Sasha, You can securely upload files to us by following the instructions at this site:
https://www.nmr.mgh.harvard.edu/facility/filedrop/index.html Nick On Mon, 2005-08-29 at 17:45 -0400, Doug Greve wrote: > It looks like there's something "messed up" with your dicom file. We > have success converting GE and Siemens, but I've never tried Philips > before. Can you tar it up or put it some place where I can get it? > > > > > Sasha Wolosin wrote: > > >Sorry to send this twice, but I should have elaborated: > > > >I am trying to convert files to mgz format. I was able to run mri_convert, > >but when I run csurf and attempt to open the orig volume, I get the error: > > > >"First orig image: > >/freesurfer/subjects/2332/mri/orig/COR-001 not found" > > > >Does anyone know why this may happen? > > > >Here is the command and output: > > > >[EMAIL PROTECTED] /freesurfer]# cd subjects/2332/mri/orig > >[EMAIL PROTECTED] orig]# ls > >2332_analyze 2332_crsg > >[EMAIL PROTECTED] orig]# mri_convert -it dicom -ot mgz 2332_crsg/001 001.mgz > >mri_convert -it dicom -ot mgz 2332_crsg/001 001.mgz > >reading from 2332_crsg/001... > >124 DICOM 3.0 files in list > >Found 124 DICOM Files > >WARNING: NumberOfFrames 0 != Found Count of slices 124. > >reading DICOM image... > >------------------------------------------------- > >DICOM meta-header > > > >file name 2332_crsg/001 > >Date and time > > study date 20030630 > > study time 101639.0000 > > series time 104735.12 > > acquisition time 104735.12 > >Identification > > patient name ... > > manufacturer Philips Medical Systems > >Dimensions > > number of rows 256 > > number of columns 256 > > number of frames 124 > > pixel width 0.9375 > > pixel height 0.9375 > > slice thickness 1.5 > > field of view 240 > > image number 1 (might be not reliable) > >Acquisition parameters > > echo time 6.00003 > > repetition time 35 > > inversion time not found > > echo number 1 > > flip angle 0.785398 > > bits allocated 16 > >Spatial information > > first image position -114.756 -101.936 133.356 > > last image position -126.115 82.1994 135.698 > > image orientation 0.998088 0.0614863 0.00638348 0.00559035 > > 0.0130627 -0.999899 > >------------------------------------------------- > > > >TR=35.00, TE=6.00, TI=0.00, flip angle=45.00 > >i_ras = (-0.998088, -0.0614863, 0.00638348) > >j_ras = (-0.00559035, -0.0130627, -0.999899) > >k_ras = (0.0615663, -0.998022, 0.0126937) > >writing to 001.mgz... > >[EMAIL PROTECTED] orig]# csurf > > > >Thanks, > >Sasha > > > >Sasha Wolosin > >Research Assistant > >Developmental Cognitive Neurology > >Kennedy Krieger Institute > >707 N. Broadway > >Baltimore, MD 21205 > >ph: (443) 923-9270 > > > > > > > >Disclaimer: > >The materials in this e-mail are private and may contain Protected Health > >Information. Please note that e-mail is not necessarily confidential or > >secure. Your use of e-mail constitutes your acknowledgment of these > >confidentiality and security limitations. If you are not the intended > >recipient, be advised that any unauthorized use, disclosure, copying, > >distribution, or the taking of any action in reliance on the contents of > >this information is strictly prohibited. If you have received this e-mail in > >error, please immediately notify the sender via telephone or return e-mail. > > > >_______________________________________________ > >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
