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Thanks, I will do that and report back if there are any issues. Chris On Fri, Jan 11, 2019 at 10:47 AM Matthew Webster < [log in to unmask]> wrote: > Hi, > This is an issue with the new version of fslroi and scaled integer > images - the tool is preserving the datatype and so overflowing when > scaling is applied. As an interim fix, converting to float ( e.g using > fslmaths ) will prevent overflows and fslroi will revert to its old > behaviour in 6.0.1. > > Hope this helps, > Kind Regards > Matthew > -------------------------------- > Dr Matthew Webster > FMRIB Centre > John Radcliffe Hospital > University of Oxford > > On 7 Jan 2019, at 20:26, Chris Watson <[log in to unmask]> wrote: > > Yes, I uploaded the file as "watson_dwi_orig.nii.gz". I also uploaded > b0_fsl5 and b0_fsl6 > > The command line call was simply: > > fslroi dwi_orig b0_fsl6 0 1 > > Thanks, > Chris > > On Mon, Jan 7, 2019 at 6:54 AM Matthew Webster < > [log in to unmask]> wrote: > >> Hi, >> Can you upload your original input file to >> https://oxfile.ox.ac.uk/oxfile/work/extBox?id=700839B35190E48BF so we >> can have a look at it? Also can you let me know the exact fslroi command >> line call? >> >> Kind Regards >> Matthew >> -------------------------------- >> Dr Matthew Webster >> FMRIB Centre >> John Radcliffe Hospital >> University of Oxford >> -------------------------------- >> Dr Matthew Webster >> FMRIB Centre >> John Radcliffe Hospital >> University of Oxford >> >> On 5 Jan 2019, at 20:48, Chris Watson <[log in to unmask]> wrote: >> >> Hi, I have some Philips 3T (Intera) diffusion images for which I am using >> "fslroi" to get the b0 image. I see different behavior in FSL6 compared to >> FSL5.0.9: >> >> 1) the output datatype is different. The DWI volume is INT16, and >> "fslroi" returns INT16 (FSL6) or FLOAT32 (FSL5). >> 2) the voxel value ranges are drastically different: >> >> $ fslstats dwi_orig -r >> 0.000000 65674.257812 >> >> $ fslstats b0_fsl6 -r >> -28676.478516 28226.824219 >> >> $ fslstats b0_fsl5 -r >> 0.000000 173521.359375 >> >> I did the same thing, extracting the first volume of a 4D resting-state >> fMRI series, but the output was (nearly) identical. >> >> I can't figure out what the issue is. This is on CentOS 7.4.1708; GCC >> 5.4.0; openblas 0.3.4 >> I am happy to provide any other information. >> Chris >> >> ------------------------------ >> >> To unsubscribe from the FSL list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 >> >> >> >> ------------------------------ >> >> To unsubscribe from the FSL list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 >> > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > > > > ------------------------------ > > To unsubscribe from the FSL list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1 > ######################################################################## To unsubscribe from the FSL list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=FSL&A=1