Dear all, I'm trying to troubleshoot an error that I'm getting when running v4.0 PreFreeSurferPipelineBatch. I initially thought the error arose as a result of grandunwarp but I don't think that is the case anymore. This is the error I am receiving:
'/media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2wToT1wDistortionCorrectAndReg/FieldMap/TopupField.nii.gz' and '/media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2wToT1wDistortionCorrectAndReg/FieldMap/TopupField.nii.gz' are the same file I have attached the full output to stdout. Any insights? Kind regards, Dinal Jayasekera<https://dinaljay.weebly.com/> PhD Candidate | InSITE Fellow<https://www.insitefellows.org/> Ammar Hawasli Lab<https://hawaslilab.weebly.com/> Department of Biomedical Engineering<https://bme.wustl.edu/Pages/default.aspx> | Washington University in St. Louis<https://wustl.edu/> _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
StudyFolder: /media/functionalspinelab/RAID/Data/Dinal/mystudy Subjlist: NSI_21 EnvironmentScript: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/Examples/Scripts/SetUpHCPPipeline.sh Run locally: TRUE This script must be SOURCED to correctly setup the environment prior to running any of the other HCP scripts contained here NSI_21 Found 1 T1w Images for subject NSI_21 Found 1 T2w Images for subject NSI_21 About to run /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/PreFreeSurfer/PreFreeSurferPipeline.sh PreFreeSurferPipeline.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 PreFreeSurferPipeline.sh: FSLDIR: /usr/local/fsl PreFreeSurferPipeline.sh: HCPPIPEDIR_Global: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/scripts PreFreeSurferPipeline.sh: HCPPIPEDIR_PreFS: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/PreFreeSurfer/scripts Thu Jun 27 10:57:36 CDT 2019:PreFreeSurferPipeline.sh: Platform Information Follows: Linux fsl2 4.15.0-52-generic #56~16.04.1-Ubuntu SMP Thu Jun 6 12:03:31 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux Thu Jun 27 10:57:36 CDT 2019:PreFreeSurferPipeline.sh: Parsing Command Line Options Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: Finished Parsing Command Line Options Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: StudyFolder: /media/functionalspinelab/RAID/Data/Dinal/mystudy Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: Subject: NSI_21 Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wInputImages: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/unprocessed/3T/T1w_MPR1/NSI_21_3T_T1w_MPR1.nii.gz@ Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wInputImages: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/unprocessed/3T/T2w_SPC1/NSI_21_3T_T2w_SPC1.nii.gz@ Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wTemplate: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_0.7mm.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wTemplateBrain: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_0.7mm_brain.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wTemplate2mm: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_2mm.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wTemplate: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T2_0.7mm.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wTemplateBrain: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T2_0.7mm_brain.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wTemplate2mm: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T2_2mm.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: TemplateMask: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_0.7mm_brain_mask.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: Template2mmMask: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_2mm_brain_mask_dil.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: BrainSize: 150 Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: FNIRTConfig: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/T1_2_MNI152_2mm.cnf Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: MagnitudeInputName: NONE Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: PhaseInputName: NONE Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: GEB0InputName: NONE Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: TE: NONE Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: SpinEchoPhaseEncodeNegative: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/unprocessed/3T/T1w_MPR1/NSI_21_3T_SpinEchoFieldMap_AP.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: SpinEchoPhaseEncodePositive: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/unprocessed/3T/T1w_MPR1/NSI_21_3T_SpinEchoFieldMap_PA.nii.gz Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: SEEchoSpacing: 0.00056 Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: SEUnwarpDir: y Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wSampleSpacing: 0.0000021 Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wSampleSpacing: 0.0000021 Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: UnwarpDir: z Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: GradientDistortionCoeffs: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/coeff_AS82_Prisma.grad Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: AvgrdcSTRING: TOPUP Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: TopupConfig: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/b02b0.cnf Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: BiasFieldSmoothingSigma: Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: UseJacobian: true Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: FSLDIR: /usr/local/fsl Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 ======================================== DIRECTORY: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 PRODUCT: HCP Pipeline Scripts VERSION: v4.0.0 ======================================== Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: HCPPIPEDIR_Global: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/scripts Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: HCPPIPEDIR_PreFS: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/PreFreeSurfer/scripts Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T1wFolder: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T1w Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: T2wFolder: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: AtlasSpaceFolder: /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/MNINonLinear Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T1w/xfms/ Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/xfms/ Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/MNINonLinear/xfms/ Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: POSIXLY_CORRECT= Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: Processing Modality: T1w Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: Performing Gradient Nonlinearity Correction Thu Jun 27 10:57:38 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T1w/T1w1_GradientDistortionUnwarp GradientDistortionUnwarp.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 10:57:39 CDT 2019:GradientDistortionUnwarp.sh: START gradunwarp-INFO: Parsing /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/coeff_AS82_Prisma.grad for harmonics coeffs gradunwarp-INFO: Evaluating spherical harmonics gradunwarp-INFO: on a 60^3 grid gradunwarp-INFO: with extents -300.0mm to 300.0mm gradunwarp-INFO: along x... gradunwarp-INFO: along y... gradunwarp-INFO: along z... gradunwarp-INFO: Evaluating the jacobian multiplier gradunwarp-INFO: Unwarping slice by slice . . