minctecat - convert a minc format file to an Ecat7 format file
minctoecat [<options>] <infile.mnc> <outfile.v>
will convert a 2D image, a 3D volumes or a 4D dynamic volumes
written in minc file format to a 2D, 3D or 4D Ecat7 file. Whereas the Ecat7
format has been designed for PET volume issued by Ecat scanners (CTI/SIEMENS -
Knoxville, TN, USA) it reads any minc volume type (static PET, dynamic PET,
aMRI, fMRI, labels) natively delivered by any tomograph brand and transform it
to a viable Ecat7 file in term of number of dimensions, dimension size,
dimension step, orientation, spatial position, voxel values and voxel unit.
Furthermore, it tries the best as it can to fill optional Ecat7 header fields
from the available minc variables and attributes. By default, it extracts
these additional information from common minc variables, namely:
patient_variable, study_variable, acquisition_variable. In the case of volumes
originally delivered by an Ecat PET scanners, then, other variable are
generally available within the minc header: ecat_acquisition_variable,
ecat_main and ecat_sub-header_variable. There, for a such minc volume, the
conversion yields a Ecat7 volume almost identical to the original native
volume in terms of header fields. The user can alter this behaviour using the
ignore-list options (see the option section).
Note that options can be specified in abbreviated form (as long as they are
unique) and can be given anywhere on the command line.
- -ignore_patient_variable: Ignore information from the minc patient
- -ignore_study_variable: Ignore information from the minc study
- -ignore_acquisition_variable: Ignore information from the minc
acquisition variable (MIacquisition).
- -ignore_ecat_accquisition_variable: Ignore information from the
minc ecat acquisition variable (MIecat_acquisition).
- -ignore_ecat_main_variable: Ignore information from the minc
ecat-mainheader variable (MIecat-main).
- -ignore_ecat_subheader_variable: Ignore information from the minc
ecat-subheader variable (MIecat-subheader).
- -no_decay_corr_fctr: do not regenerate the decay correction factors
employed as part as the reconstruction of the original PET volume. The
correction factors is a field in the ecat sub-headers which can be used by
processing programs. By default, if the volume is a PET volume ,those
factors are regenerated. This option has no interest in the case of non PET
- -label: Treats voxel as integer values instead of floating point
values. In this case, the scale factors and the calibration factors are both
set to unity. This option is particularly useful when the input minc files
is a volume of labels.
- -help: Print summary of command-line options and abort
- -version: Print the program's version and abort
No bug listed so far :=)
ecattominc(1), rawtominc(1), minctoraw(1), dicomtominc(1)
Anthonin Reilhac (firstname.lastname@example.org)
Copyrights 2005 by Anthonin Reilhac