<div dir="ltr">Hi Alfredo,<div><br></div><div>not sure exactly why this is happening for this specific version of dcm2mnc. I am far from being an expert in dcm2mnc... However, I was lucky enough to get a more recent dcm2mnc from Bert a year ago that fixed a few issues (unfortunately not all) but maybe this version would fix the problem you are encountering? Would you mind testing that last version?</div><div><br></div><div>Here is a link to the dcm2mnc binaries compiled for CentOS 7 and Ubuntu 16. Hopefully that would work for you. </div><div><a href="https://github.com/cmadjar/minc-tools/releases">https://github.com/cmadjar/minc-tools/releases</a><br></div><div><br></div><div>If that doesn't work, maybe you can create an issue on the minc-tools Github repository for the MINC tools developers? Here is the link to where you could post an issue: <a href="https://github.com/BIC-MNI/minc-tools/issues">https://github.com/BIC-MNI/minc-tools/issues</a></div><div><br></div><div>In the hope that helps. </div><div>Best,</div><div><br></div><div>Cécile</div><div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Wed, Jun 17, 2020 at 1:29 PM Morales Pinzon, Alfredo <<a href="mailto:AMORALESPINZON@bwh.harvard.edu">AMORALESPINZON@bwh.harvard.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div style="overflow-wrap: break-word;">
Dear LorisDev team,
<div><br>
</div>
<div>We are facing an issue with some Dicoms (~400 Dicom studies) being converted to minc files having only one slide (z_space=1) when importing them in LORIS. This issue however seems to be happening in the version 2.3.01 of dcm2mnc used by LORIS:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(57,192,38)">
<span style="font-variant-ligatures:no-common-ligatures;color:rgb(0,0,0)">$ dcm2mnc -version</span></div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(57,192,38)">
<span style="font-variant-ligatures:no-common-ligatures;color:rgb(0,0,0)"><br>
</span></div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">program: 2.3.01 built Jan 17 2018 17:39:49</span></div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">libminc: 2.4.02</span></div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">netcdf : 4.5.0 of Jan 17 2018 17:09:58 $</span></div>
<div style="margin:0px;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">HDF5 : 1.8.20</span></div>
</div>
<div>===</div>
<div><br>
</div>
<div>but not in version 2.0.07, which we have in a different environment:</div>
<div><br>
</div>
<div>===</div>
<div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">$ dcm2mnc -version</span></div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures"><br>
</span></div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">program: 2.0.07 built Oct 31 2017 14:03:56</span></div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">libminc: 2.2.00</span></div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">netcdf : 4.2.1 of Oct 31 2017 13:59:53 $</span></div>
<div style="margin:0px;font-variant-numeric:normal;font-variant-east-asian:normal;font-stretch:normal;font-size:11px;line-height:normal;font-family:Menlo;color:rgb(0,0,0)">
<span style="font-variant-ligatures:no-common-ligatures">HDF5 <span> </span>: 1.8.8</span></div>
</div>
<div>===</div>
<div><br>
</div>
<div>I am attaching the output I get when converting a set of Dicoms for one acquisition and also the mncheader of the created file. Do you know why this might be happening? I can share a deidentified testing Dicom if this helps.</div>
<div><br>
</div>
<div>Regards,</div>
<div>Alfredo.</div>
<div><br>
</div>
<div>Output dcm2mnc:</div>
<div><br>
</div>
<div>===</div>
<div>
<div>$ dcm2mnc Dicom-pdw/ .</div>
<div>Checking file types...</div>
<div>File Dicom-pdw/000001.dcm appears to be DICOM (CD/Export).</div>
<div>Parsing 60 files |<--------------------------------------------------->|</div>
<div>Sorting 60 files... Done sorting files.</div>
<div>Processing files, one series at a time...</div>
<div>INFO: Number of distinct coordinates: 60</div>