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60 . . . . . . . . . 70 . . . . . . . . . 80 . . . . . . . . . 90 . . . . . . . . . 100 . . . . . . . . . 110 . . . . . . . . . 120 . . . . . . . . . 130 . . . . . . . . . 140 . . . . . . . . . 150 . . . . . . . . . 160 . . . . . . . . . 170 . . . . . . . . . 180 . . . . . . . . . 190 . . . . . . . . . 200 . . . . . . . . . 210 . . . . . . . . . 220 . . . . . . . . . 230 . . . . . . . . . 240 . . . . . . . . . 250 . . . . . . . . . 260 . . . . . . . . . 270 . . . . . . . . . 280 . . . . . . . . . 290 . . . . . . . . . 300 . . . . . . . . . 310 . . . . . . . . . 320 gradunwarp-INFO: Writing output to trilinear.nii.gz Thu Jun 27 11:01:07 CDT 2019:GradientDistortionUnwarp.sh: END Thu Jun 27 11:01:07 CDT 2019:PreFreeSurferPipeline.sh: Not Averaging T1w Images Thu Jun 27 11:01:07 CDT 2019:PreFreeSurferPipeline.sh: ONLY ONE AVERAGE FOUND: COPYING Thu Jun 27 11:01:08 CDT 2019:PreFreeSurferPipeline.sh: Aligning T1w image to /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T1_0.7mm.nii.gz to create native volume space Thu Jun 27 11:01:08 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T1w/ACPCAlignment ACPCAlignment.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 ACPCAlignment.sh: FSLDIR: /usr/local/fsl Thu Jun 27 11:01:08 CDT 2019:ACPCAlignment.sh: START Final FOV is: 0.000000 208.000000 0.000000 300.000000 75.000000 188.000000 Thu Jun 27 11:02:23 CDT 2019:ACPCAlignment.sh: END Thu Jun 27 11:02:23 CDT 2019:PreFreeSurferPipeline.sh: Performing Brain Extraction using FNIRT-based Masking Thu Jun 27 11:02:23 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T1w/BrainExtraction_FNIRTbased BrainExtraction_FNIRTbased.sh: FSLDIR: /usr/local/fsl BrainExtraction_FNIRTbased.sh: HCPPIPEDIR_Templates: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates BrainExtraction_FNIRTbased.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:02:23 CDT 2019:BrainExtraction_FNIRTbased.sh: START: BrainExtraction_FNIRT Thu Jun 27 11:11:14 CDT 2019:BrainExtraction_FNIRTbased.sh: END: BrainExtraction_FNIRT Thu Jun 27 11:11:14 CDT 2019:PreFreeSurferPipeline.sh: Processing Modality: T2w Thu Jun 27 11:11:14 CDT 2019:PreFreeSurferPipeline.sh: Performing Gradient Nonlinearity Correction Thu Jun 27 11:11:14 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2w1_GradientDistortionUnwarp GradientDistortionUnwarp.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:11:15 CDT 2019:GradientDistortionUnwarp.sh: START gradunwarp-INFO: Parsing /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/coeff_AS82_Prisma.grad for harmonics coeffs gradunwarp-INFO: Evaluating spherical harmonics gradunwarp-INFO: on a 60^3 grid gradunwarp-INFO: with extents -300.0mm to 300.0mm gradunwarp-INFO: along x... gradunwarp-INFO: along y... gradunwarp-INFO: along z... gradunwarp-INFO: Evaluating the jacobian multiplier gradunwarp-INFO: Unwarping slice by slice . . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60 . . . . . . . . . 70 . . . . . . . . . 80 . . . . . . . . . 90 . . . . . . . . . 100 . . . . . . . . . 110 . . . . . . . . . 120 . . . . . . . . . 130 . . . . . . . . . 140 . . . . . . . . . 150 . . . . . . . . . 160 . . . . . . . . . 170 . . . . . . . . . 180 . . . . . . . . . 190 . . . . . . . . . 200 . . . . . . . . . 210 . . . . . . . . . 220 . . . . . . . . . 230 . . . . . . . . . 240 . . . . . . . . . 250 . . . . . . . . . 260 . . . . . . . . . 270 . . . . . . . . . 280 . . . . . . . . . 290 . . . . . . . . . 300 . . . . . . . . . 310 . . . . . . . . . 