External Email - Use Caution Hello
I think there is a problem with the dicom files. I could not see it on the images before mri_convert -conform but there’s definitely something weird in there. I suspect it comes from some software that misexported the data. Running reconall on properly imported dicom data show not problem at all… Never mind then! Best Antonin Hôpital Erasme - ULB Cliniques universitaires de Bruxelles Route de Lennik 808 - B - 1070 Bruxelles S www.erasme.ulb.ac.be Disclaimer : http://www.erasme.ulb.ac.be/email-disclaimer > On 3 Sep 2019, at 16:57, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: > > hmmm. Can you tar and gzip the whole subject dir and upload it to our ftp > site? > On Tue, 3 Sep 2019, Rovai Antonin wrote: > >> External Email - Use Caution >> >> Hey >> >> So opening only the conformed image in freeview, mricro and fsleyes >> constantly gives me crazy results. Also, the wm segmentation is completely >> wrong so I really think there something wrong in the file…. >> >> Best >> >> Antonin >> >> Hôpital Erasme - ULB >> Cliniques universitaires de Bruxelles >> Route de Lennik 808 - B - 1070 Bruxelles >> S www.erasme.ulb.ac.be >> >> Disclaimer : http://www.erasme.ulb.ac.be/email-disclaimer >> >>> On 3 Sep 2019, at 15:55, Bruce Fischl <fis...@nmr.mgh.harvard.edu> wrote: >>> >>> Hi Antonin >>> >>> hmmm. Can you try *only* loading the conformed image and seeing how it >>> looks? freeview will use one of the images as the basis for it's display >>> coordinates, which can cause apparent slicing artifacts that are only >>> display issues for other volumes. >>> >>> cheers >>> Bruce >>> >>> On Tue, 3 Sep 2019, Rovai Antonin wrote: >>> >>>> External Email - Use Caution >>>> Hello again >>>> I have the following issue when running mri_convert. When using the option >>>> -conform option (as in the reconall pipeline), the sag slices seems to be >>>> shifted at some point (see attached pictures). What is happening? >>>> By the way the option description is not super clear, could you please give >>>> some extra details? >>>> Best >>>> Antonin >>>> [IMAGE][IMAGE] >>>> Hôpital Erasme >>>> Lien vers Disclaimer >>> _______________________________________________ >>> Freesurfer mailing list >>> Freesurfer@nmr.mgh.harvard.edu >>> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> >> _______________________________________________ >> Freesurfer mailing list >> Freesurfer@nmr.mgh.harvard.edu >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