<div>WARNING: Acquisition number is not informative.</div>
<div>WARNING: Image number is a mystery.</div>
<div>WARNING: Minimum image number is 4</div>
<div>WARNING: Temporal position identifier is useless.</div>
<div>INFO: Acquisition number ranges from 1 to 1</div>
<div>INFO: Image number ranges from 4 to 63</div>
<div>INFO: Temporal position id ranges from -1 to -1.</div>
<div>-Parsing series info |<--First Slice at 0,102.006497,0.000000 |</div>
<div>First Echo at 1,0.012000,0.000000</div>
<div>First Time at 4,-61.117167,0.000000</div>
<div>First Phase at 1,0.000000,0.000000</div>
<div>First ChmSh at 1,0.000000,0.000000</div>
<div>Warning: merging extra indices on Time axis: 1 5 </div>
<div>->Warning: merging extra indices on Time axis: 1 6 </div>
<div>->Warning: merging extra indices on Time axis: 1 7 </div>
<div>->Warning: merging extra indices on Time axis: 1 8 </div>
<div>->Warning: merging extra indices on Time axis: 1 9 </div>
<div>->Warning: merging extra indices on Time axis: 1 10</div>
<div>Warning: merging extra indices on Time axis: 1 11</div>
<div>->Warning: merging extra indices on Time axis: 1 12</div>
<div>->Warning: merging extra indices on Time axis: 1 13</div>
<div>->Warning: merging extra indices on Time axis: 1 14</div>
<div>->Warning: merging extra indices on Time axis: 1 15</div>
<div>->Warning: merging extra indices on Time axis: 1 16</div>
<div>->Warning: merging extra indices on Time axis: 1 17</div>
<div>Warning: merging extra indices on Time axis: 1 18</div>
<div>->Warning: merging extra indices on Time axis: 1 19</div>
<div>->Warning: merging extra indices on Time axis: 1 20</div>
<div>->Warning: merging extra indices on Time axis: 1 21</div>
<div>->Warning: merging extra indices on Time axis: 1 22</div>
<div>->Warning: merging extra indices on Time axis: 1 23</div>
<div>Warning: merging extra indices on Time axis: 1 24</div>
<div>->Warning: merging extra indices on Time axis: 1 25</div>
<div>->Warning: merging extra indices on Time axis: 1 26</div>
<div>->Warning: merging extra indices on Time axis: 1 27</div>
<div>->Warning: merging extra indices on Time axis: 1 28</div>
<div>->Warning: merging extra indices on Time axis: 1 29</div>
<div>->Warning: merging extra indices on Time axis: 1 30</div>
<div>Warning: merging extra indices on Time axis: 1 31</div>
<div>->Warning: merging extra indices on Time axis: 1 32</div>
<div>->Warning: merging extra indices on Time axis: 1 33</div>
<div>->Warning: merging extra indices on Time axis: 1 34</div>
<div>->Warning: merging extra indices on Time axis: 1 35</div>
<div>->Warning: merging extra indices on Time axis: 1 36</div>
<div>Warning: merging extra indices on Time axis: 1 37</div>
<div>->Warning: merging extra indices on Time axis: 1 38</div>
<div>->Warning: merging extra indices on Time axis: 1 39</div>
<div>->Warning: merging extra indices on Time axis: 1 40</div>
<div>->Warning: merging extra indices on Time axis: 1 41</div>
<div>->Warning: merging extra indices on Time axis: 1 42</div>
<div>->Warning: merging extra indices on Time axis: 1 43</div>
<div>Warning: merging extra indices on Time axis: 1 44</div>
<div>->Warning: merging extra indices on Time axis: 1 45</div>
<div>->Warning: merging extra indices on Time axis: 1 46</div>
<div>->Warning: merging extra indices on Time axis: 1 47</div>
<div>->Warning: merging extra indices on Time axis: 1 48</div>
<div>->Warning: merging extra indices on Time axis: 1 49</div>
<div>Warning: merging extra indices on Time axis: 1 50</div>
<div>->Warning: merging extra indices on Time axis: 1 51</div>
<div>->Warning: merging extra indices on Time axis: 1 52</div>
<div>->Warning: merging extra indices on Time axis: 1 53</div>
<div>->Warning: merging extra indices on Time axis: 1 54</div>
<div>->Warning: merging extra indices on Time axis: 1 55</div>
<div>->Warning: merging extra indices on Time axis: 1 56</div>
<div>Warning: merging extra indices on Time axis: 1 57</div>
<div>->Warning: merging extra indices on Time axis: 1 58</div>
<div>->Warning: merging extra indices on Time axis: 1 59</div>
