Hi Pedro you are *far* better off avoiding the analyze format. If you must convert, try nifti, but in general we prefer starting with the dicoms directly. If you give recon-all a *single* image file in the correct (T1-weighted) dicom series we will figure out the other ones
cheers Bruce On Wed, 11 Sep 2013, Pedro Rosa wrote: > Hi, > I am finding a warning at recon-all when creating the folders: > INFO: could not find /Path/subject.mat file for direction cosine info. > INFO: use Analyze 7.5 hdr->hist.orient value: 1, coronal unflipped. > INFO: if not valid, please provide the information in /Path/subject.mat file > > What are the consequences of this to image orientation or to registration in > further steps? > I have sorted the DICOMs using MRIcron (generates .img and .hdr for T1 > acquisition). > Regards, > Pedro. > > _______________________________________________ > 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 . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
