dinifti - converts DICOM files into the NIfTI format
dinifti [options] <DICOM input>
converts a single or several files at once into the NIfTI data
format. The DICOM input can be specified as a single filename, a list of file
or a directory. In case of a directory all files in this directory will be
Images belonging to the same recording series will be appropriately merged into
a single 3d or 4d NIfTI file. To achieve this dinifti
number of time points and number of slices per volume from the DICOM header.
When this is impossible, dinifti
will issue a warning (i.e. when it can
find only 1 slice per volume and 1 time point). The user has the option of
running the program using the -s
option and specifying the number of
slices per volume.
A number of items are retrieved from the Siemens Shadow set. Following is a list
of items and default value if this is not Siemens.
- Number of groups: 1
- Number of channels: 1
- Sagital, Coronal and Transverse position: From DICOM
- NIfTI files will be compressed.
- -f [a2|n2|n1]
- Set the output file format. If set to a2 ANALYZE 7.5
file pairs (hdr/img) will be generates. Setting n2 will cause
dinifti to generate NIfTI image file pairs. The default output
format ( n1) are single NIfTI files (header and image data combined
in one file).
- If set dinifti appends the series description from
the DICOM header to the output file name(s).
- If two image series share a common description
dinifti will append as many characters as necessary to the
second series description to create a unique filename. In this case a
warning message is displayed that shows the old and the modified filename.
- Format output file name(s) according to <format>
string, which has to be enclosed in quotes (")
- The format is interpreted in the usual printf-like way.
Ordinary characters are directly copied, a percent sign is represented by
%%, otherwise % indicates a conversion. The special character
"/" is translated to "~" to avoid confusion
with the directory separator.
- If --name is present, -d flag will be ignored.
- %I Subject ID
- %N Subject name
- %S Relative series number
- %D Series description
- %Y Series date (YYYYMMDD)
- %T Series time (HHMM)
- %A Accession number
- %C Image comments
- Example: --name="%Y:%T- %A - %I
- -s #
- This option can be used to specify the number of slices in
the volume, if dinifti fails to autodetect the correct value.
- -v, --verbose
- Enables verbose status messages. If any warning message
occurs, this option can be helpful to determine which imageseries caused
- -n, --noact
- If set, dinifti performs all processing steps, but does not
write NIfTI files at the end. This can be useful to quickly inspect the
content of a DICOM directory (if ran together with --verbose).
- -h, --help
- Print this help page and exit.
- -V, --version
- Print the version number and exit.
is written by Valerio Luccio (email@example.com).
http://cbi.nyu.edu/mailman/listinfo/dinifti List email:
The software is released under the standard BSD license: