Man Linux: Main Page and Category List


       minctecat - convert a minc format file to an Ecat7 format file


       minctoecat [<options>] <infile.mnc> <outfile.v>

       minctoecat [-help]


       minctoecat  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.

Command specific options

       -ignore_patient_variable: Ignore  information  from  the  minc  patient
       variable (MIpatient).

       -ignore_study_variable: Ignore information from the minc study variable

       -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 data.

       -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.

General options

       -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 (


       Copyrights 2005 by Anthonin Reilhac