120909-06:56:28,132 workflow INFO:
['check', 'execution', 'logging']
120909-06:56:28,136 workflow INFO:
Running serially.
120909-06:56:28,138 workflow INFO:
Executing node convert_dicom in dir: /mnt/mydir/convert_and_strip/convert_dicom
120909-06:56:28,151 workflow INFO:
Running: dcm2nii -g n -n y -i n -o /mnt/mydir/convert_and_strip/convert_dicom -b config.ini /opt/data/NIPYPE_DATA/NKI.archive.1-5.007.LiteDICOM/3466763/session_1/MPRAGE_1/m000-s0155-defaced_MPRAGE.nii.dcm
120909-06:56:28,192 interface INFO:
stdout 2012-09-09T06:56:28.191981:Chris Rorden's dcm2nii :: 2 November 2010 (Debian)
120909-06:56:28,194 interface INFO:
stdout 2012-09-09T06:56:28.191981:reading preferences file /home/nipype_user/.dcm2nii/dcm2nii.ini
120909-06:56:28,195 interface INFO:
stdout 2012-09-09T06:56:28.191981:reading preferences file config.ini
120909-06:56:28,196 interface INFO:
stdout 2012-09-09T06:56:28.191981:Data will be exported to /mnt/mydir/convert_and_strip/convert_dicom/
120909-06:56:29,45 interface INFO:
stdout 2012-09-09T06:56:29.044975:Validating 384 potential DICOM images.
120909-06:56:29,45 interface INFO:
stdout 2012-09-09T06:56:29.044975:Found 192 DICOM images.
120909-06:56:29,46 interface INFO:
stdout 2012-09-09T06:56:29.044975:Converting 192/192 1
120909-06:56:29,46 interface INFO:
stdout 2012-09-09T06:56:29.044975:m000-s0001-defaced_MPRAGE.nii.dcm->18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,47 interface INFO:
stdout 2012-09-09T06:56:29.044975:Saving /mnt/mydir/convert_and_strip/convert_dicom/18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,633 interface INFO:
stdout 2012-09-09T06:56:29.633844:Reorienting as /mnt/mydir/convert_and_strip/convert_dicom/o18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,634 interface INFO:
stdout 2012-09-09T06:56:29.633844:Saving /mnt/mydir/convert_and_strip/convert_dicom/o18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,635 interface INFO:
stdout 2012-09-09T06:56:29.633844:Cropping NIfTI/Analyze image /mnt/mydir/convert_and_strip/convert_dicom/o18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,668 interface INFO:
stdout 2012-09-09T06:56:29.668688:Saving /mnt/mydir/convert_and_strip/convert_dicom/co18991230_010000MPRAGEs011a1001.nii
120909-06:56:29,711 workflow INFO:
Executing node skull_stripper in dir: /mnt/mydir/convert_and_strip/skull_stripper
120909-06:56:29,718 workflow INFO:
Running: bet /mnt/mydir/convert_and_strip/convert_dicom/18991230_010000MPRAGEs011a1001.nii /mnt/mydir/convert_and_strip/skull_stripper/18991230_010000MPRAGEs011a1001_brain.nii.gz