320 gradunwarp-INFO: Writing output to trilinear.nii.gz Thu Jun 27 11:14:48 CDT 2019:GradientDistortionUnwarp.sh: END Thu Jun 27 11:14:48 CDT 2019:PreFreeSurferPipeline.sh: Not Averaging T2w Images Thu Jun 27 11:14:48 CDT 2019:PreFreeSurferPipeline.sh: ONLY ONE AVERAGE FOUND: COPYING Thu Jun 27 11:14:49 CDT 2019:PreFreeSurferPipeline.sh: Aligning T2w image to /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates/MNI152_T2_0.7mm.nii.gz to create native volume space Thu Jun 27 11:14:49 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/ACPCAlignment ACPCAlignment.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 ACPCAlignment.sh: FSLDIR: /usr/local/fsl Thu Jun 27 11:14:49 CDT 2019:ACPCAlignment.sh: START Final FOV is: 0.000000 208.000000 0.000000 300.000000 74.000000 188.000000 Thu Jun 27 11:16:03 CDT 2019:ACPCAlignment.sh: END Thu Jun 27 11:16:03 CDT 2019:PreFreeSurferPipeline.sh: Performing Brain Extraction using FNIRT-based Masking Thu Jun 27 11:16:03 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/BrainExtraction_FNIRTbased BrainExtraction_FNIRTbased.sh: FSLDIR: /usr/local/fsl BrainExtraction_FNIRTbased.sh: HCPPIPEDIR_Templates: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/templates BrainExtraction_FNIRTbased.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:16:03 CDT 2019:BrainExtraction_FNIRTbased.sh: START: BrainExtraction_FNIRT Thu Jun 27 11:26:16 CDT 2019:BrainExtraction_FNIRTbased.sh: END: BrainExtraction_FNIRT Thu Jun 27 11:26:16 CDT 2019:PreFreeSurferPipeline.sh: Performing TOPUP Readout Distortion Correction Thu Jun 27 11:26:16 CDT 2019:PreFreeSurferPipeline.sh: mkdir -p /media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2wToT1wDistortionCorrectAndReg T2wToT1wDistortionCorrectAndReg.sh: FSLDIR: /usr/local/fsl T2wToT1wDistortionCorrectAndReg.sh: HCPPIPEDIR_Global: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/scripts T2wToT1wDistortionCorrectAndReg.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:26:18 CDT 2019:T2wToT1wDistortionCorrectAndReg.sh: START TopupPreprocessingAll.sh: FSLDIR: /usr/local/fsl TopupPreprocessingAll.sh: HCPPIPEDIR_Global: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/scripts Thu Jun 27 11:26:18 CDT 2019:TopupPreprocessingAll.sh: START: Topup Field Map Generation and Gradient Unwarping GradientDistortionUnwarp.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:26:19 CDT 2019:GradientDistortionUnwarp.sh: START gradunwarp-INFO: Parsing /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/coeff_AS82_Prisma.grad for harmonics coeffs gradunwarp-INFO: Evaluating spherical harmonics gradunwarp-INFO: on a 60^3 grid gradunwarp-INFO: with extents -300.0mm to 300.0mm gradunwarp-INFO: along x... gradunwarp-INFO: along y... gradunwarp-INFO: along z... gradunwarp-INFO: Evaluating the jacobian multiplier gradunwarp-INFO: Unwarping slice by slice . . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60 gradunwarp-INFO: Writing output to trilinear.nii.gz Thu Jun 27 11:26:43 CDT 2019:GradientDistortionUnwarp.sh: END GradientDistortionUnwarp.sh: HCPPIPEDIR: /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0 Thu Jun 27 11:26:43 CDT 2019:GradientDistortionUnwarp.sh: START gradunwarp-INFO: Parsing /home/functionalspinelab/Desktop/Dinal/Pipelines_v4.0/global/config/coeff_AS82_Prisma.grad for harmonics coeffs gradunwarp-INFO: Evaluating spherical harmonics gradunwarp-INFO: on a 60^3 grid gradunwarp-INFO: with extents -300.0mm to 300.0mm gradunwarp-INFO: along x... gradunwarp-INFO: along y... gradunwarp-INFO: along z... gradunwarp-INFO: Evaluating the jacobian multiplier gradunwarp-INFO: Unwarping slice by slice . . . . . . . . . 10 . . . . . . . . . 20 . . . . . . . . . 30 . . . . . . . . . 40 . . . . . . . . . 50 . . . . . . . . . 