Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Doug, Zeke, Thank you very much for your help. Best, Ismail On Jul 21, 2016, at 1:15 AM, zkauf...@nmr.mgh.harvard.edu wrote: Current versions of the Mac freesurfer binaries are not compatible with the v5.3 release. Too much has changed since then. If

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Current versions of the Mac freesurfer binaries are not compatible with the v5.3 release. Too much has changed since then. If you wanted to use the newest version on the code you will need to download the latest dev version of freesurfer from this page (see "Development Version"):

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

There was an obscure error having to do with the ascii header when unpacking skyra data on the mac, that might be it. Zeke, can you get Ismail a version of mri_convert appropriate for his OS? doug On 7/20/16 10:34 AM, Koubiyr, Ismail wrote: Hi Doug, I tried it on the cluster and it

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Hi Doug, I tried it on the cluster and it worked, which is weird because it was not working before … Any idea what might be the problem on my system ? Thanks again. Ismail On Jul 19, 2016, at 10:32 PM, Douglas Greve > wrote: I used

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

I used the same version, but I used it on linux. Do you have a linux box with FS installed that you can try it on? On 7/19/16 1:57 PM, Koubiyr, Ismail wrote: I used the same command line as you did. And when I check with mri_probedicom I can see the ASCII header. Here is the version of FS I

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

I used the same command line as you did. And when I check with mri_probedicom I can see the ASCII header. Here is the version of FS I am using : freesurfer-i386-apple-darwin11.4.2-stable5-20130514 Do you think it might be related ? Thanks again. Ismail On Jul 19, 2016, at 1:27 PM, Douglas N

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

What is your exact command line? The version of the file that you gave me definitely has an ascii header, and I don't get that warning when I convert. What version of FS are you using on what platform? To check whether that file has an ascii header, run mri_probedicom --i

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Hi Doug, That’s weird because I can’t convert it using only mri_convert, here is the error I get : WARNING: file /Users/ismailkoubiyr/Documents/PFE/Tracula/dti/3T2/MR.1.3.12.2.1107.5.2.19.45306.2014091812330393354083931 does not contain a Siemens ASCII header has this file been anonymized?

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

I was able to convert it fine with mri_convert MR.1.3.12.2.1107.5.2.19.45306.2014091812372179441003292 output.nii.gz If I included -it dicom, the conversion did not have an error, but the output had only one slice. Since these are mosaics, they need the Siemens ascii header which is ignored

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Hi Doug, It is still an issue. I uploaded the DICOMs to you. Hope it could be useful. Thanks. Ismail > On Jul 18, 2016, at 6:14 PM, Douglas N Greve > wrote: > > Is this still a problem? If so, can you upload the dicom files to our > file drop? > > On 07/05/2016

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Is this still a problem? If so, can you upload the dicom files to our file drop? On 07/05/2016 11:24 AM, Koubiyr, Ismail wrote: > The file has not been anonymized. > > Thanks, > > Ismail > >> On Jul 5, 2016, at 11:20 AM, Douglas N Greve >> wrote: >> >> can you answer

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Hi, This is a repost. Would anyone have a solution to this problem ? Thanks for your help. Best, Ismail > On Jul 5, 2016, at 11:24 AM, Koubiyr, Ismail wrote: > > The file has not been anonymized. > > Thanks, > > Ismail > >> On Jul 5, 2016, at 11:20 AM, Douglas N

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

can you answer the question that it asks? On 07/05/2016 10:52 AM, Koubiyr, Ismail wrote: > Hi everyone, > > I’m having some issues converting my DICOMs (DWI) into NIFTI using > mri_convert. I looked for other topics with people having the same > kind of problem but couldn’t find an answer. > >

Re: [Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

The file has not been anonymized. Thanks, Ismail > On Jul 5, 2016, at 11:20 AM, Douglas N Greve > wrote: > > can you answer the question that it asks? > > On 07/05/2016 10:52 AM, Koubiyr, Ismail wrote: >> Hi everyone, >> >> I’m having some issues converting my

[Freesurfer] mri_convert : ERROR: cannot unpack mosiacs without ASCII header

Hi everyone, I’m having some issues converting my DICOMs (DWI) into NIFTI using mri_convert. I looked for other topics with people having the same kind of problem but couldn’t find an answer. Each time I run mri_convert on my DICOMs I get the following error : WARNING: file