dwifslpreproc dwi_den_unr.mif dwi_den_unr_preproc.mif -nocleanup -rpe_none -pe_dir AP -eddy_options ’ --slm=linear --data_is_shelled’
dwifslpreproc:
dwifslpreproc: Note that this script makes use of commands / algorithms that have relevant articles for citation; INCLUDING FROM EXTERNAL SOFTWARE PACKAGES. Please consult the help page (-help option) for more information.
dwifslpreproc:
dwifslpreproc: Generated scratch directory: /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/
Command: mrconvert /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwi_den_unr.mif /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/dwi.mif -json_export /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/dwi.json
dwifslpreproc: Changing to scratch directory (/home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/)
dwifslpreproc: Total readout time not provided at command-line; assuming sane default of 0.1
Command: mrinfo dwi.mif -export_grad_mrtrix grad.b
Command: dwi2mask dwi.mif - | maskfilter - dilate - | mrconvert - eddy_mask.nii -datatype float32 -strides -1,+2,+3
Command: mrconvert dwi.mif -import_pe_table dwi_manual_pe_scheme.txt eddy_in.nii -strides -1,+2,+3,+4 -export_grad_fsl bvecs bvals -export_pe_eddy eddy_config.txt eddy_indices.txt
Command: eddy_cuda9.1 --imain=eddy_in.nii --mask=eddy_mask.nii --acqp=eddy_config.txt --index=eddy_indices.txt --bvecs=bvecs --bvals=bvals --slm=linear --data_is_shelled --out=dwi_post_eddy --verbose
dwifslpreproc: CUDA version of ‘eddy’ was not successful; attempting OpenMP version
Command: eddy_openmp --imain=eddy_in.nii --mask=eddy_mask.nii --acqp=eddy_config.txt --index=eddy_indices.txt --bvecs=bvecs --bvals=bvals --slm=linear --data_is_shelled --out=dwi_post_eddy --verbose
dwifslpreproc: [ERROR] eddy* --imain=eddy_in.nii --mask=eddy_mask.nii --acqp=eddy_config.txt --index=eddy_indices.txt --bvecs=bvecs --bvals=bvals --slm=linear --data_is_shelled --out=dwi_post_eddy --verbose (app.py:199)
dwifslpreproc: [ERROR] Information from failed command:
dwifslpreproc:
============
eddy_cuda9.1
============
===========
eddy_openmp
===========
Reading images
Performing volume-to-volume registration
Running Register
Loading prediction maker
Evaluating prediction maker model
EDDY::: NewSphericalKMatrix::GetHyperParGuess: Unable to find valid hyperparameters
EDDY::: KMatrix.cpp::: virtual std::vector<double> EDDY::NewSphericalKMatrix::GetHyperParGuess(const std::vector<armawrap::AWColVector<double> >&) const: Exception thrown
EDDY::: HyParEstimator.cpp::: virtual void EDDY::FullMontyHyParEstimator::Estimate(std::shared_ptr<const EDDY::KMatrix>, bool): Exception thrown
EDDY::: DiffusionGP.cpp::: virtual void EDDY::DiffusionGP::EvaluateModel(const NEWIMAGE::volume<float>&, float, bool): Exception thrown
EDDY::: eddy.cpp::: std::shared_ptr<EDDY::DWIPredictionMaker> EDDY::LoadPredictionMaker(const EDDY::EddyCommandLineOptions&, EDDY::ScanType, const EDDY::ECScanManager&, unsigned int, float, NEWIMAGE::volume<float>&, bool): Exception thrown
EDDY::: eddy.cpp::: EDDY::ReplacementManager* EDDY::Register(const EDDY::EddyCommandLineOptions&, EDDY::ScanType, unsigned int, const std::vector<float, std::allocator<float> >&, EDDY::SecondLevelECModel, bool, EDDY::ECScanManager&, EDDY::ReplacementManager*, NEWMAT::Matrix&, NEWMAT::Matrix&): Exception thrown
EDDY::: Eddy failed with message EDDY::: eddy.cpp::: EDDY::ReplacementManager* EDDY::DoVolumeToVolumeRegistration(const EDDY::EddyCommandLineOptions&, EDDY::ECScanManager&): Exception thrown
============
eddy_cuda9.1
============
eddy_cuda9.1: error while loading shared libraries: libcublas.so.9.1: cannot open shared object file: No such file or directory
===========
eddy_openmp
===========
dwifslpreproc:
dwifslpreproc: [ERROR] For debugging, inspect contents of scratch directory: /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/
dwifslpreproc: Scratch directory retained; location: /home/nas/shahzad/ADF/ADNI/MRTrix_Preprocessing/Processing_Subjects2/031_S_2233/DTI/dwifslpreproc-tmp-LWBRS8/