60 gradunwarp-INFO: Writing output to trilinear.nii.gz Thu Jun 27 11:27:08 CDT 2019:GradientDistortionUnwarp.sh: END SSD = 1587.05 n = 54180 Reg = 0 Cost = 1587.05 SSD = 1054.5 n = 54180 Reg = 78.2141 Cost = 1132.71 SSD = 811.752 n = 54180 Reg = 147.512 Cost = 959.264 SSD = 688.268 n = 54180 Reg = 185.675 Cost = 873.943 SSD = 631.747 n = 54178 Reg = 205.021 Cost = 836.768 SSD = 610.504 n = 54107 Reg = 213.569 Cost = 824.073 ***Going to next resolution level*** SSD = 999.867 n = 54107 Reg = 100.321 Cost = 1100.19 SSD = 684.266 n = 54179 Reg = 139.32 Cost = 823.586 SSD = 580.459 n = 54180 Reg = 176.751 Cost = 757.21 SSD = 542.366 n = 54180 Reg = 192.955 Cost = 735.321 SSD = 525.868 n = 54180 Reg = 200.201 Cost = 726.07 SSD = 517.773 n = 54180 Reg = 203.838 Cost = 721.611 ***Going to next resolution level*** SSD = 1156.36 n = 54180 Reg = 45.6667 Cost = 1202.02 SSD = 848.965 n = 54180 Reg = 94.4489 Cost = 943.414 SSD = 759.67 n = 54180 Reg = 125.756 Cost = 885.426 SSD = 730.958 n = 54180 Reg = 139.409 Cost = 870.368 SSD = 719.425 n = 54180 Reg = 145.29 Cost = 864.715 SSD = 713.598 n = 54180 Reg = 148.177 Cost = 861.775 ***Going to next resolution level*** SSD = 850.62 n = 54180 Reg = 34.5196 Cost = 885.139 SSD = 511.517 n = 54180 Reg = 46 Cost = 557.517 SSD = 426.203 n = 54180 Reg = 64.2323 Cost = 490.435 SSD = 403.548 n = 54180 Reg = 71.8181 Cost = 475.366 SSD = 395.021 n = 54180 Reg = 74.6257 Cost = 469.647 SSD = 390.966 n = 54180 Reg = 75.7736 Cost = 466.74 ***Going to next resolution level*** SSD = 391.061 n = 54180 Reg = 25.5055 Cost = 416.566 SSD = 367.516 n = 54180 Reg = 33.4853 Cost = 401.001 SSD = 357.073 n = 54180 Reg = 38.4386 Cost = 395.512 SSD = 353.157 n = 54180 Reg = 40.2906 Cost = 393.448 SSD = 351.478 n = 54180 Reg = 41.0309 Cost = 392.509 SSD = 350.628 n = 54180 Reg = 41.4 Cost = 392.028 ***Going to next resolution level*** SSD = 1069.86 n = 456590 Reg = 132.784 Cost = 1202.64 SSD = 1028.13 n = 456590 Reg = 127.574 Cost = 1155.7 SSD = 971.942 n = 456590 Reg = 120.6 Cost = 1092.54 SSD = 904.34 n = 456590 Reg = 112.297 Cost = 1016.64 SSD = 830.519 n = 456590 Reg = 103.389 Cost = 933.908 SSD = 757.095 n = 456590 Reg = 94.8057 Cost = 851.901 SSD = 731.334 n = 456590 Reg = 91.9069 Cost = 823.241 SSD = 666.768 n = 456590 Reg = 85.1221 Cost = 751.89 SSD = 633.055 n = 456590 Reg = 81.9515 Cost = 715.007 SSD = 585.682 n = 456590 Reg = 78.6868 Cost = 664.369 SSD = 567.366 n = 456590 Reg = 77.5307 Cost = 644.897 ***Going to next resolution level*** SSD = 675.132 n = 456590 Reg = 9.41072 Cost = 684.543 SSD = 671.149 n = 456590 Reg = 9.35675 Cost = 680.506 SSD = 667.033 n = 456590 Reg = 9.30306 Cost = 676.337 SSD = 661.509 n = 456590 Reg = 9.23567 Cost = 670.745 SSD = 652.503 n = 456590 Reg = 9.13286 Cost = 661.636 SSD = 643.772 n = 456590 Reg = 9.04755 Cost = 652.82 SSD = 632.619 n = 456590 Reg = 8.95052 Cost = 641.57 SSD = 615.019 n = 456590 Reg = 8.83614 Cost = 623.855 SSD = 597.37 n = 456590 Reg = 8.77801 Cost = 606.148 SSD = 571.299 n = 456590 Reg = 8.81522 Cost = 580.115 SSD = 554.934 n = 456590 Reg = 8.95964 Cost = 563.894 ***Going to next resolution level*** SSD = 554.936 n = 456590 Reg = 0.0895967 Cost = 555.025 SSD = 552.563 n = 456590 Reg = 0.089247 Cost = 552.652 SSD = 550.536 n = 456590 Reg = 0.0889906 Cost = 550.625 SSD = 547.803 n = 456590 Reg = 0.0887222 Cost = 547.891 SSD = 543.758 n = 456590 Reg = 0.0883824 Cost = 543.846 SSD = 540.964 n = 456590 Reg = 0.0882202 Cost = 541.052 SSD = 535.121 n = 456590 Reg = 0.0879406 Cost = 535.209 SSD = 530.497 n = 456590 Reg = 0.087926 Cost = 530.585 SSD = 524.279 n = 456590 Reg = 0.088255 Cost = 524.367 SSD = 518.188 n = 456590 Reg = 0.0890173 Cost = 518.277 SSD = 509.321 n = 456590 Reg = 0.0907984 Cost = 509.411 SSD = 498.584 n = 456590 Reg = 0.0938552 Cost = 498.678 SSD = 487.853 n = 456590 Reg = 0.0984739 Cost = 487.952 SSD = 478.64 n = 456590 Reg = 0.104297 Cost = 478.744 SSD = 472.733 n = 456590 Reg = 0.109027 Cost = 472.842 SSD = 467.471 n = 456590 Reg = 0.113686 Cost = 467.584 SSD = 463.759 n = 456590 Reg = 0.116545 Cost = 463.875 SSD = 460.03 n = 456590 Reg = 0.119511 Cost = 460.149 SSD = 456.915 n = 456590 Reg = 0.121025 Cost = 457.036 SSD = 452.693 n = 456590 Reg = 0.123066 Cost = 452.816 SSD = 449.92 n = 456590 Reg = 0.124155 Cost = 450.044 ***Going to next resolution level*** SSD = 449.92 n = 456590 Reg = 0.0024831 Cost = 449.922 SSD = 448.995 n = 456590 Reg = 0.00247745 Cost = 448.998 SSD = 448.099 n = 456590 Reg = 0.00247144 Cost = 448.102 SSD = 446.829 n = 456590 Reg = 0.00246202 Cost = 446.831 SSD = 444.677 n = 456590 Reg = 0.00244554 Cost = 444.679 SSD = 442.901 n = 456590 Reg = 0.0024307 Cost = 442.904 SSD = 439.978 n = 456590 Reg = 0.00240663 Cost = 439.981 SSD = 436.342 n = 456590 Reg = 0.00237433 Cost = 436.344 SSD = 432.707 n = 456590 Reg = 0.00233917 Cost = 432.71 SSD = 429.16 n = 456590 Reg = 0.00230074 Cost = 429.162 SSD = 426.154 n = 456590 Reg = 0.00226405 Cost = 426.156 SSD = 422.962 n = 456590 Reg = 0.00222144 Cost = 422.965 SSD = 420.7 n = 456590 Reg = 0.00218968 Cost = 420.703 SSD = 418.543 n = 456590 Reg = 0.00215936 Cost = 418.545 SSD = 417.325 n = 456590 Reg = 0.00214336 Cost = 417.327 SSD = 416.052 n = 456590 Reg = 0.0021282 Cost = 416.054 SSD = 415.448 n = 456590 Reg = 0.0021231 Cost = 415.45 SSD = 414.645 n = 456590 Reg = 0.00211969 Cost = 414.647 SSD = 414.106 n = 456590 Reg = 0.0021205 Cost = 414.108 SSD = 413.095 n = 456590 Reg = 0.0021281 Cost = 413.097 SSD = 412.327 n = 456590 Reg = 0.00213822 Cost = 412.329 SSD = 410.815 n = 456590 Reg = 0.00216687 Cost = 410.817 SSD = 409.509 n = 456590 Reg = 0.00219414 Cost = 409.511 SSD = 407.347 n = 456590 Reg = 0.00225114 Cost = 407.349 SSD = 406.078 n = 456590 Reg = 0.00229059 Cost = 406.081 SSD = 404.234 n = 456590 Reg = 0.00234816 Cost = 404.236 SSD = 402.83 n = 456590 Reg = 0.00239305 Cost = 402.833 SSD = 401.528 n = 456590 Reg = 0.00244107 Cost = 401.531 SSD = 400.084 n = 456590 Reg = 0.00249795 Cost = 400.086 SSD = 398.801 n = 456590 Reg = 0.00255172 Cost = 398.803 SSD = 397.378 n = 456590 Reg = 0.00261248 Cost = 397.38 SSD = 395.873 n = 456590 Reg = 0.00268396 Cost = 395.876 SSD = 394.422 n = 456590 Reg = 0.00275536 Cost = 394.425 SSD = 392.518 n = 456590 Reg = 0.00285208 Cost = 392.521 SSD = 391.233 n = 456590 Reg = 0.00291579 Cost = 391.236 SSD = 389.724 n = 456590 Reg = 0.0029927 Cost = 389.727 SSD = 388.584 n = 456590 Reg = 0.00305323 Cost = 388.587 SSD = 387.539 n = 456590 Reg = 0.00310945 Cost = 387.542 SSD = 386.548 n = 456590 Reg = 0.00316305 Cost = 386.551 SSD = 385.712 n = 456590 Reg = 0.00320746 Cost = 385.715 SSD = 384.58 n = 456590 Reg = 0.0032634 Cost = 384.583 SSD = 383.598 n = 456590 Reg = 0.00331248 Cost = 383.601 SSD = 382.74 n = 456590 Reg = 0.00335818 Cost = 382.743 SSD = 381.805 n = 456590 Reg = 0.00340617 Cost = 381.808 SSD = 380.869 n = 456590 Reg = 0.00344588 Cost = 380.872 SSD = 379.803 n = 456590 Reg = 0.00349079 Cost = 379.806 SSD = 379.156 n = 456590 Reg = 0.00351734 Cost = 379.159 SSD = 378.343 n = 456590 Reg = 0.00355093 Cost = 378.346 SSD = 377.696 n = 456590 Reg = 0.00357711 Cost = 377.7 SSD = 377.103 n = 456590 Reg = 0.00360054 Cost = 377.106 SSD = 376.457 n = 456590 Reg = 0.00362532 Cost = 376.461 '/media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2wToT1wDistortionCorrectAndReg/FieldMap/TopupField.nii.gz' and '/media/functionalspinelab/RAID/Data/Dinal/mystudy/NSI_21/T2w/T2wToT1wDistortionCorrectAndReg/FieldMap/TopupField.nii.gz' are the same file