Hi Peng
it looks like we can't read your input dicom. For example, the log says: reading from /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm... Starting DICOMRead2() dcmfile = /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm dcmdir = /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283 WARNING: tag ImageNumber not found in /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm WARNING: tag SeriesNumber not found in /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm WARNING: tag image orientation not found in /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm Ref Series No = 0 Found 5 files, checking for dicoms WARNING: tag ImageNumber not found in /Users/Peng/Documents/MNE/MNE_analysis/MRI/R2261_S0283/m000-gm_A0136_N12518_S0283_20120817_P5716_averageCBF_normalized.dcm
where did that dicom file come from? And is it supposed to be a T1-weighted volume like an mprage or FLASH scan?
cheers Bruce
On Wed, 9 Dec 2015, Peng Zan wrote:
Dear freesurfer expert, I am a student from University of Maryland, learning freesurfer for MNE analysis recently. I have a perhaps silly problem and could not solve by myself. The problem occurred as 'recon-all -s R2261_S0283 exited with errors...' when I was running 'recon-all -autorecon-all -subjid R2261_S0283'. I tried several subjects and got the same error. I am wondering whether you can look at the 'recon-all.log' file and 'recon-all.error' file and help me figure out what the problem is and how to solve it?
Thank you very much! Looking forward to your reply!
Sincerely, Peng