Hi Sam, you can try like this below,
umount cdrecorder cd dicom;ls cd ######; ls output will be 2 strings of numbers unpacksdcmdir src /mnt/cdrom/dicom/INITIAL#/1STof2#s -targ ./ scanonly unpacklog Repeat command line with second number Make a cfg.file Save as cfg.file in SUBJECTs folder then again rpeat above commands with the cfg flag, unpacksdcmdir src /mnt/cdrom/dicom/INITIAL#/1STof2#s -targ ./ cfg /path to cfg.file > Hello, > > My name is Sam Enumah and I am an undergraduate working in the A.A. > Martinos > Imaging Center at MGH Navy Yard. I have become familiar with Freesurfer's > tkmedit function and I am able to analyze my data once I am given a set of > 144 MR dicom files. While the mri_convert tool works for the dicom files > that are on the local machine, I cannot seem to get it to work for the > files > I have tried to retrieve from a CD. The files on my local host machine > all > display the extension ".dcm" while the files from the CD do not display > a > file extension and are files with names that consist of 8 unique numbers > (e.g 48480095) > > As you may know, when running mri_convert, the user need only input one of > the files in a series and it recognizes all the other files and creates > the > desired output (in this case the ".nii" file type to be read by tkmedit). > However, when I tried to input these 8 digit file names into mri_convert, > I > received the following error: > > [gordo:12250000] (nmr-std-env) mri_convert 48480995.dcm adc.nii > mri_convert 48480995.dcm adc.nii > $Id: mri_convert.c,v 1.146.2.3 2008/08/11 22:18:58 nicks Exp $ > reading from 48480995.dcm... > Starting DICOMRead2() > dcmfile = > /autofs/homes/014/xmlentz/Desktop/dicom/08110217/12250000/48480995.dcmdcmdir > = /autofs/homes/014/xmlentz/Desktop/dicom/08110217/12250000 > Ref Series No = 805 > ERROR: bits = 8 not supported. > Send email to freesurfer@nmr.mgh.harvard.edu > > I tried > "mri_convert <filename> --in_type ge adc.nii" > but kept getting the error: > genesisRead(): can't determine file name format > > Essentially, my problem is that I have roughly 1000 dicom files (as > evidenced by command "file" in terminal) without an identifiable extension > and I need to find a way to change these into one of any of the set > MR001.dcm - MR144.dcm to be read by mri_convert. > > As it stands now, I don't know what series (average DC, isotropic, FA, > etc.) > these 8 digit numbers correspond to so I'm unsure of how to proceed. > Suggestions? > > Thanks for your time. > > -Sam > > -- > Sam Enumah > Harvard College Class of 2010 > Concentrator in Neurobiology > senu...@fas.harvard.edu > _______________________________________________ > 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