<div>->Warning: merging extra indices on Time axis: 1 60</div>
<div>->Warning: merging extra indices on Time axis: 1 61</div>
<div>->Warning: merging extra indices on Time axis: 1 62</div>
<div>->Warning: merging extra indices on Time axis: 1 63</div>
<div>WARNING: Age was not numeric!!</div>
<div>-Creating minc file |<--------------------------------------------------->|</div>
<div>Done processing files.</div>
</div>
<div>=== </div>
<div><br>
</div>
<div>mnc header</div>
<div>===</div>
<div>$ mincheader abc.mnc</div>
<div>hdf5 abc {</div>
<div>dimensions:</div>
<div> xspace = 256 ;</div>
<div> yspace = 256 ;</div>
<div> zspace = 1 ;</div>
<div>variables:</div>
<div> short image(zspace, yspace, xspace) ;</div>
<div> image:version = "MINC Version 1.0" ;</div>
<div> image:vartype = "group________" ;</div>
<div> image:valid_range = 0., 4095. ;</div>
<div> image:varid = "MINC standard variable" ;</div>
<div> image:complete = "true_" ;</div>
<div> image:dimorder = "zspace,yspace,xspace" ;</div>
<div> image:signtype = "unsigned" ;</div>
<div> double image-min(zspace) ;</div>
<div> image-min:version = "MINC Version 1.0" ;</div>
<div> image-min:vartype = "var_attribute" ;</div>
<div> image-min:varid = "MINC standard variable" ;</div>
<div> image-min:dimorder = "zspace" ;</div>
<div> double image-max(zspace) ;</div>
<div> image-max:version = "MINC Version 1.0" ;</div>
<div> image-max:vartype = "var_attribute" ;</div>
<div> image-max:varid = "MINC standard variable" ;</div>
<div> image-max:dimorder = "zspace" ;</div>
<div> int xspace ;</div>
<div> xspace:version = "MINC Version 1.0" ;</div>
<div> xspace:spacetype = "native____" ;</div>
<div> xspace:vartype = "dimension____" ;</div>
<div> xspace:start = 125. ;</div>
<div> xspace:spacing = "regular__" ;</div>
<div> xspace:alignment = "centre" ;</div>
<div> xspace:direction_cosines = 1., -0., 0. ;</div>
<div> xspace:comments = "X increases from patient left to right" ;</div>
<div> xspace:varid = "MINC standard variable" ;</div>
<div> xspace:length = 256 ;</div>
<div> xspace:step = -0.9765625 ;</div>
<div> int yspace ;</div>
<div> yspace:version = "MINC Version 1.0" ;</div>
<div> yspace:spacetype = "native____" ;</div>
<div> yspace:vartype = "dimension____" ;</div>
<div> yspace:start = 114.989938629699 ;</div>
<div> yspace:spacing = "regular__" ;</div>
<div> yspace:alignment = "centre" ;</div>
<div> yspace:direction_cosines = 0., 0.996194701817766, 0.0871557001590339 ;</div>
<div> yspace:comments = "Y increases from patient posterior to anterior" ;</div>
<div> yspace:varid = "MINC standard variable" ;</div>
<div> yspace:length = 256 ;</div>
<div> yspace:step = -0.9765625 ;</div>
<div> double zspace ;</div>
<div> zspace:version = "MINC Version 1.0" ;</div>
<div> zspace:spacetype = "native____" ;</div>
<div> zspace:vartype = "dimension____" ;</div>
<div> zspace:start = 102.00649652328 ;</div>
<div> zspace:spacing = "regular__" ;</div>
<div> zspace:alignment = "centre" ;</div>
<div> zspace:direction_cosines = -0., -0.0871557001590339, 0.996194701817766 ;</div>
<div> zspace:comments = "Z increases from patient inferior to superior" ;</div>
<div> zspace:varid = "MINC standard variable" ;</div>
<div> zspace:length = 1 ;</div>
<div> zspace:step = 3. ;</div>
<div> int acquisition ;</div>
<div> acquisition:version = "MINC Version 1.0" ;</div>
<div> acquisition:scanning_sequence = "tse1-3" ;</div>
<div> acquisition:percent_phase_fov = 100. ;</div>
<div> acquisition:phase_enc_dir = "ROW " ;</div>
<div> acquisition:acquisition_id = "2" ;</div>
<div> acquisition:vartype = "group________" ;</div>
<div> acquisition:slice_thickness = 3. ;</div>
<div> acquisition:echo_number = 1. ;</div>
<div> acquisition:imaging_frequency = 40461870. ;</div>
<div> acquisition:injection_route = "" ;</div>
<div> acquisition:injection_minute = 0 ;</div>
<div> acquisition:window_width = 309. ;</div>
<div> acquisition:series_time = "163538.580000 " ;</div>
<div> acquisition:mr_acq_type = "2D" ;</div>
<div> acquisition:num_dyn_scans = 1. ;</div>
<div> acquisition:percent_sampling = 100. ;</div>
