Index

Name

mri_convert_mdh - Probes or converts Siemens propietary format (MDH) to MGH format

Synopsis

mri_convert_mdh --srcdir

Probes source directory, prints out MDH file parameters to stdout file

mri_convert_mdh --srcdir --outdir

Converts MDH file to MGH format

Arguments

Positional Arguments

dim nframes nslices nechoes nlines nperline npcns

fasterdim dimname

TR TR

TE TE1 TE2

Required Arguments

-srcdir dir

directory with meas.out and ascii file

contains k-space data in Siemens format

Description

Directory with the meas.out file and the ascii file. The meas.out file contains the measured k-space data in Siemens MDH format (which includes miniheaders). The meas.out file must be accompanied by an ascii file called either MrProt.asc or mrprot.asc (NUMARIS 4 VA15) or meas.asc (NUMARIS 4 VA21). The version is determined by the name of this file.

Optional Arguments

--outdir dir

directory where output stored

if this doesn't exist, it will be created

--rev

reverse readouts for even lines

DOES NOT WORK YET

--dump

print header info

provides header info for each line, but not for the ADC data itself. Only the source directory is needed

--adcstats

prints min, max, and avg over all ADCs

good for finding spikes. Only the source directory is needed

--help

a short story about a Spanish boy named Manual

Outputs

outdir dir

Directory where output will be stored-will be created if it does not already exist

stdout

MDH file parameters(Probe results)

pcnr.mgh

Phase correction navigators (real)

pcni.mgh

Phase correction navigators (imaginary)

echoNr

Echo (real) where N is the echo number (starting with 0)

echoNi.mgh

Echo (imaginary) where N is the echo number (starting with 0)

Description

If an output directory does not exist, it will be created (only for one level).

If an output directory is not specified, then the MDH file is probed, and the various parameters are printed to stdout.

When an output is specified, the output will have two parts: phase correction navigators and echos. The phase correction navigators will be stored in pcnr.mgh (real) and pcni.mgh (imaginary). The echos will be stored in echoNr.mgh (real) and echoNi.mgh (imaginary), where N is the echo number (starting with 0).

Examples

Example 1

Example 2

Bugs

Does not handle version V21 yet.
Does not handle 3D sequences yet.
Does not handle FLASH sequences yet.
Does not handle multiple channels yet.

--rev argument should reverse lines for even number echos, but does not do this yet.

See Also

Links

FreeSurfer, FsFast

Methods Description

References

Reporting Bugs

Report bugs to <analysis-bugs@nmr.mgh.harvard.edu>

Author/s

mri_convert_mdh (last edited 2008-04-29 11:45:51 by localhost)