External Email - Use Caution
Hi freesurfer experts, The recon-all command was conducted to my data by: recon-all -all -s sub1 -i anat.nii . But freesurfer seems to not be able to read the TR/TE/TI and flip angle information in the .nii file. Or there is no information about TR/TE/TI or flip angle stored in the .nii file. Although the terminal told me recon-all finished without errors, I think there still may be some implicit and fatal errors. I want to know whether all the processing steps in 'recon-all -all' command can work appropriately without TR/TE/TI and flip angle information?
See the recon-all.log file: +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ... reading from /media/emily/DATA_Storage/test_freeview/sub1/mri/rawavg.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 ... recon-all -s sub1 finished without error at Fri Jun 15 04:36:11 CST 2018 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Thank you! He
Yes, it should be fine (as long as your data is good)
On 06/18/2018 04:02 PM, He Chen wrote:
Hi freesurfer experts, The recon-all command was conducted to my data by: /recon-all -all -s sub1 -i anat.nii ./ But freesurfer seems to not be able to read the TR/TE/TI and flip angle information in the .nii file. Or there is no information about TR/TE/TI or flip angle stored in the .nii file. Although the terminal told me recon-all finished without errors, I think there still may be some implicit and fatal errors. I want to know whether all the processing steps in 'recon-all -all' command can work appropriately without TR/TE/TI and flip angle information?
See the recon-all.log file: +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ /.../ /reading from /media/emily/DATA_Storage/test_freeview/sub1/mri/rawavg.mgz.../ /TR=0.00, TE=0.00, TI=0.00, flip angle=0.00/ /.../ /recon-all -s sub1 finished without error at Fri Jun 15 04:36:11 CST 2018/ ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Thank you! He
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yes, it should be fine On Tue, 19 Jun 2018, He Chen wrote:
External Email - Use Caution
Hi freesurfer experts, The recon-all command was conducted to my data by: recon-all -all -s sub1 -i anat.nii . But freesurfer seems to not be able to read the TR/TE/TI and flip angle information in the .nii file. Or there is no information about TR/TE/TI or flip angle stored in the .nii file. Although the terminal told me recon-all finished without errors, I think there still may be some implicit and fatal errors. I want to know whether all the processing steps in 'recon-all -all' command can work appropriately without TR/TE/TI and flip angle information?
See the recon-all.log file: +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ... reading from /media/emily/DATA_Storage/test_freeview/sub1/mri/rawavg.mgz... TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 ... recon-all -s sub1 finished without error at Fri Jun 15 04:36:11 CST 2018 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Thank you! He
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He Chen