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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Dear Ying,<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">As far as I understand, Fieldtrip can read in the entire series of dicom-files by just specifying the first file name of the series, just like
you did. However, for this it is required that the series number is clear in each file name, e.g. MRI_S01_MEG.0001.0001.IMA, MRI_S01_MEG.0001.0002.IMA, etc. I suppose that is not clear in your dicom file names.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Best,<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Stan<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">--<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Stan van Pelt, PhD<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Donders Institute for Brain, Cognition and Behaviour<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Radboud University<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">Montessorilaan 3, B.01.34<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">6525 HR Nijmegen, the Netherlands<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D">tel: +31 24 3616288
<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-US" style="font-size:11.0pt;font-family:"Calibri","sans-serif";color:#1F497D"><o:p> </o:p></span></p>
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<p class="MsoNormal"><b><span lang="EN-US" style="font-size:10.0pt;font-family:"Tahoma","sans-serif"">From:</span></b><span lang="EN-US" style="font-size:10.0pt;font-family:"Tahoma","sans-serif""> fieldtrip-bounces@science.ru.nl [mailto:fieldtrip-bounces@science.ru.nl]
<b>On Behalf Of </b>Ying Li<br>
<b>Sent:</b> woensdag 14 januari 2015 20:05<br>
<b>To:</b> FieldTrip discussion list<br>
<b>Subject:</b> [FieldTrip] How to read .dicom format using FT_READ_MRI<o:p></o:p></span></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Dear all,<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">I'm trying to load MRI into matlab. The MRI data I have is a series of .dicom files (~250 frames, "IMG1"~"IMG250"). I'm wondering how to specify the input parameter for the function "ft_read_mri". Since I have 250 files, which file should
I use for the input?<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">If I only use the first file "IMG1", for example mri = ft_read_mri('IMG1'); Then I will get the following error:<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Warning: Not enough data imported. Attempted to read 3053459760 bytes at position 2953. Only read 534544. <o:p></o:p></p>
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<p class="MsoNormal">ERROR: IMG1 does not have a series number <o:p></o:p></p>
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<p class="MsoNormal">Error in load_dicom_series (line 42)<o:p></o:p></p>
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<p class="MsoNormal">if(nargin < 1 | nargin > 3)<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Output argument "vol" (and maybe others) not assigned during call to<o:p></o:p></p>
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<p class="MsoNormal">"XX\fieldtrip_20140518\external\freesurfer\load_dicom_series.m>load_dicom_series".<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Error in ft_read_mri (line 287)<o:p></o:p></p>
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<p class="MsoNormal"> [img,transform,hdr,mr_params] = load_dicom_series(dcmdir,dcmdir,filename);<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">I'll appreciate your reply a lot!<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Best,<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Ying<o:p></o:p></p>
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