<div> acquisition:SAR = 0. ;</div>
<div> acquisition:injection_seconds = 0. ;</div>
<div> acquisition:series_description = "pdw " ;</div>
<div> acquisition:echo_train_length = 1. ;</div>
<div> acquisition:repetition_time = 2.76 ;</div>
<div> acquisition:acquisition_time = "163437.462833 " ;</div>
<div> acquisition:comments = "Anonymized" ;</div>
<div> acquisition:image_time = "163939.665000 " ;</div>
<div> acquisition:num_averages = 1. ;</div>
<div> acquisition:imaged_nucleus = "1H" ;</div>
<div> acquisition:flip_angle = 180. ;</div>
<div> acquisition:injection_day = 0 ;</div>
<div> acquisition:tracer = "�����" ;</div>
<div> acquisition:injection_hour = 0 ;</div>
<div> acquisition:injection_year = 0 ;</div>
<div> acquisition:varid = "MINC standard variable" ;</div>
<div> acquisition:injection_volume = 4.94065645841247e-323 ;</div>
<div> acquisition:injection_time = "\b" ;</div>
<div> acquisition:image_type = "DERIVED\\SECONDARY\\OTHER " ;</div>
<div> acquisition:start_time = "20090324 163029.686000 " ;</div>
<div> acquisition:window_center = 131. ;</div>
<div> acquisition:injection_month = 0 ;</div>
<div> acquisition:receive_coil = "CP Head " ;</div>
<div> acquisition:echo_time = 0.012 ;</div>
<div> int dicom_0x0008 ;</div>
<div> dicom_0x0008:el_0x0018 = "1.3.12.2.1107.5.2.2.9082.20090324163538000002004" ;</div>
<div> dicom_0x0008:el_0x0090 = "Anonymized" ;</div>
<div> dicom_0x0008:el_0x1090 = "MAGNETOM EXPERT " ;</div>
<div> dicom_0x0008:el_0x0021 = "20090324" ;</div>
<div> dicom_0x0008:vartype = "group________" ;</div>
<div> dicom_0x0008:el_0x0000 = 524 ;</div>
<div> dicom_0x0008:el_0x1010 = "Anonymized" ;</div>
<div> dicom_0x0008:el_0x0030 = "163029.686000 " ;</div>
<div> dicom_0x0008:el_0x0031 = "163538.580000 " ;</div>
<div> dicom_0x0008:el_0x0020 = "20090324" ;</div>
<div> dicom_0x0008:el_0x103e = "pdw " ;</div>
<div> dicom_0x0008:el_0x0080 = "Anonymized" ;</div>
<div> dicom_0x0008:el_0x0022 = "20090324" ;</div>
<div> dicom_0x0008:el_0x0060 = "MR" ;</div>
<div> dicom_0x0008:el_0x0016 = "1.2.840.10008.5.1.4.1.1.4" ;</div>
<div> dicom_0x0008:el_0x0070 = "SIEMENS " ;</div>
<div> dicom_0x0008:el_0x2111 = "Lossless JPEG compression, selection value 1, point transform 0, compression ratio 1.5987 " ;</div>
<div> dicom_0x0008:el_0x0050 = "Anonymized" ;</div>
<div> dicom_0x0008:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0008:el_0x0008 = "DERIVED\\SECONDARY\\OTHER " ;</div>
<div> dicom_0x0008:el_0x0005 = "ISO_IR 100" ;</div>
<div> dicom_0x0008:el_0x0023 = "20090324" ;</div>
<div> dicom_0x0008:el_0x0032 = "163437.462833 " ;</div>
<div> dicom_0x0008:el_0x0033 = "163939.665000 " ;</div>
<div> int dicom_0x0009 ;</div>
<div> dicom_0x0009:el_0x0010 = "SPI RELEASE 1 " ;</div>
<div> dicom_0x0009:vartype = "group________" ;</div>
<div> dicom_0x0009:el_0x1210 = "STANDARD" ;</div>
<div> dicom_0x0009:el_0x1227 = "163337.000000 " ;</div>
<div> dicom_0x0009:el_0x0000 = 332 ;</div>
<div> dicom_0x0009:el_0x1010 = "SPI VERSION 01.00 " ;</div>
<div> dicom_0x0009:el_0x1320 = "VC" ;</div>
<div> dicom_0x0009:el_0x0012 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0009:el_0x1041 = "MRUPNONE" ;</div>
<div> dicom_0x0009:el_0x1226 = "20090324" ;</div>
<div> dicom_0x0009:el_0x1213 = " 0" ;</div>
<div> dicom_0x0009:el_0x1214 = " 0" ;</div>
<div> dicom_0x0009:el_0x0013 = "SIEMENS CM VA0 LAB " ;</div>
<div> dicom_0x0009:el_0x1015 = "049S01MR012009032416400317" ;</div>
<div> dicom_0x0009:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0009:el_0x1316 = "728b43ed" ;</div>
<div> dicom_0x0009:el_0x1212 = 0b, 0b, 0b, 0b ;</div>
<div> dicom_0x0009:el_0x1040 = 0b, 0b ;</div>
<div> int dicom_0x0010 ;</div>
<div> dicom_0x0010:el_0x0010 = "ABC" ;</div>
<div> dicom_0x0010:vartype = "group________" ;</div>
<div> dicom_0x0010:el_0x0000 = 154 ;</div>
<div> dicom_0x0010:el_0x1010 = "Anonymized" ;</div>
<div> dicom_0x0010:el_0x0030 = "SA " ;</div>
<div> dicom_0x0010:el_0x1030 = "57" ;</div>
<div> dicom_0x0010:el_0x0040 = "Anonymized" ;</div>
<div> dicom_0x0010:el_0x0020 = "ABC" ;</div>
<div> dicom_0x0010:varid = "MNI DICOM variable" ;</div>
