Progress Report / Log Started at Fri Mar 25 15:09:21 CET 2022 Feat main script /bin/cp /tmp/feat_8yjdaeho.fsf design.fsf /usr/local/fsl/bin/feat_model design mkdir .files;cp /usr/local/fsl/doc/fsl.css .files;cp -r /usr/local/fsl/doc/images .files/images /usr/local/fsl/bin/fsl_sub -T 60 -l logs -N feat2_pre /usr/local/fsl/bin/feat /mnt/c/Users/rubin/output_A0123061/higher-level.gfeat/design.fsf -D /mnt/c/Users/rubin/output_A0123061/higher-level.gfeat -gfeatprep 16897 /usr/local/fsl/bin/fsl_sub -T 60 -l logs -N feat3a_flame -j 16897 /usr/local/fsl/bin/feat /mnt/c/Users/rubin/output_A0123061/higher-level.gfeat/cope1.feat/design.fsf -D /mnt/c/Users/rubin/output_A0123061/higher-level.gfeat/cope1.feat -I 1 -flame1 23682 /usr/local/fsl/bin/fsl_sub -T 60 -l logs -N feat3b_flame -j 23682 -t ./.flame 23899 /usr/local/fsl/bin/fsl_sub -T 60 -l logs -N feat3c_flame -j 23899 /usr/local/fsl/bin/feat /mnt/c/Users/rubin/output_A0123061/higher-level.gfeat/cope1.feat/design.fsf -D 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/usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope6 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_6dwnxo5a -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope7 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_98olr9op -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope8 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_d8kqe3zu -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope1 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_u2p9des0 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope2 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_7kfusp_e -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope3 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_2kdan9qd -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope4 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_f1_aa_lr -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope5 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_dkud5_bd -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope6 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_ct4_p92a -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope7 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_3y4krpfg -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope8 -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_qtqu7sg4 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in mask -out /mnt/c/Users/rubin/output_A0123061/run-1.feat/frgrot_m6bq3gsh -applyxfm -init reg/example_func2standard.mat -interp nearestneighbour -datatype char /usr/local/fsl/bin/featregapply /mnt/c/Users/rubin/output_A0123061/run-2.feat /usr/local/fsl/bin/flirt -ref reg/standard -in example_func -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_po2nw225 -applyxfm -init reg/example_func2standard.mat -interp spline -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in mean_func -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_dyw6tf9y -applyxfm -init 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/mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_smpgik12 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope6 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_oacpf3m0 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope7 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_4p64w3o7 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope8 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_fg6c884j -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope1 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_5aqtp70d -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref 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-datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope7 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_pvqf3vka -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope8 -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_tc4zzx2w -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in mask -out /mnt/c/Users/rubin/output_A0123061/run-2.feat/frgrot_0de6aqbb -applyxfm -init reg/example_func2standard.mat -interp nearestneighbour -datatype char /usr/local/fsl/bin/featregapply /mnt/c/Users/rubin/output_A0123061/run-3.feat /usr/local/fsl/bin/flirt -ref reg/standard -in example_func -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_en0j4vsm -applyxfm -init reg/example_func2standard.mat -interp spline -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in mean_func -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_chd2dxrg -applyxfm -init reg/example_func2standard.mat -interp spline -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope1 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_47nur1pc -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope2 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_a2_m3jb1 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope3 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_iugnmeo0 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope4 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_tin5zpoq -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope5 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_7_wmdrhg -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope6 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_wjonemsz -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope7 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_os9xifwo -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/cope8 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_u9f5c4lc -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope1 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot__bxy35n0 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope2 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot__2z_vbkt -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope3 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_lbz6123_ -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope4 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_p0w_4tog -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope5 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_qaa0rbsz -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope6 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_1cvnv6a3 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope7 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_ubqhq04p -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in stats/varcope8 -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_6k0qasp8 -applyxfm -init reg/example_func2standard.mat -interp trilinear -datatype float /usr/local/fsl/bin/flirt -ref reg/standard -in mask -out /mnt/c/Users/rubin/output_A0123061/run-3.feat/frgrot_bmlhpw72 -applyxfm -init reg/example_func2standard.mat -interp nearestneighbour -datatype char /usr/local/fsl/bin/fslmaths /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg/standard bg_image /usr/local/fsl/bin/fslmerge -t mask /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/mask /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/mask /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/mask WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! mkdir -p inputreg /usr/local/fsl/bin/fslmaths ../mask -mul 3 -Tmean masksum -odt short /usr/local/fsl/bin/fslmaths masksum -thr 3 -add masksum masksum /usr/local/fsl/bin/overlay 0 0 -c ../bg_image -a masksum 0.9 6 masksum_overlay /usr/local/fsl/bin/slicer masksum_overlay -S 2 750 masksum_overlay.png /usr/local/fsl/bin/fslmaths masksum -mul 0 maskunique /usr/local/fsl/bin/fslmaths /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/mask -mul -1 -add 1 -mul 1 -add maskunique maskunique /usr/local/fsl/bin/fslmaths /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/mask -mul -1 -add 1 -mul 2 -add maskunique maskunique WARNING:: Inconsistent orientations for individual images in pipeline! Will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/mask -mul -1 -add 1 -mul 3 -add maskunique maskunique WARNING:: Inconsistent orientations for individual images in pipeline! Will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths masksum -thr 2 -uthr 2 -bin -mul maskunique maskunique WARNING:: Inconsistent orientations for individual images in pipeline! Will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/overlay 0 0 ../bg_image -a maskunique 0.9 3 maskunique_overlay /usr/local/fsl/bin/slicer maskunique_overlay -S 2 750 maskunique_overlay.png /bin/cp /usr/local/fsl/etc/luts/ramp.gif .ramp.gif /usr/local/fsl/bin/fslmaths mask -Tmin mask /usr/local/fsl/bin/fslmerge -t mean_func /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/mean_func /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/mean_func /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/mean_func WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths mean_func -Tmean mean_func /usr/local/fsl/bin/fslmerge -t cope1 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope1 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope1 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope1 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope1 -mas mask cope1 printf '1.09872766667 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope1 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope1 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope1 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope1 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope1 -mas mask varcope1 /usr/local/fsl/bin/fslmerge -t cope2 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope2 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope2 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope2 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope2 -mas mask cope2 printf '1.09872766667 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope2 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope2 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope2 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope2 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope2 -mas mask varcope2 /usr/local/fsl/bin/fslmerge -t cope3 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope3 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope3 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope3 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope3 -mas mask cope3 printf '1.16853666667 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope3 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope3 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope3 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope3 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope3 -mas mask varcope3 /usr/local/fsl/bin/fslmerge -t cope4 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope4 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope4 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope4 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope4 -mas mask cope4 printf '1.09654033333 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope4 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope4 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope4 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope4 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope4 -mas mask varcope4 /usr/local/fsl/bin/fslmerge -t cope5 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope5 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope5 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope5 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope5 -mas mask cope5 printf '1.24128133333 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope5 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope5 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope5 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope5 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope5 -mas mask varcope5 /usr/local/fsl/bin/fslmerge -t cope6 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope6 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope6 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope6 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope6 -mas mask cope6 printf '1.22834733333 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope6 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope6 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope6 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope6 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope6 -mas mask varcope6 /usr/local/fsl/bin/fslmerge -t cope7 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope7 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope7 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope7 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope7 -mas mask cope7 printf '1.23923433333 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope7 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope7 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope7 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope7 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope7 -mas mask varcope7 /usr/local/fsl/bin/fslmerge -t cope8 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/cope8 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/cope8 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/cope8 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths cope8 -mas mask cope8 printf '1.23923433333 ' >> design.lcon /usr/local/fsl/bin/fslmerge -t varcope8 /mnt/c/Users/rubin/output_A0123061/run-1.feat/reg_standard/stats/varcope8 /mnt/c/Users/rubin/output_A0123061/run-2.feat/reg_standard/stats/varcope8 /mnt/c/Users/rubin/output_A0123061/run-3.feat/reg_standard/stats/varcope8 WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! WARNING:: Inconsistent orientations for individual images when attempting to merge. Merge will use voxel-based orientation which is probably incorrect - *PLEASE CHECK*! /usr/local/fsl/bin/fslmaths varcope8 -mas mask varcope8