Hi Doug, It is still an issue. I uploaded the DICOMs to you. Hope it could be useful. Thanks.
Ismail > On Jul 18, 2016, at 6:14 PM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> > wrote: > > Is this still a problem? If so, can you upload the dicom files to our > file drop? > > On 07/05/2016 11:24 AM, Koubiyr, Ismail wrote: >> The file has not been anonymized. >> >> Thanks, >> >> Ismail >> >>> On Jul 5, 2016, at 11:20 AM, Douglas N Greve <gr...@nmr.mgh.harvard.edu> >>> wrote: >>> >>> can you answer the question that it asks? >>> >>> On 07/05/2016 10:52 AM, Koubiyr, Ismail wrote: >>>> Hi everyone, >>>> >>>> I’m having some issues converting my DICOMs (DWI) into NIFTI using >>>> mri_convert. I looked for other topics with people having the same >>>> kind of problem but couldn’t find an answer. >>>> >>>> Each time I run mri_convert on my DICOMs I get the following error : >>>> WARNING: file MR.1.3.12.2.1107.5.2.19.45306.2014091812330393354083931 >>>> does not contain a Siemens ASCII header >>>> has this file been anonymized? >>>> ERROR: cannot unpack mosiacs without ASCII header >>>> >>>> Here are the following DICOMs informations : >>>> Identification >>>> NumarisVer syngo MR D13 >>>> ScannerModel Skyra >>>> PatientName xxxxx >>>> Date and time >>>> StudyDate 20140918 >>>> StudyTime 121037.203000 >>>> SeriesTime 123450.600000 >>>> AcqTime 123257.367500 >>>> Acquisition parameters >>>> PulseSeq ep_b0 >>>> Protocol AX DTI no angle MS NEX 4 2 >>>> PhEncDir COL >>>> EchoNo 1 >>>> FlipAngle 90 >>>> EchoTime 96 >>>> InversionTime -1 >>>> RepetitionTime 4700 >>>> PhEncFOV 0 >>>> ReadoutFOV 0 >>>> Image information >>>> RunNo 4 >>>> SeriesNo 5 >>>> ImageNo 1 >>>> NImageRows 990 >>>> NImageCols 990 >>>> NFrames 64 >>>> SliceArraylSize 0 >>>> IsMosaic 1 >>>> ImgPos 1075.1575 1069.8385 -48.6769 >>>> VolRes 2.1818 2.1818 2.0000 >>>> VolDim 0 0 0 >>>> Vc -1.0000 -0.0000 0.0000 >>>> Vr -0.0000 -1.0000 0.0000 >>>> Vs 0.0000 0.0000 0.0000 >>>> VolCenter 0.0000 0.0000 0.0000 >>>> TransferSyntaxUID 1.2.840.10008.1.2.1 >>>> >>>> >>>> Then I try using mri_convert -it dicom, it converts the files but not >>>> as it is expected, you could notice the difference when I run mri_info >>>> on my output : >>>> Volume information for output.nii.gz >>>> type: nii >>>> dimensions: 990 x 990 x 1 x 64 >>>> voxel sizes: 2.1818, 2.1818, 2.0000 >>>> type: SHORT (4) >>>> fov: 2160.000 >>>> dof: 0 >>>> xstart: -1080.0, xend: 1080.0 >>>> ystart: -1080.0, yend: 1080.0 >>>> zstart: -1.0, zend: 1.0 >>>> TR: 4700.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip >>>> angle: 0.00 degrees >>>> nframes: 64 >>>> PhEncDir: UNKNOWN >>>> ras xform present >>>> xform info: x_r = -1.0000, y_r = -0.0000, z_r = -0.0000, c_r = >>>> -4.8425 >>>> : x_a = -0.0000, y_a = -1.0000, z_a = -0.0000, c_a = >>>> -10.1615 >>>> : x_s = 0.0000, y_s = 0.0000, z_s = 1.0000, c_s = >>>> -47.6769 >>>> Orientation : LPS >>>> Primary Slice Direction: axial >>>> >>>> voxel to ras transform: >>>> -2.1818 -0.0000 -0.0000 1075.1575 >>>> -0.0000 -2.1818 -0.0000 1069.8385 >>>> 0.0000 0.0000 2.0000 -48.6769 >>>> 0.0000 0.0000 0.0000 1.0000 >>>> >>>> voxel-to-ras determinant 9.52066 >>>> >>>> ras to voxel transform: >>>> -0.4583 0.0000 0.0000 492.7805 >>>> 0.0000 -0.4583 0.0000 490.3426 >>>> -0.0000 -0.0000 0.5000 24.3384 >>>> 0.0000 0.0000 0.0000 1.0000 >>>> >>>> I would really appreciate your help, thank you. >>>> >>>> Best, >>>> >>>> Ismail >>>> >>>> >>>> >>>> _______________________________________________ >>>> Freesurfer mailing list >>>> Freesurfer@nmr.mgh.harvard.edu >>>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >>> -- >>> Douglas N. Greve, Ph.D. >>> MGH-NMR Center >>> gr...@nmr.mgh.harvard.edu >>> Phone Number: 617-724-2358 >>> Fax: 617-726-7422 >>> >>> Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting >>> FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 >>> www.nmr.mgh.harvard.edu/facility/filedrop/index.html >>> Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ >>> >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > > -- > Douglas N. Greve, Ph.D. > MGH-NMR Center > gr...@nmr.mgh.harvard.edu > Phone Number: 617-724-2358 > Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > FileDrop: https://gate.nmr.mgh.harvard.edu/filedrop2 > www.nmr.mgh.harvard.edu/facility/filedrop/index.html > Outgoing: ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat/greve/ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . 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