also, i think the '/' char is missing before 'home', ie /home/s09.... On Mon, 2010-02-22 at 10:26 -0500, Sita Kakunoori wrote: > Hi Jan, > > Please try rerunning recon-all after removing the spaces or special > characters (if there are any) in the dicom files. > > Sita. > > > > On Mon, 22 Feb 2010, Janani Dhinakaran wrote: > > > Is this what you meant: > > > > First I tried > > s0964...@cric-0012:~$ recon-all > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM > > ERROR: Flag > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM > > unrecognized. > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM > > Linux CRIC-0012 2.6.31-19-generic #56-Ubuntu SMP Thu Jan 28 02:39:34 UTC > > 2010 x86_64 GNU/Linux > > > > recon-all exited with ERRORS at Mon Feb 22 14:39:27 GMT 2010 > > > > Then I tried putting full path in front of both file sets > > > > > > s0964...@cric-0012:~$ recon-all -i > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM/Dhinakaran^Janani^-0002-0001-00001.dcm > > -i > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM/Dhinakaran^Janani^-0004-0001-00001.dcm > > -s subj001 > > ERROR: cannot find > > home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM/Dhinakaran^Janani^-0002-0001-00001.dcm > > Linux CRIC-0012 2.6.31-19-generic #56-Ubuntu SMP Thu Jan 28 02:39:34 UTC > > 2010 x86_64 GNU/Linux > > > > recon-all exited with ERRORS at Mon Feb 22 14:41:36 GMT 2010 > > > > Jan > > > > > > On 22 February 2010 14:30, Xue, Feng <xfga...@gmail.com> wrote: > > > >> Try with full path, e.g. > >> /home/s0964091/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM > >> > >> On Mon, Feb 22, 2010 at 7:36 PM, Janani Dhinakaran > >> <janinthe...@gmail.com> wrote: > >>> Hello, > >>> I ran recon-all on Friday. It ran for around a minute instead of 30-48 > >>> hours. Unfortunately, when I try tkmedit and other such commands, the > >>> pictures don't visualise. > >>> So today I first confirmed that the SUBJECTS_DIR was in Desktop path. > >>> (Because over the weekend it had gone back to usr/local... path and so I > >>> re-exported it just now.) > >>> Then I tried running recon-all again. > >>> > >>> > >>> s0964...@cric-0012 > >> :~/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM$ > >>> echo $SUBJECTS_DIR > >>> Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM > >>> s0964...@cric-0012 > >> :~/Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM$ > >>> recon-all -i Dhinakaran^Janani^-0002-0001-00001.dcm -i > >>> Dhinakaran^Janani^-0004-0001-00001.dcm -s subj001 > >>> ERROR: SUBJECTS_DIR > >>> Desktop/Allimages/MRIscan/janani/CRIC-0014_5679.adb.DICOM does not exist. > >>> > >>> Can anyone help me understand what I can do? > >>> Thanks > >>> Jan > >>> -- > >>> I am the Sun, I know no darkness. > >>> > >>> _______________________________________________ > >>> Freesurfer mailing list > >>> Freesurfer@nmr.mgh.harvard.edu > >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >>> > >> > >> > >> > >> -- > >> Best Regards > >> > >> Xue, Feng Phd. candidate > >> Major in Developmental Cognitive Neuroscience > >> > >> National Key Laboratory of Cognitive Neuroscience and Learning > >> Beijing Normal University > >> Beijing, China. 100875 > >> Tel: +86-13810154455 > >> web: http://psychbrain.bnu.edu.cn > >> ============================================== > >> Welcome to MuDuo JinSheng BBS @ Beijing Normal University > >> telnet://bbs.mdjs.org > >> http://bbs.mdjs.org > >> > > > > > > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >
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