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<p class="MsoNormal">Hi Roman! Hope you are well.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">This means that mcverter is reading it as DICOM, but it can’t find the “photometric interpretation” tag (0028, 0004). For MR images this is usually “MONOCHROME2”. If you have dcmtk installed, you can look for this tag by running dcmdump
+P PhotometricInterpretation [filename]. If it’s not found, mcverter assumes this isn’t an image file.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">I’ve mostly switched to dcm2niix myself since I haven’t had time to work on mriconvert and it’s gotten behind. I’m currently working on a python-based front end for dcm2niix that converts to bids format, if you are interested.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">If you really want to use mcverter and not dcm2niix, the first thing I can think of to try is to rewrite the dicoms using something like dcmconv from dcmtk:
<a href="https://support.dcmtk.org/docs/dcmconv.html">https://support.dcmtk.org/docs/dcmconv.html</a>. This should correct any missing required elements in the dicom files.<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">Jolinda<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><b>From:</b> Roman Fleysher <roman.fleysher@einsteinmed.edu>
<br>
<b>Sent:</b> Thursday, December 29, 2022 11:55 AM<br>
<b>To:</b> 'MRIConvert user's list' <mriconvert@lists.uoregon.edu>; Jolinda Smith <jolinda@uoregon.edu><br>
<b>Subject:</b> File does not contain image data<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">Dear Jolinda,</span></span><o:p></o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">Dear All,</span></span><o:p></o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">I have not had any issues with mcverter in a long time. I am installing a new system and new versions of software and some of the old DICOM files do
not convert. New DICOMs are fine.</span></span><o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">I get error message (when using -v option for verbose output):</span></span><o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">Not added File does not contain image data</span></span><o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal"><span class="contentpasted0"><span style="font-size:12.0pt;color:black;background:white">I use mcverter version 2.1.0 build 434</span></span><o:p></o:p></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black">The DICOM files are not that old, only few years, so this should not be any major change in format. What could this error mean and how to get mcverter to convert these
DICOMs to NIFTI?<o:p></o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black">Thank you, and wishing you a Happy New Year,<o:p></o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black">Roman<o:p></o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="background:white"><span style="font-size:12.0pt;color:black"><o:p> </o:p></span></p>
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