Do you not have an SBRef image? I wonder if that feature is not working. You could paste in fslhd from those two files.
Matt. From: Qunjun Liang <liangqun...@foxmail.com<mailto:liangqun...@foxmail.com>> Date: Friday, April 5, 2019 at 10:23 PM To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>> Subject: Re: [HCP-Users] An error about subcortical processing in HCPfMRI-surface pipeline Hi Matt, Thank you for the prompt reply. I have packed the batch script I used to call PreFreeSufer, PostFreeSufer, fMRIVolume and fMRISurface, as well as the log file (.o and .e) after running the pipelines. The zip file is placed in the attachment. Sincerely, Qunjun ------------------ Original ------------------ From: "Glasser, Matthew"<glass...@wustl.edu<mailto:glass...@wustl.edu>>; Date: Sat, Apr 6, 2019 10:39 AM To: "Qunjun Liang"<liangqun...@foxmail.com<mailto:liangqun...@foxmail.com>>;"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>"<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>; Subject: Re: [HCP-Users] An error about subcortical processing in HCPfMRI-surface pipeline Please post how you called PreFreeSurfer, PostFreeSurfer, fMRIVolume, and fMRISurface. Matt. From: <hcp-users-boun...@humanconnectome.org<mailto:hcp-users-boun...@humanconnectome.org>> on behalf of Qunjun Liang <liangqun...@foxmail.com<mailto:liangqun...@foxmail.com>> Date: Friday, April 5, 2019 at 9:37 PM To: "hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" <hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>> Subject: [HCP-Users] An error about subcortical processing in HCP fMRI-surface pipeline Dear HCP experts, An error was occurred when I used fMRI surface generation pipeline: #---------------------------------- While running: wb_command -cifti-create-dense-timeseries /{PATH to subject}/MNINonLinear/Results/{task name}/{task name}_temp_subject.dtseries.nii -volume /{PATH to subject}/MNINonLinear/Results/{task name}/{task name}.nii.gz /{PATH to subject}/MNINonLinear/ROIs/ROIs.2.nii.gz ERROR: label volume has a different volume space than data volume #---------------------------------- I used GenericfMRISurfaceProcessingPipelineBatch.sh in Example/ directory to call the pipeline. The parameters (LowResMesh, FinalfMRIResolution and GrayordinatesResolution) were set in accord with that inPostFreesurferPipeline and fMRIVolume pipeline. Given than my fMRI data were acquired by multiband sequence, so I wonder if the pipeline was expected to do some extra modifications to fit multiband image? Environment: 1. Ubuntu 14.04 LTS 2. HCP pipeline 4.0.0 3. Workbench 1.3.2 4. FreeSurfer 6.0 5. FSL 5.0.9 Sincerely, ------------------ Qunjun Liang, Ph.D. School of psychology South China Normal University Zhongshan Avenue West 55, Tianhe District Guangzhou 510631 P. R. China _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org<mailto:HCP-Users@humanconnectome.org> http://lists.humanconnectome.org/mailman/listinfo/hcp-users ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. ________________________________ The materials in this message are private and may contain Protected Healthcare Information or other information of a sensitive nature. If you are not the intended recipient, be advised that any unauthorized use, disclosure, copying or the taking of any action in reliance on the contents of this information is strictly prohibited. If you have received this email in error, please immediately notify the sender via telephone or return mail. _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