<div> int dicom_0x0011 ;</div>
<div> dicom_0x0011:el_0x0010 = "SPI RELEASE 1 " ;</div>
<div> dicom_0x0011:vartype = "group________" ;</div>
<div> dicom_0x0011:el_0x1123 = " 57" ;</div>
<div> dicom_0x0011:el_0x0000 = 126 ;</div>
<div> dicom_0x0011:el_0x1111 = "163029.686000 " ;</div>
<div> dicom_0x0011:el_0x1110 = "20090324" ;</div>
<div> dicom_0x0011:el_0x0011 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0011:varid = "MNI DICOM variable" ;</div>
<div> int dicom_0x0018 ;</div>
<div> dicom_0x0018:el_0x0086 = " 1" ;</div>
<div> dicom_0x0018:el_0x0021 = "NONE" ;</div>
<div> dicom_0x0018:el_0x1020 = "VB33G " ;</div>
<div> dicom_0x0018:el_0x0024 = "tse1-3" ;</div>
<div> dicom_0x0018:vartype = "group________" ;</div>
<div> dicom_0x0018:el_0x5100 = "HFS " ;</div>
<div> dicom_0x0018:el_0x1000 = " 9082" ;</div>
<div> dicom_0x0018:el_0x0000 = 420 ;</div>
<div> dicom_0x0018:el_0x0091 = "1 " ;</div>
<div> dicom_0x0018:el_0x0093 = "100 " ;</div>
<div> dicom_0x0018:el_0x0094 = "100 " ;</div>
<div> dicom_0x0018:el_0x0085 = "1H" ;</div>
<div> dicom_0x0018:el_0x0083 = "1 " ;</div>
<div> dicom_0x0018:el_0x1314 = "180 " ;</div>
<div> dicom_0x0018:el_0x0087 = "0.9500702 " ;</div>
<div> dicom_0x0018:el_0x1201 = "153242.000000 " ;</div>
<div> dicom_0x0018:el_0x0020 = "RM" ;</div>
<div> dicom_0x0018:el_0x0080 = "002.760000E+03" ;</div>
<div> dicom_0x0018:el_0x1312 = "ROW " ;</div>
<div> dicom_0x0018:el_0x0050 = "003.000000E+00" ;</div>
<div> dicom_0x0018:el_0x1310 = 0s, 256s, 252s, 0s ;</div>
<div> dicom_0x0018:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0018:el_0x1250 = "CP Head " ;</div>
<div> dicom_0x0018:el_0x1316 = "0 " ;</div>
<div> dicom_0x0018:el_0x0023 = "2D" ;</div>
<div> dicom_0x0018:el_0x0081 = "001.200000E+01" ;</div>
<div> dicom_0x0018:el_0x1200 = "20050304" ;</div>
<div> dicom_0x0018:el_0x0025 = "N " ;</div>
<div> dicom_0x0018:el_0x0088 = "0 " ;</div>
<div> dicom_0x0018:el_0x0084 = "004.046187E+01" ;</div>
<div> int dicom_0x0019 ;</div>
<div> dicom_0x0019:el_0x1296 = 1b, 39b, 0b, 0b, 1b, 39b, 0b, 0b, 2b, 0b, 0b, 0b ;</div>
<div> dicom_0x0019:el_0x14d6 = " 0" ;</div>
<div> dicom_0x0019:el_0x14a6 = "001.000000E+02\\04.348140E+00\\04.422564E+00" ;</div>
<div> dicom_0x0019:el_0x1455 = "001.022977E+02" ;</div>
<div> dicom_0x0019:el_0x1482 = "002.000000E+02" ;</div>
<div> dicom_0x0019:el_0x1285 = "NONE " ;</div>
<div> dicom_0x0019:el_0x14a2 = "001.034203E+00" ;</div>
<div> dicom_0x0019:el_0x1245 = " 1" ;</div>
<div> dicom_0x0019:el_0x1422 = "002.700000E+01" ;</div>
<div> dicom_0x0019:el_0x0010 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0019:el_0x1020 = "EXAMNONE" ;</div>
<div> dicom_0x0019:vartype = "group________" ;</div>
<div> dicom_0x0019:el_0x14a0 = " 1" ;</div>
<div> dicom_0x0019:el_0x1211 = "002.388881E+02" ;</div>
<div> dicom_0x0019:el_0x1294 = "001.570796E+00" ;</div>
<div> dicom_0x0019:el_0x1471 = "004.698000E+00" ;</div>
<div> dicom_0x0019:el_0x14d3 = "001.000000E+00" ;</div>
<div> dicom_0x0019:el_0x1060 = "131072" ;</div>
<div> dicom_0x0019:el_0x1297 = 64b, 8b, -64b, 1b, -22b, -76b, -1b, -1b ;</div>
<div> dicom_0x0019:el_0x1210 = "002.388881E+02" ;</div>
<div> dicom_0x0019:el_0x1472 = "008.000000E+00" ;</div>
<div> dicom_0x0019:el_0x0000 = 1900 ;</div>
<div> dicom_0x0019:el_0x1231 = " 256" ;</div>
<div> dicom_0x0019:el_0x14da = "PLUSX " ;</div>
<div> dicom_0x0019:el_0x1228 = " -126" ;</div>
<div> dicom_0x0019:el_0x0015 = "SIEMENS CM VA0 ACQU" ;</div>
<div> dicom_0x0019:el_0x1010 = " 50" ;</div>
<div> dicom_0x0019:el_0x14d2 = "NONE" ;</div>
<div> dicom_0x0019:el_0x0012 = "SIEMENS MR VA0 GEN " ;</div>
<div> dicom_0x0019:el_0x1451 = "005.500000E+01" ;</div>
<div> dicom_0x0019:el_0x14a5 = "001.500000E+00\\05.203557E-02\\00.000000E+00" ;</div>
<div> dicom_0x0019:el_0x1230 = " 256" ;</div>
<div> dicom_0x0019:el_0x0014 = "SIEMENS MR VA0 COAD" ;</div>
<div> dicom_0x0019:el_0x1226 = " 125" ;</div>
<div> dicom_0x0019:el_0x1512 = "SIEMENS " ;</div>
<div> dicom_0x0019:el_0x1421 = " 2" ;</div>
<div> dicom_0x0019:el_0x1030 = "A IRS " ;</div>
