Hi Torsten,

Many thanks for your quick reply. The complete comand line is:

$ cmtk correct_dwi_distortion /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/cmtk_dc/test /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/raw/DWI_STIR_2b_PA_1/S1_rev_1.nii.gz /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/raw/DWI_SSRF_S1/S1_fwd_1.nii.gz /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/raw/DWI_SSRF_S1/S1_fwd_2.nii.gz
which: no lockfile in (/usr/local/bin:/usr/bin:/cygdrive/c/WINDOWS/system32:/cygdrive/c/WINDOWS:/cygdrive/c/WINDOWS/System32/Wbem:/cygdrive/c/WINDOWS/System32/WindowsPowerShell/v1.0:/cygdrive/c/Program Files/MATLAB/R2018b/bin:/cygdrive/c/Program Files/MATLAB/R2018a/bin:/cygdrive/c/Program Files/dotnet:/cygdrive/c/WINDOWS/System32/OpenSSH:/cygdrive/c/Users/thesj165/AppData/Local/Microsoft/WindowsApps:/cygdrive/c/Program Files/elastix_v4.8:/cygdrive/c/Users/thesj165/AppData/Local/Continuum/anaconda3:/cygdrive/c/Users/thesj165/AppData/Local/Continuum/anaconda3/Scripts:/usr/lib)
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CREATE /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/cmtk_dc/test/eddy/b0_S1_fwd_2.xform
========================================================================
Computing eddy current correction for S1_fwd_2.nii.gz...
ERROR: could not recursively create path for "/cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/cmtk_dc/test/eddy/b0_S1_fwd_2.xform/studylist"
========================================================================
CREATE /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/cmtk_dc/test/dfield_fwd.nrrd
========================================================================
Computing deformation...
========================================================================
MISSING SOURCE /cygdrive/c/Users/thesj165/Documents/dwi/scans/pilot/UPMR0044_Pilot1/cmtk_dc/test/eddy/b0_S1_fwd_2.xform
========================================================================




Best,
Therese