Using fslcreatehd Command in FSL

1

Hello everyone,

I’m attempting to use the fslcreatehd command within FSL. The following commands work as expected, generating the desired output files:

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fslcreatehd 50 50 50 1 1 1 1 0 0 0 0 4 test_large_image.nii.gz
fslcreatehd 100 100 100 1 1 1 1 0 0 0 0 4 test_large_image.nii.gz
fslcreatehd 120 120 129 1 1 1 1 0 0 0 0 4 test_large_image.nii.gz

However, I encounter an issue with the following command:

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fslcreatehd 128 128 19 1 1.796875 1.796875 6.5 0 0 0 4 test_large_image.nii.gz

It provides the following usage information:

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[curtsohn@comic2 nifty_reg]$ fslcreatehd 128 128 19 1 1.796875 1.796875 6.5 0 0 0 4 test_large_image.nii.gz

Usage: fslcreatehd <xsize> <ysize> <zsize> <tsize> <xvoxsize> <yvoxsize> <zvoxsize> <tr> <xorigin> <yorigin> <zorigin> <datatype> <headername>
       fslcreatehd <nifti_xml_file> <headername>
  Datatype values: 2=char, 4=short, 8=int, 16=float, 64=double
  In the first form, a radiological image will be created, with the origin input as a voxel co-ordinate.
  If the output file already exists, its data (but not geometric information) will be copied if it has a matching number of elements.
  In the second form, an XML-ish form of nifti header is read (as output by fslhd -x). 
  Note that stdin is used if '-' is used in place of a filename.

Despite adhering to the correct format, I’m unsure why the image isn’t being created. Any insights would be appreciated.

2

Hi @curtis_sohn, your last command is missing one parameter - assuming your origin coordinates are 0 0 0, you are missing a value for <tr>.

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