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<div class="">Hi Marion,
<div class=""><br class="">
</div>
<div class="">It could be that the mex files is not working properly in your case. One option could be to try and recompile it on your local computer.</div>
<div class="">Alternatively, it could be that for the files that ‘work’ in your case, this specific section is bypassed, and just plain matlab code is used for the reading. Specifically, the value for offset might be larger than 2GB, in which case the ‘else’
will be executed, rather than the ‘if’. If you can verify that this is the case, you can also comment out the lines starting with ‘if’, ‘else’, and the final ‘end’.</div>
<div class=""><br class="">
</div>
<div class="">Best wishes,</div>
<div class="">Jan-Mathijs</div>
</div>
<div class=""><br class="">
</div>
<div class=""><br class="">
</div>
<br class="">
<div>
<blockquote type="cite" class="">
<div class="">On 14 Mar 2019, at 18:25, Marion Vincent <<a href="mailto:marion.vincent@univ-lille.fr" class="">marion.vincent@univ-lille.fr</a>> wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="WordSection1" style="page: WordSection1; font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;">
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Dear fieldtrip users,<span class="Apple-converted-space"> </span></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I want to import my BioSemi files (.bdf format) for several subjects.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The files have the same structure (almost same length and same triggers) as they were recoded for identical exepriment protocol.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I’ve implemented the processing (time-locked and time-frequency analysis) on 1 set of data.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The code to read the bdf file work fine as my markers, channels,length of data, etc. are ok.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
However, I can’t process all my subjects as some .bdf file can’t be opened.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Below is an extract of my code for reading the .bdf files.<span class="Apple-converted-space"> </span><o:p class=""></o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
******************************</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif; text-indent: 35.4pt;" class="">
<i class="">dataset = fullfile(path_Biosemi, 'AV-Exp2' , 'P1.bdf');<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif; text-indent: 35.4pt;" class="">
<i class="">% ** READ FILE INFO<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> % read the header information and the events from the data<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> hdr = ft_read_header(dataset)<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> % Config<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg= [];<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.dataset = dataset;<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.hdr=hdr;<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> <span class="Apple-converted-space"> </span><o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> % **RE-REFERENCES<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.reref = 'yes';<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.refchannel = {'EXG3', 'EXG4'} ; % electrode 131/132 // cell-array with new EEG reference channel(s), this can be 'all' for a common average reference<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.refmethod = 'avg'; % 'avg', 'median', or 'bipolar' for bipolar derivation of sequential channels (default = 'avg')<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> % ** TRIAL DEFINITION<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> cfg.channel=[1:128];<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> event_All = ft_read_event(cfg.dataset);<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
******************************</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif; text-align: center;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
The<span class="Apple-converted-space"> </span><i class="">ft_read_header</i><span class="Apple-converted-space"> </span>works perfectly for all my .bdf files. However, for some of them the<span class="Apple-converted-space"> </span><i class="">ft_read_event</i><span class="Apple-converted-space"> </span>does
not work and returns this error :<span class="Apple-converted-space"> </span></div>
<p class="MsoNormal" style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;">
</p>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class="">Error in read_biosemi_bdf>readLowLevel (line 283)<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> buf = read_24bit(filename, offset, numwords);<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""><o:p class=""> </o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class="">Error in read_biosemi_bdf (line 254)<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> buf = readLowLevel(filename, offset, epochlength); % see below in subfunction<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""><o:p class=""> </o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class="">Error in ft_read_data (line 409)<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> dat = read_biosemi_bdf(filename, hdr, begsample, endsample, chanindx);<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""><o:p class=""> </o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class="">Error in ft_read_event (line 345)<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> sdata = ft_read_data(filename, 'header', hdr, 'dataformat', dataformat, 'begsample', begsample, 'endsample',<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""> endsample, 'chanindx', schan);<o:p class=""></o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""><o:p class=""> </o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<i class=""><o:p class=""> </o:p></i></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I’ve checked the .bdf files on the BioSemi sotware and they are ok. So files are not corrupted. And they were recorded with the same procedure as for files that work with fieldtrip.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
I’ve tried to go deeper in the Matlab code for<span class="Apple-converted-space"> </span><i class="">read_24bit</i><span class="Apple-converted-space"> </span>function but I can’t find out the solution.</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Does anyone have any idea, or already encountered this problem ?<span class="Apple-converted-space"> </span></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Thanks for your help,</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
Marion</div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<b class=""><span style="color: rgb(47, 85, 151);" class="">Marion VINCENT</span></b><span style="" class=""><br class="">
Eng., PhD , CNRS Research Engineer<br class="">
<b class="">Tel</b>: +33 607 59 46 76<br class="">
<br class="">
Laboratoire SCALab UMR CNRS 9193<br class="">
Université Lille 3<br class="">
BP 60149<br class="">
59653 Villeneuve d'Ascq Cedex<br class="">
<i class=""><a href="http://scalab.cnrs.fr/" class="">http://scalab.cnrs.fr</a></i><br class="">
--------------------------------------------<br class="">
L’Imaginarium / SCV-IrDIVE Equipex<br class="">
99a Boulevard Descat<br class="">
59200 Tourcoing<br class="">
<i class=""><a href="http://www.irdive.fr/" class="">http://www.irdive.fr</a></i><a href="http://www.irdive.fr/" class="">/</a></span><o:p class=""></o:p></div>
<div style="margin: 0cm 0cm 0.0001pt; font-size: 11pt; font-family: Calibri, sans-serif;" class="">
<o:p class=""> </o:p></div>
</div>
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">_______________________________________________</span><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<span style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; float: none; display: inline !important;" class="">fieldtrip
mailing list</span><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<a href="https://mailman.science.ru.nl/mailman/listinfo/fieldtrip" style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">https://mailman.science.ru.nl/mailman/listinfo/fieldtrip</a><br style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class="">
<a href="https://doi.org/10.1371/journal.pcbi.1002202" style="font-family: Helvetica; font-size: 14px; font-style: normal; font-variant-caps: normal; font-weight: normal; letter-spacing: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-size-adjust: auto; -webkit-text-stroke-width: 0px;" class="">https://doi.org/10.1371/journal.pcbi.1002202</a></div>
</blockquote>
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