<div> dicom_0x0019:el_0x1414 = "001.000000E+01" ;</div>
<div> dicom_0x0019:el_0x1213 = "002.000000E+01" ;</div>
<div> dicom_0x0019:el_0x1260 = "001.800000E+02" ;</div>
<div> dicom_0x0019:el_0x1298 = "000.000000E+00\\00.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0019:el_0x14d5 = " 0" ;</div>
<div> dicom_0x0019:el_0x1456 = " 25000" ;</div>
<div> dicom_0x0019:el_0x1454 = "-01.000000E+00" ;</div>
<div> dicom_0x0019:el_0x1240 = " 0" ;</div>
<div> dicom_0x0019:el_0x1460 = "006.025031E-01" ;</div>
<div> dicom_0x0019:el_0x1420 = "001.660000E+02" ;</div>
<div> dicom_0x0019:el_0x1470 = "004.698000E+00" ;</div>
<div> dicom_0x0019:el_0x1424 = "003.908454E+01" ;</div>
<div> dicom_0x0019:el_0x1510 = "/usr/appl/proto/014/c/head/LAQ302/PDW_AX.prg" ;</div>
<div> dicom_0x0019:el_0x1290 = " 0" ;</div>
<div> dicom_0x0019:el_0x1480 = "001.430000E+02\\01.570000E+02\\01.450000E+02" ;</div>
<div> dicom_0x0019:el_0x1221 = " 252" ;</div>
<div> dicom_0x0019:el_0x1450 = "008.900000E+01" ;</div>
<div> dicom_0x0019:el_0x1220 = " 252" ;</div>
<div> dicom_0x0019:el_0x1426 = "006.584084E+01" ;</div>
<div> dicom_0x0019:el_0x1214 = " 1" ;</div>
<div> dicom_0x0019:el_0x14d8 = " 129" ;</div>
<div> dicom_0x0019:el_0x1216 = 1b, 1b, 69b, 0b, 64b, 0b, 0b, 0b ;</div>
<div> dicom_0x0019:el_0x1281 = "NONE " ;</div>
<div> dicom_0x0019:el_0x1511 = "/usr/appl/sequence/tse3_12b195.wfc" ;</div>
<div> dicom_0x0019:el_0x1287 = "NONE " ;</div>
<div> dicom_0x0019:el_0x14d4 = " 256" ;</div>
<div> dicom_0x0019:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0019:el_0x1218 = -67b, -31b, 2b, 54b ;</div>
<div> dicom_0x0019:el_0x1412 = "009.500702E-01" ;</div>
<div> dicom_0x0019:el_0x1250 = " 1" ;</div>
<div> dicom_0x0019:el_0x1452 = "005.500000E+01" ;</div>
<div> dicom_0x0019:el_0x1283 = "NONE " ;</div>
<div> dicom_0x0019:el_0x14b0 = 0b, 0b, 0b, 0b ;</div>
<div> dicom_0x0019:el_0x1270 = " 1" ;</div>
<div> dicom_0x0019:el_0x1212 = "003.979688E-43" ;</div>
<div> dicom_0x0019:el_0x1050 = " 0" ;</div>
<div> dicom_0x0019:el_0x14d7 = " 129" ;</div>
<div> dicom_0x0019:el_0x1513 = "tse1-3" ;</div>
<div> dicom_0x0019:el_0x14d9 = " 1" ;</div>
<div> dicom_0x0019:el_0x14d1 = "000.000000E+00" ;</div>
<div> dicom_0x0019:el_0x1416 = "001.542969E+00\\09.765625E-02" ;</div>
<div> dicom_0x0019:el_0x1462 = "006.281846E-01" ;</div>
<div> int dicom_0x0020 ;</div>
<div> dicom_0x0020:el_0x4000 = "Anonymized" ;</div>
<div> dicom_0x0020:el_0x0010 = "0 " ;</div>
<div> dicom_0x0020:vartype = "group________" ;</div>
<div> dicom_0x0020:el_0x000d = "1.3.12.2.1107.5.2.2.9082.20090324163029000" ;</div>
<div> dicom_0x0020:el_0x0000 = 526 ;</div>
<div> dicom_0x0020:el_0x0012 = " 1" ;</div>
<div> dicom_0x0020:el_0x1041 = "-01.020065E+02" ;</div>
<div> dicom_0x0020:el_0x0030 = "-01.245117E+02\\-1.051755E+02\\01.115978E+02" ;</div>
<div> dicom_0x0020:el_0x1001 = " 1" ;</div>
<div> dicom_0x0020:el_0x0013 = " 4" ;</div>
<div> dicom_0x0020:el_0x000e = "1.3.12.2.1107.5.2.2.9082.20090324163538000002" ;</div>
<div> dicom_0x0020:el_0x0011 = " 2" ;</div>
<div> dicom_0x0020:el_0x0070 = "PLANAR" ;</div>
<div> dicom_0x0020:el_0x0050 = "-01.020065E+02" ;</div>
<div> dicom_0x0020:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0020:el_0x0052 = "1.3.12.2.1107.5.2.2.9082.20090324163337000" ;</div>
<div> dicom_0x0020:el_0x0032 = "-125\\-105.66192\\111.64036 " ;</div>
<div> dicom_0x0020:el_0x0035 = "001.000000E+00\\-0.000000E+00\\-0.000000E+00\\00.000000E+00\\09.961947E-01\\-8.715570E-02" ;</div>
<div> dicom_0x0020:el_0x0037 = "1\\-0\\-0\\0\\0.9961947\\-0.0871557" ;</div>
<div> int dicom_0x0021 ;</div>
<div> dicom_0x0021:el_0x1163 = "-01.020065E+02" ;</div>
<div> dicom_0x0021:el_0x1124 = "000.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1331 = " 0" ;</div>
<div> dicom_0x0021:el_0x0010 = "SIEMENS MED " ;</div>
<div> dicom_0x0021:el_0x1020 = 0b, 0b ;</div>
<div> dicom_0x0021:el_0x1120 = "002.500000E+02\\02.500000E+02" ;</div>
<div> dicom_0x0021:vartype = "group________" ;</div>
<div> dicom_0x0021:el_0x1130 = "HEAD" ;</div>
<div> dicom_0x0021:el_0x1344 = "000.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1322 = " 0" ;</div>
