)" class="">''</span><span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.triallength = 1.2;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.trialdef.ntrials = 1;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class="">
</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.headerfile = header_file;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg.datafile = seg_file;</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> cfg_deftrial = ft_definetrial(cfg);</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""> data_segmented = ft_redefinetrial(cfg_deftrial, data_raw);</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<p class="MsoNormal" style="margin:0cm;line-height:normal;font-size:11pt;font-family:Calibri,sans-serif">
</p>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size:10pt;font-family:"Courier New";color:blue" class="">end</span><span lang="EN-GB" style="font-size:10pt;font-family:"Courier New"" class=""></span></div>
<div style="margin: 0cm; line-height: normal; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<span lang="EN-GB" style="font-size: 10pt; font-family: "Courier New";" class=""><br class="">
</span></div>
<div style="margin: 0cm; line-height: normal;" class=""><font face="arial, sans-serif" style="" class=""><span lang="EN-GB" style="" class="">For </span><span style="" class="">ft_definetrial, I get the following warnings:</span></font></div>
<div style="margin: 0cm 0cm 8pt; line-height: 107%;" class=""><br class="webkit-block-placeholder">
</div>
<ul class="">
<li class=""><span lang="EN-GB" class=""><font face="arial, sans-serif" class="">Warning: could not determine dimord of "dataset"</font></span></li><li class=""><span lang="EN-GB" class=""><font face="arial, sans-serif" class="">Warning: inconsistent sampleinfo</font></span></li><li class=""><span lang="EN-GB" class=""><font face="arial, sans-serif" class="">Warning: inconsistent trialinfo</font></span></li></ul>
<div class=""><br class="webkit-block-placeholder">
</div>
<p class="MsoNormal" style="margin:0cm 0cm 8pt;line-height:107%"><span lang="EN-GB" class=""><font face="arial, sans-serif" class="">For ft_redefinetrial, I get the following warnings: </font></span></p>
<div style="margin: 0cm 0cm 8pt; line-height: 107%;" class=""><br class="webkit-block-placeholder">
</div>
<ul class="">
<li class=""><span lang="EN-GB" style="" class=""><font face="arial, sans-serif" style="" class="">Warning: the data does not contain sampleinfo
</font></span></li><li class=""><span lang="EN-GB" class=""><font face="arial, sans-serif" class="">Warning: reconstructing sampleinfo by assuming that the trials are consecutive segments of a continuous recording</font></span></li></ul>
<div class=""><br class="webkit-block-placeholder">
</div>
<div style="margin: 0cm 0cm 8pt; line-height: 107%;" class=""><span lang="EN-GB" class=""><font face="arial, sans-serif" class=""></font></span><br class="webkit-block-placeholder">
</div>
<p class="MsoNormal" style="margin:0cm 0cm 8pt;line-height:107%"><span style="font-family:arial,sans-serif;color:rgb(17,17,17)" class="">I appreciate your advice and guidance on how to go about this as I am still new to using Fieldtrip. </span></p>
<p class="MsoNormal" style="margin:0cm 0cm 8pt;line-height:107%"><span style="color:rgb(17,17,17);font-family:arial,sans-serif" class="">Thank you in advance for your help.</span></p>
<p class="MsoNormal" style="margin:0cm 0cm 8pt;line-height:107%"><span style="color:rgb(17,17,17);font-family:arial,sans-serif" class=""><br class="">
</span></p>
</div>
<div class="">
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<div dir="ltr" class=""><font face="arial, sans-serif" class="">Best,</font>
<div class=""><font face="arial, sans-serif" class="">Elsa Sangaran</font></div>
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