Hello, It might be worth trying the latest version of oxford_asl available at: https://github.com/ibme-qubic/oxford_asl/releases Hope this helps, Kind Regards Matthew -------------------------------- Dr Matthew Webster FMRIB Centre John Radcliffe Hospital University of Oxford On 2 Nov 2018, at 12:46, Jordi Kleinloog <[log in to unmask]<mailto:[log in to unmask]>> wrote: Dear Experts, I recently updated FSL to version 6.0, but have run in to a problem with oxford_asl which I am not able to solve. With FSL version 5.0 I could run the following command without any problems: oxford_asl -i [diffdata] -o [output_directory] -m [stuc_mask_als_res] -c [M0_image] --tis [TIS] --bolus [bolus_duration] --bat [bat] --t1 [T1] --t1b [T1b] --regfrom [Pcasl_tc_mean_brain] --alpha [alpha] --casl --cmethod=voxel --fixbolus --tr [TR] --te [TE] --cgain 10 However, using the new FSL version 6.0 I get the error message which is displayed at the end of this message. Even if I simplify the command by only analysis of the diffdata without calibration and registrations I still get the same error. So I assume the problem is within the analysis part, but I don't know why the error arises in this FSL version. I am sure that all images I use are in the same orientation. It almost seem that this version cannot cope with my ASL data. Could someone please elaborate the problem and perhaps has a solution? Thanks in advance. Best regards, Jordi Kleinloog PhD candidate Maastricht university Welcome to FABBER v2.0 Logfile started: /tmp/fsl_DEYlaR_ox_asl/basil/step1/logfile Start time: Fri Nov 2 13:33:59 2018 FABBER release v2.0 Forward Model version: $Id: fwdmodel_asl_grase.cc<http://fwdmodel_asl_grase.cc>,v 1.22 2013/09/04 15:13:00 chappell Exp $ Loading mask data from '/tmp/fsl_DEYlaR_ox_asl/mask' Loading data from 'analysis_tgse_pcasl_high_gain/Pcasl_diffdata' error: subview::diag(): requested diagonal out of bounds (many times!) error: copy into submatrix: incompatible matrix dimensions: 10x1 and 13x1 STL exception caught in fabber: copy into submatrix: incompatible matrix dimensions: 10x1 and 13x1 Logfile was: /tmp/fsl_utDfkY_ox_asl/basil/step1/logfile Could not find a supported file with prefix "/tmp/fsl_utDfkY_ox_asl/basil/step1/finalMVN" ######################################################################## 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