<div> dicom_0x0021:el_0x1170 = "R \\AH\\HP " ;</div>
<div> dicom_0x0021:el_0x2308 = "000.000000E+00\\00.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0021:el_0x2304 = "000.000000E+00\\00.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0021:el_0x0000 = 1512 ;</div>
<div> dicom_0x0021:el_0x1342 = " 1" ;</div>
<div> dicom_0x0021:el_0x2303 = "002.500000E+04" ;</div>
<div> dicom_0x0021:el_0x2309 = "000.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1334 = " 0" ;</div>
<div> dicom_0x0021:el_0x1182 = "MEA " ;</div>
<div> dicom_0x0021:el_0x1341 = " 60" ;</div>
<div> dicom_0x0021:el_0x116b = "000.000000E+00\\-9.961947E-01\\08.715570E-02" ;</div>
<div> dicom_0x0021:el_0x2300 = "IMAG" ;</div>
<div> dicom_0x0021:el_0x2310 = "004.095000E+03" ;</div>
<div> dicom_0x0021:el_0x1370 = " 1" ;</div>
<div> dicom_0x0021:el_0x1350 = 0b, 0b, 0b, 0b ;</div>
<div> dicom_0x0021:el_0x1126 = " 0" ;</div>
<div> dicom_0x0021:el_0x2331 = "005.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01\\05.500000E+01"
;</div>
<div> dicom_0x0021:el_0x2305 = "000.000000E+00\\00.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1165 = 5b, 0b ;</div>
<div> dicom_0x0021:el_0x1356 = "002.760000E+03" ;</div>
<div> dicom_0x0021:el_0x2301 = " 256" ;</div>
<div> dicom_0x0021:el_0x116a = "001.000000E+00\\00.000000E+00\\00.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1324 = " 0" ;</div>
<div> dicom_0x0021:el_0x1160 = "000.000000E+00\\-1.886242E+01\\-1.007459E+02" ;</div>
<div> dicom_0x0021:el_0x2307 = " 252\\ 256\\ 0" ;</div>
<div> dicom_0x0021:el_0x0013 = "SIEMENS MR VA0 GEN " ;</div>
<div> dicom_0x0021:el_0x1161 = "-00.000000E+00\\08.715570E-02\\09.961947E-01" ;</div>
<div> dicom_0x0021:el_0x1171 = "L \\PF\\FA " ;</div>
<div> dicom_0x0021:el_0x0011 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0021:el_0x1330 = " 0" ;</div>
<div> dicom_0x0021:el_0x2306 = " 252\\ 256\\ 0" ;</div>
<div> dicom_0x0021:el_0x1132 = "HEAD" ;</div>
<div> dicom_0x0021:el_0x1339 = "003.000000E+00" ;</div>
<div> dicom_0x0021:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0021:el_0x0023 = "SIEMENS MR VA0 RAW " ;</div>
<div> dicom_0x0021:el_0x1340 = " 60" ;</div>
<div> dicom_0x0021:el_0x2302 = " 256" ;</div>
<div> dicom_0x0021:el_0x1122 = "001.000000E+00" ;</div>
<div> dicom_0x0021:el_0x1343 = " 1" ;</div>
<div> dicom_0x0021:el_0x134f = "INTERLEAVED " ;</div>
<div> int dicom_0x0028 ;</div>
<div> dicom_0x0028:el_0x0010 = 256s ;</div>
<div> dicom_0x0028:vartype = "group________" ;</div>
<div> dicom_0x0028:el_0x0004 = "MONOCHROME2 " ;</div>
<div> dicom_0x0028:el_0x0103 = 0s ;</div>
<div> dicom_0x0028:el_0x0000 = 184 ;</div>
<div> dicom_0x0028:el_0x0100 = 16s ;</div>
<div> dicom_0x0028:el_0x0102 = 11s ;</div>
<div> dicom_0x0028:el_0x0030 = "009.765625E-01\\09.765625E-01" ;</div>
<div> dicom_0x0028:el_0x0200 = 32736s ;</div>
<div> dicom_0x0028:el_0x0040 = "RECT" ;</div>
<div> dicom_0x0028:el_0x0011 = 256s ;</div>
<div> dicom_0x0028:varid = "MNI DICOM variable" ;</div>
<div> dicom_0x0028:el_0x0101 = 12s ;</div>
<div> dicom_0x0028:el_0x1050 = "131\\ 131 " ;</div>
<div> dicom_0x0028:el_0x1051 = "309\\ 309 " ;</div>
<div> dicom_0x0028:el_0x0002 = 1s ;</div>
<div> int dicom_0x0029 ;</div>
<div> dicom_0x0029:el_0x1120 = "Anonymized" ;</div>
<div> dicom_0x0029:vartype = "group________" ;</div>
<div> dicom_0x0029:el_0x0000 = 92 ;</div>
<div> dicom_0x0029:el_0x1110 = "STD 1 " ;</div>
<div> dicom_0x0029:el_0x1152 = " 1" ;</div>
<div> dicom_0x0029:el_0x0011 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0029:varid = "MNI DICOM variable" ;</div>
<div> int dicom_0x0051 ;</div>
<div> dicom_0x0051:el_0x0010 = "SIEMENS CM VA0 CMS " ;</div>
<div> dicom_0x0051:vartype = "group________" ;</div>
<div> dicom_0x0051:el_0x0000 = 366 ;</div>
<div> dicom_0x0051:el_0x1010 = "CDE\\F 59Y\\H-SP-CR\\IMAGE 4\\\\24-MAR-2009\\16:35\\TA 03:58\\AC 1\\\\\\CTO,, C\\VB33G\\ 252 *256 s\\tse1-3 180\\SCAN 1\\TR 2760.0\\TE 12.0/1\\\\?\\?\\SL 3.0\\SP -102.0\\Tra>Cor -5\\\\FoV
