Hi Akshay is you send us that file we'll take a look.
cheers Bruce On Tue, 7 May 2013, Akshay wrote: > Hi All, > > I am re-posting this question since there was no response to my previous > attempt. > > I have a problem conforming certain nifti files, the following is the > log when i try to convert them, > > reading from > /home/akshay/ADNI/137_S_1041/MIDAS_Whole_Brain_Mask/2006-11-09_09_35_11.0/S22310/ADNI_137_S_1041_MR_MIDAS_Whole_Brain_Mask_Br_20120723235935683_S22310_I317755.nii... > INFO: using NIfTI-1 qform > TR=0.00, TE=0.00, TI=0.00, flip angle=0.00 > i_ras = (0, -4.99113e-10, -1) > j_ras = (-4.99113e-10, -1, 4.99113e-10) > k_ras = (-1, 4.99113e-10, 0) > WARNING > ==================++++++++++++++++++++++++======================================= > The physical sizes are (281.25 mm, 280.14 mm, 216.72 mm), which cannot > fit in 256^3 mm^3 volume. > The resulting volume will have 282 slices. > If you find problems, please let us know (freesurfer@nmr.mgh.harvard.edu). > ==================================================++++++++++++++++++++++++=============== > > Original Data has (1.09862, 1.09429, 1.20399) mm size and (256, 256, > 180) voxels. > Data is conformed to 1 mm size and 282 voxels for all directions > Reslicing using nearest > > > This is understood, however I want them to be conformed to 256^3 mm. If > I use -cs 256 flag, it does resample the image to 256^3mm but the image > is blank. > > Is there something wrong I am doing? How do I conform these files to 256^3mm? > > Any help will be greatly appreciated. > > Best, > > Akshay > > > _______________________________________________ > 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 The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
