We're using dcm2nii. What's weird is that run 1 works fine, but runs 2-5 do not, even though they reference the same fieldmap images.
From: Glasser, Matthew [mailto:[email protected]] Sent: Thursday, January 08, 2015 2:07 PM To: Book, Gregory; [email protected] Subject: Re: [HCP-Users] fieldmap processing error Probably the easiest thing to do would be to fix the outlying image dimension by editing the NIFTI header. What program are you using to convert from scanner format to NIFTI? We use dcm2nii in the HCP. Peace, Matt. From: <Book>, Gregory <[email protected]<mailto:[email protected]>> Date: Thursday, January 8, 2015 at 12:18 PM To: "[email protected]<mailto:[email protected]>" <[email protected]<mailto:[email protected]>> Subject: [HCP-Users] fieldmap processing error We've noticed an error while processing some fMRI data through the HCP pipeline. Several series are failing with the following message: Phase and Magnitude images must have the same number of voxels and voxel dimensions Current dimensions are: Phase image: 80 x 80 x 48 with dims of 3.000000 x 3.000000 x 3.000000 mm Magnitude image: 80 x 80 x 48 with dims of 3.000000 x 3.000000 x 3.000001 mm Fix this (probably in reconstruction stage) before re-running this script Is there any way we can bypass this error? The voxel sizes are only off by 0.000001 mm It's also weird, because the pipeline contains 5 runs of the same task, and all use the same fieldmap files. The first task processes fine, but the next 4 fail with this error message. -G _________________________________________________ Gregory Book Senior Technology Manager Olin Neuropsychiatry Research Center, Institute of Living, Hartford Hospital 200 Retreat Avenue Hartford, CT 06106 Tel: 860-545-7267 Fax: 860-545-7797 [email protected]<mailto:[email protected]> http://nidb.sourceforge.net This e-mail message, including any attachments, is for the sole use of the intended recipient(s) and may contain confidential and privileged information. Any unauthorized review, use, disclosure, or distribution is prohibited. If you are not the intended recipient, or an employee or agent responsible for delivering the message to the intended recipient, please contact the sender by reply e-mail and destroy all copies of the original message, including any attachments. _______________________________________________ HCP-Users mailing list [email protected]<mailto:[email protected]> 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. _______________________________________________ HCP-Users mailing list [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