250*250\\?\\?\\TP 0\\?\\?\\?\\?\\SER 1-2\\\\01-JAN-1900\\*\\\\STU/IMA 2/4\\\\MAGNETOM EXPERT\\ABC\\16:35:39 " ;</div>
<div> dicom_0x0051:varid = "MNI DICOM variable" ;</div>
<div> int dicom_groups ;</div>
<div> dicom_groups:vartype = "group________" ;</div>
<div> dicom_groups:varid = "MNI DICOM variable" ;</div>
<div> int dicominfo ;</div>
<div> dicominfo:vartype = "group________" ;</div>
<div> dicominfo:window_min = -138.5 ;</div>
<div> dicominfo:varid = "MNI DICOM information variable" ;</div>
<div> dicominfo:window_max = 2072.5 ;</div>
<div> dicominfo:image_type = "DERIVED\\SECONDARY\\OTHER " ;</div>
<div> int patient ;</div>
<div> patient:version = "MINC Version 1.0" ;</div>
<div> patient:full_name = "ABC" ;</div>
<div> patient:vartype = "group________" ;</div>
<div> patient:weight = 57. ;</div>
<div> patient:birthdate = "SA " ;</div>
<div> patient:position = "HFS " ;</div>
<div> patient:identification = "ABC" ;</div>
<div> patient:varid = "MINC standard variable" ;</div>
<div> int study ;</div>
<div> study:serial_no = " 9082" ;</div>
<div> study:station_id = "Anonymized" ;</div>
<div> study:study_id = "20090324.163029" ;</div>
<div> study:software_version = "VB33G " ;</div>
<div> study:version = "MINC Version 1.0" ;</div>
<div> study:vartype = "group________" ;</div>
<div> study:calibration_time = "153242.000000 " ;</div>
<div> study:institution = "Anonymized" ;</div>
<div> study:modality = "MRI__" ;</div>
<div> study:start_date = "20090324" ;</div>
<div> study:device_model = "MAGNETOM EXPERT " ;</div>
<div> study:field_value = 0.9500702 ;</div>
<div> study:referring_physician = "Anonymized" ;</div>
<div> study:varid = "MINC standard variable" ;</div>
<div> study:calibration_date = "20050304" ;</div>
<div> study:manufacturer = "SIEMENS " ;</div>
<div> study:start_time = "163029.686000 " ;</div>
<div><br>
</div>
<div>// global attributes:</div>
<div> :ident = "lorisadmin:ipmsa-loris:2020.06.17.13.06.07:29187:1" ;</div>
<div> :minc_version = "2.4.02" ;</div>
<div> :history = "Wed Jun 17 13:06:05 2020>>> dcm2mnc Dicom-pdw/ .\n",</div>
<div> "" ;</div>
<div>data:</div>
<div><br>
</div>
<div> image-min = 0 ;</div>
<div><br>
</div>
<div> image-max = 1991 ;</div>
<div><br>
</div>
<div> xspace = 0 ;</div>
<div><br>
</div>
<div> yspace = 0 ;</div>
<div><br>
</div>
<div> zspace = -74.9935092017673 ;</div>
<div><br>
</div>
<div> acquisition = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0008 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0009 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0010 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0011 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0018 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0019 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0020 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0021 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0028 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0029 = 0 ;</div>
<div><br>
</div>
<div> dicom_0x0051 = 0 ;</div>
<div><br>
</div>
<div> dicom_groups = 0 ;</div>
<div><br>
</div>
<div> dicominfo = 0 ;</div>
<div><br>
</div>
<div> patient = 0 ;</div>
<div><br>
</div>
<div> study = 0 ;</div>
<div>} </div>
<div>===</div>
<p></p>
<p>The information in this e-mail is intended only for the person to whom it is<br>
addressed. If you believe this e-mail was sent to you in error and the e-mail<br>
contains patient information, please contact the Partners Compliance HelpLine at<br>
<a href="http://www.partners.org/complianceline" target="_blank">http://www.partners.org/complianceline</a> . If the e-mail was sent to you in error<br>
but does not contain patient information, please contact the sender and properly<br>
dispose of the e-mail.</p></div>
_______________________________________________<br>
Loris-dev mailing list<br>
<a href="mailto:Loris-dev@bic.mni.mcgill.ca" target="_blank">Loris-dev@bic.mni.mcgill.ca</a><br>
<a href="https://mailman.bic.mni.mcgill.ca/mailman/listinfo/loris-dev" rel="noreferrer" target="_blank">https://mailman.bic.mni.mcgill.ca/mailman/listinfo/loris-dev</a><br>
</blockquote></div>