This will nor reorient the data. The --out_orientation is only to be used when the input orientation is wrong and you want to fix it. Is this what you want to do?

doug

Fornito, Alexander wrote:

Hi, I'm trying to convert a series of siemens dicom mosaic format files to analyze format, while reorienting at the same time. Running the command below converts and reorients only the filename specified in the command line (which is the first file in the series), whereas leaving out the --out_orientation flag converts all the files in the series. Is it only possible to convert AND reorient one file at a time? Or is there something I'm missing that would allow me to convert and reorient all the files in the series with a single command? Thanks, Alex

mri_convert -it siemens_dicom 93663320 -ot analyze test_ --out_orientation LPS

Alex Fornito JN Peters Research Fellow Melbourne Neuropsychiatry Centre and Department of Psychology National Neuroscience Facility The University of Melbourne Levels 2 & 3, Alan Gilbert Building 161 Barry St Carlton South Vic 3053 Australia Ph: +61 3 8344 1861 Fax: +61 3 9348 0469 email: alexander.fornito@wh.org.au

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