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.. _ahelp_3dAFNItoNIFTI:

*************
3dAFNItoNIFTI
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.. contents:: :local:


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.. code-block:: none

    Usage: 3dAFNItoNIFTI [options] dataset
    Reads an AFNI dataset, writes it out as a NIfTI-1.1 file.
    
    NOTES:
    * The nifti_tool program can be used to manipulate
       the contents of a NIfTI-1.1 file.
    * The input dataset can actually be in any input format
       that AFNI can read directly (e.g., MINC-1).
    * There is no 3dNIFTItoAFNI program, since AFNI programs
       can directly read .nii files.  If you wish to make such
       a conversion anyway, one way to do so is like so:
         3dcalc -a ppp.nii -prefix ppp -expr 'a'
    
    OPTIONS:
      -prefix ppp = Write the NIfTI-1.1 file as 'ppp.nii'.
                      Default: the dataset's prefix is used.
                    * You can use 'ppp.hdr' to output a 2-file
                      NIfTI-1.1 file pair 'ppp.hdr' & 'ppp.img'.
                    * If you want a compressed file, try
                      using a prefix like 'ppp.nii.gz'.
                    * Setting the Unix environment variable
                      AFNI_AUTOGZIP to YES will result in
                      all output .nii files being gzip-ed.
      -verb       = Be verbose = print progress messages.
                      Repeating this increases the verbosity
                      (maximum setting is 3 '-verb' options).
      -float      = Force the output dataset to be 32-bit
                      floats.  This option should be used when
                      the input AFNI dataset has different
                      float scale factors for different sub-bricks,
                      an option that NIfTI-1.1 does not support.
    
    The following options affect the contents of the AFNI extension
    field that is written by default into the NIfTI-1.1 header:
    
      -pure       = Do NOT write an AFNI extension field into
                      the output file.  Only use this option if
                      needed.  You can also use the 'nifti_tool'
                      program to strip extensions from a file.
      -denote     = When writing the AFNI extension field, remove
                      text notes that might contain subject
                      identifying information.
      -oldid      = Give the new dataset the input dataset's
                      AFNI ID code.
      -newid      = Give the new dataset a new AFNI ID code, to
                      distinguish it from the input dataset.
         **** N.B.:  -newid is now the default action.
    
    ++ Compile date = Apr 18 2024 {AFNI_24.1.03:linux_ubuntu_16_64}