HDF  )`TREEHEAPXminc-2.0@pTREE HEAPX(dimensionsinfoimage0SNOD HhPp TREE-HEAPX yspacezspacexspace8SNOD(Pp 80 X x X x TREE@HEAPX processing@8TREEpHEAPXX0HTREE9HEAPX0image-maximage-minimage(SNOD# Pident.kwagstyl:ace-ws-80:2018.08.09.16.25.33:9206:1 ?l[ Xtransformation0-filename../native_sections/nl1600.xfm` 0SNOD( xtransformation0-filedata?MNI Transform File %Wed Aug 8 18:08:02 2018>>> minctracc -clobber -nonlinear corrcoeff -stiffness 1 -similarity 0.01 -iterations 5 -weight 0.9 -step 0.0625 0.0625 1 -sub_lattice 5 -lattice_diam 0.1875 0.1875 1 -transformation /tmp/slicenlreg_grad_nov2014.pl-bTAe99fR/SSlice1600_padded_blur_9.xfm /tmp/slicenlreg_grad_nov2014.pl-bTAe99fR/SSlice1600_padded_blur_0.0625_dxyz.mnc /tmp/slicenlreg_grad_nov2014.pl-bTAe99fR/Tpm1600o_0.0625_dxyz.mnc ../native_sections/nl1600.xfm %(Package mni_autoreg 0.99.7, compiled by @ace-ws-35 (x86_64-unknown-linux-gnu) on Wed Oct 28 15:41:21 EDT 2015) Transform_Type = Linear; Linear_Transform = 1.00760245323181 0.162078097462654 0 -0.743643522262573 -0.160281643271446 1.00784230232239 0 0.0919245854020119 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = nl1600_grid_0.mnc; Xtransformation1-filename../mri_transforms/pm1600.xfm xtransformation1-filedata>MNI Transform File %Tue May 6 14:31:53 2014>>> minctracc -clobber -nonlinear corrcoeff -stiffness 1 -similarity 0.05 -iterations 25 -weight 0.2 -step 4 4 1 -sub_lattice 10 -lattice_diam 10 10 1 -transformation /ltmp/lepagecl/histomri_slicenlreg.pl-F8Rfsirn/Spm1600o_2.xfm /ltmp/lepagecl/histomri_slicenlreg.pl-F8Rfsirn/Spm1600o_2_blur.mnc /ltmp/lepagecl/histomri_slicenlreg.pl-F8Rfsirn/Tmri_1600_2_blur.mnc /home/lepagecl/scratch_mp/BIGBRAIN/pm3903//mri_transform/pm1600.xfm %(Package mni_autoreg 0.99.6, compiled by @ip03 (x86_64-unknown-linux-gnu) on Thu Jul 8 17:19:09 EDT 2010) Transform_Type = Linear; Linear_Transform = 0.996847987174988 -0.079335480928421 0 -0.856360018253326 0.079335480928421 0.996847987174988 0 -3.83877992630005 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm1600_grid_0.mnc; Xtransformation2-filename../nl_transforms/pm1600.xfm transformation2-filedata_MNI Transform File %Wed Apr 8 04:36:39 2015>>> minctracc -clobber -nonlinear corrcoeff -stiffness 1 -similarity 0.01 -iterations 5 -weight 0.9 -step 0.0625 0.0625 1 -sub_lattice 5 -lattice_diam 0.1875 0.1875 1 -transformation /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-lr0blQcw/Spm1600o_9.xfm /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-lr0blQcw/Spm1600o_0.0625_dxyz.mnc /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-lr0blQcw/Tavg_1600_0.0625_dxyz.mnc /home/lepagecl/BIGBRAIN/pm3903//nl_transform/new/pm1600.xfm %(Package mni_autoreg 0.99.6, compiled by @ip03 (x86_64-unknown-linux-gnu) on Thu Jul 8 17:19:09 EDT 2010) Transform_Type = Linear; Linear_Transform = 0.999552071094513 0.00233337236568332 0 0.0837400257587433 0.000378548400476575 0.9965580701828 0 0.0621934607625008 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm1600_grid_0.mnc; Xtransformation3-filename/tmp/flipyz-cgjzwl/flipyz.xfm transformation3-filedata\MNI Transform File Transform_Type = Linear; Linear_Transform = 1 0 0 0 0 0 1 0 0 1 0 0; Hh historyTue Aug 7 19:20:26 2018>>> ../../tiff2mnc Region1sixlayers.tif Region1sixlayers.mnc [kwagstyl@ace-ws-80:/data1/users/kwagstyl/bigbrain/Slice_Verification/new_sections_03-18/Slice_1600/] [2018-08-08 18:13:05] /data1/users/kwagstyl/quarantines/Linux-x86_64/bin/autocrop -clobber -quiet -extend 10,10 10,10 0,0 Slice1600sixlayers.mnc Slice1600sixlayerspadded.mnc Wed Aug 8 18:15:14 2018>>> mincresample -quiet -clob -like ../native_sections/pm1600o.mnc -unsigned -byte -nearest_neighbour -transformation ../native_sections/nl1600.xfm Slice1600sixlayerspadded.mnc pm1600sixlayers.mnc Wed Aug 8 18:17:16 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm1600o.mnc -unsigned -byte -nearest_neighbour -transformation ../mri_transforms/pm1600.xfm pm1600sixlayers.mnc pm1600sixlayers_MRI.mnc Wed Aug 8 18:17:59 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm1600o.mnc -unsigned -byte -nearest_neighbour -transformation ../nl_transforms/pm1600.xfm pm1600sixlayers_MRI.mnc pm1600sixlayers_nl.mnc Thu Aug 9 16:25:16 2018>>> minccalc -clobber -short -quiet -expression if(abs(A[0]-11051)<50) {1} else if(abs(A[0]-21845)<50) {2} else if(abs(A[0]-32896)<0.5) {3} else if(abs(A[0]-43947)<1000) {4} else if(abs(A[0]-54741)<50) {5} else if(abs(A[0]-65535)<50) {6} else {0} pm1600sixlayers_nl.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1600/pm1600_nl_classifiedsixlayers.mnc Thu Aug 9 16:25:32 2018>>> mincresample -quiet -clob -unsigned -short -nearest -use_input_sampling -transform /tmp/flipyz-cgjzwl/flipyz.xfm -start -70.6666 -38.02 -58.7777 -nelements 6572 1 5711 -step 0.0211666666666666 0.02 0.0211666666666666 -range 0 65535 -keep_real_range /tmp/flipyz-cgjzwl/flip_in.mnc /tmp/flipyz-cgjzwl/flip_out.mnc Thu Aug 9 16:25:33 2018>>> mincresample -clob -nearest_neighbour -like /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1600/block_blocks/slice_blocks.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1600/tmp.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1600/pm1600_nl_classifiedsixlayers_aligned.mnc /?l[ 0 length  8varidMINC standard variable 0vartypedimension____SNOD 5,1 8versionMINC Version 1.0 X comments/Y increases from patient posterior to anterior 0spacing regular__ 0 alignmentcentre 8step ?@4 4{Gz? 8start ?@4 4(\C hdirection_cosines ?@4 4? 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