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Hi, It is not clear what is wrong here. What happens if you try it with a smaller number of inputs? And what happens if you copy the data initially from the external drive directly onto your Mac? The answers to these questions should help figure out what the problem is. All the best, Mark On 1 Sep 2014, at 04:08, Paul Beach <[log in to unmask]<mailto:[log in to unmask]>> wrote: Experts, I'm trying to run FEAT analysis on a personal machine with FSL installed and it looks like it pretty much just stops the whole process while doing registration on the first subject. I'm not getting any error message whatsoever in the html log so I'm pretty baffled as to what might be the problem. I believe FSL is installed completely. The only "odd" thing about how I'm doing things, I suppose, is that the data are all on an external HD, FAT32 formatted (copied from a linux server), while FSL is installed on my iMac (OSx v10.7.5). As per the installation page: bash-3.2$ echo $FSLDIR /usr/local/fsl bash-3.2$ flirt -version FLIRT version 6.0 I've attached my design file, in case that's helpful. On the html log this is what I see: Feat main script /bin/cp /Volumes/UNTITLED/DATA/FSL/SUBJECTS/design_files/FEAT_MAC/FEAT_MAC.fsf design.fsf /usr/local/fsl/bin/feat_model design mkdir .files;cp /usr/local/fsl/doc/fsl.css .files;ln -s /usr/local/fsl/doc/images .files/images /usr/local/fsl/bin/fsl_sub -T 10 -l logs -N feat0_init /usr/local/fsl/bin/feat /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/design.fsf -D /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat -I 1 -init 28614 /usr/local/fsl/bin/fsl_sub -T 60 -l logs -N feat1b_reg -j 28614 /usr/local/fsl/bin/feat /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/design.fsf -D /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat -I 1 -reg /usr/local/fsl/bin/mainfeatreg -F 6.00 -d /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat -l /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/logs/feat5_reg -R /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/report_unwarp.html -r /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/report_reg.html -i /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/example_func.nii.gz -n 10 -h /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/t1_LAS_brain -w BBR -x 180 -s /usr/local/fsl/data/standard/MNI152_T1_2mm_brain -y 12 -z 180 Option -F ( FEAT version parameter ) selected with argument "6.00" Option -d ( output directory ) selected with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat" Option -l ( logfile )input with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/logs/feat5_reg" Option -R ( html unwarping report ) selected with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/report_unwarp.html" Option -r ( html registration report ) selected with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/report_reg.html" Option -i ( main input ) input with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/example_func.nii.gz" Option -n ( use nonlinear reg ) input with argument "10" Option -h ( high-res structural image ) selected with argument "/Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/t1_LAS_brain" Option -w ( highres dof ) selected with argument "BBR" Option -x ( highres search ) selected with argument "180" Option -s ( standard image ) selected with argument "/usr/local/fsl/data/standard/MNI152_T1_2mm_brain" Option -y ( standard dof ) selected with argument "12" Option -z ( standard search ) selected with argument "180" ________________________________ Initialisation /usr/local/fsl/bin/fslmaths /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS prefiltered_func_data -odt float Total original volumes = 162 /usr/local/fsl/bin/fslroi prefiltered_func_data example_func 81 1 ________________________________ Registration /bin/mkdir -p /Volumes/UNTITLED/DATA/FSL/SUBJECTS/HS_001/RestState_1_FSL_LAS.feat/reg Thank you for your help -- Paul Beach DO/PhD candidate - Year VI Michigan State University - College of Osteopathic Medicine - Neuroscience Program - MSU Cognitive and Geriatric Neurology Team (CoGeNT) <FEAT_MAC.fsf>