minctoecat(1)minctoecat(1)NAME
minctecat - convert a minc format file to an Ecat7 format file
SYNOPSISminctoecat [<options>] <infile.mnc> <outfile.v>
minctoecat [-help]
DESCRIPTIONminctoecat will convert a 2D image, a 3D volumes or a 4D dynamic vol‐
umes 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 scan‐
ners (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 num‐
ber 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 con‐
version 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).
OPTIONS
Note that options can be specified in abbreviated form (as long as they
are unique) and can be given anywhere on the command line.
Command specific options
-ignore_patient_variable: Ignore information from the minc patient
variable (MIpatient).
-ignore_study_variable: Ignore information from the minc study variable
(MIstudy).
-ignore_acquisition_variable: Ignore information from the minc acquisi‐
tion 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-main‐
header 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 data.
-label: Treats voxel as integer values instead of floating point val‐
ues. 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.
General options
-help: Print summary of command-line options and abort
-version: Print the program's version and abort
KNOWN BUGS
No bug listed so far :=)
SEE ALSOecattominc(1), rawtominc(1), minctoraw(1), dicomtominc(1)AUTHOR
Anthonin Reilhac (anthonin.reilhac@cermep.fr)
COPYRIGHTS
Copyrights 2005 by Anthonin Reilhac
minctoecat(1)
