On Thu, Jul 25, 2013 at 7:59 AM, Bruce Fischl <fischl@nmr.mgh.harvard.edu> wrote:

Hi Pom

are these the dicoms straight off your Philips scanner? We don't have a ton of experience with philips. Maybe you could use something else to convert them to NIFTI, like MRIcron, then pass them to us?

cheers
Bruce

On Thu, 25 Jul 2013, Pom Sailasuta wrote:

Hello,

I am resending this post since there is no reply for 2 days, I really
appreciate your help.

thanks so much.

I have several errors using mri_convert to convert 3T Philips T1-wt, DTI and
fMRI images. The last one on T1-wt images tells me to send email to
freesurfer, so here is the error messages:

[pom@PomLinux /home/pom]% !mri
mri_convert -it dicom -i IM_0001 -ot mgz -o 001.mgz
mri_convert -it dicom -i IM_0001 -ot mgz -o 001.mgz
$Id: mri_convert.c,v 1.179.2.2 2011/05/16 20:53:47 greve Exp $
reading from IM_0001...
Starting DICOMRead2()
dcmfile =
/home/pom/Software/freesurfer/subjects/S009002A/mri/orig/orig2/IM_0001
dcmdir = /home/pom/Software/freesurfer/subjects/S009002A/mri/orig/orig2
WARNING: tag image orientation not found
Ref Series No = 2
ERROR: bits = 8 not supported.
Send email to freesurfer@nmr.mgh.harvard.edu

for DTI images, here is the errors:

MRIalloc(0, 0, 1855): bad parm
[pom@PomLinux /home/pom]% mri_convert -it dicom -i IM_0001 -ot mgz -o
001.mgz
mri_convert -it dicom -i IM_0001 -ot mgz -o 001.mgz
$Id: mri_convert.c,v 1.179.2.2 2011/05/16 20:53:47 greve Exp $
reading from IM_0001...
Starting DICOMRead2()
dcmfile = /home/pom/Software/freesurfer/subjects/S009002A/mri/orig/IM_0001
dcmdir = /home/pom/Software/freesurfer/subjects/S009002A/mri/orig
Ref Series No = 501
Found 1874 files, checking for dicoms
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag SeriesNumber not found
WARNING: tag image orientation not found
Found 1855 dicom files in series.
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag image orientation not found
WARNING: tag SeriesNumber not found
WARNING: tag image orientation not found
First Sorting
Computing Slice Direction
Vs: -117.09 -112.869 17.456
Vs: -0.715854 -0.690047 0.106721
Second Sorting
Counting frames
nframes = 1
nslices = 1855
ndcmfiles = 1855
MRIalloc(0, 0, 1855): bad parm
ERROR: mri alloc failed

I would greatly appreciate any help.

--
Pom

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