error when performimg Bet

Submitted by gekehe on

Hi

An error happened when I perform Bet using DPARSFA 4.1 . The Matlab command window gives some options to solve these problem, but I don't understand how to choose one  option and continue processing. It reads as below in the command window:

Bet begin...
Chris Rorden's dcm2nii :: 1 April 2010 
reading preferences file E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.ini 
0 E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.exe ERROR: unable to find and patient\Analysis\RealignParameter\sub_01 I:\Research\patient\Analysis\RealignParameter\sub_01\Bet_mean4Da20130114_205412IM-0004-00012011BCLHQs004a1001_001BeforeBet.img 
Either drag and drop or specify command line options: 
  dcm2nii <options> <sourcenames> 
OPTIONS: 
-a Anonymize [remove identifying information]: Y,N = Y 
-b load settings from specified inifile, e.g. '-b C:\set\t1.ini'   
-c Collapse input folders: Y,N = N 
-d Date in filename [filename.dcm -> 20061230122032.nii]: Y,N = Y 
-e events (series/acq) in filename [filename.dcm -> s002a003.nii]: Y,N = Y 
-f Source filename [e.g. filename.par -> filename.nii]: Y,N = N 
-g gzip output, filename.nii.gz [ignored if '-n n']: Y,N = N 
-i ID  in filename [filename.dcm -> johndoe.nii]: Y,N = Y 
-n output .nii file [if no, create .hdr/.img pair]: Y,N = N 
-o Output Directory, e.g. 'C:\TEMP' (if unspecified, source directory is used) 
-p Protocol in filename [filename.dcm -> TFE_T1.nii]: Y,N = Y 
-r Reorient image to nearest orthogonal: Y,N  
-s SPM2/Analyze not SPM5/NIfTI [ignored if '-n y']: Y,N = Y 
-v Convert every image in the directory: Y,N = N 
-x Reorient and crop 3D NIfTI images: Y,N = N 
  You can also set defaults by editing E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.ini 
EXAMPLE: dcm2nii -a y -o C:\TEMP C:\DICOM\input1.par C:\input2.parjava.lang.ArrayIndexOutOfBoundsException

puyunfashi

Thu, 12/01/2016 - 06:05

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-----原始邮件-----
发件人: "The R-fMRI Network" <rfmri.org@gmail.com>
发送时间: 2016年12月1日 星期四
收件人: rfmri.org@rnet.co
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主题: [RFMRI] error when performimg Bet

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By Liu, Bin (gekehe)

Hi

An error happened when I perform Bet using DPARSFA 4.1 . The Matlab command window gives some options to solve these problem, but I don't understand how to choose one  option and continue processing. It reads as below in the command window:

Bet begin...
Chris Rorden's dcm2nii :: 1 April 2010 
reading preferences file E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.ini 
0 E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.exe ERROR: unable to find and patient\Analysis\RealignParameter\sub_01 I:\Research\patient\Analysis\RealignParameter\sub_01\Bet_mean4Da20130114_205412IM-0004-00012011BCLHQs004a1001_001BeforeBet.img 
Either drag and drop or specify command line options: 
  dcm2nii  
OPTIONS: 
-a Anonymize [remove identifying information]: Y,N = Y 
-b load settings from specified inifile, e.g. '-b C:\set\t1.ini'   
-c Collapse input folders: Y,N = N 
-d Date in filename [filename.dcm -> 20061230122032.nii]: Y,N = Y 
-e events (series/acq) in filename [filename.dcm -> s002a003.nii]: Y,N = Y 
-f Source filename [e.g. filename.par -> filename.nii]: Y,N = N 
-g gzip output, filename.nii.gz [ignored if '-n n']: Y,N = N 
-i ID  in filename [filename.dcm -> johndoe.nii]: Y,N = Y 
-n output .nii file [if no, create .hdr/.img pair]: Y,N = N 
-o Output Directory, e.g. 'C:\TEMP' (if unspecified, source directory is used) 
-p Protocol in filename [filename.dcm -> TFE_T1.nii]: Y,N = Y 
-r Reorient image to nearest orthogonal: Y,N  
-s SPM2/Analyze not SPM5/NIfTI [ignored if '-n y']: Y,N = Y 
-v Convert every image in the directory: Y,N = N 
-x Reorient and crop 3D NIfTI images: Y,N = N 
  You can also set defaults by editing E:\Program Files (x86)\preprocessing\DPABI_V2.1_160415\DPARSF\dcm2nii\dcm2nii.ini 
EXAMPLE: dcm2nii -a y -o C:\TEMP C:\DICOM\input1.par C:\input2.parjava.lang.ArrayIndexOutOfBoundsException

Online version of this post: http://rfmri.org/content/error-when-performimg-bet






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