HDF  ^0`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-80:2018.08.09.16.23.00:9068:1 l[ Xtransformation0-filename../native_sections/nl1582.xfmh 0SNOD( transformation0-filedataCMNI Transform File %Wed Aug 8 17:46:24 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-YFmanJ3h/SSlice1582_padded_blur_9.xfm /tmp/slicenlreg_grad_nov2014.pl-YFmanJ3h/SSlice1582_padded_blur_0.0625_dxyz.mnc /tmp/slicenlreg_grad_nov2014.pl-YFmanJ3h/Tpm1582o_0.0625_dxyz.mnc ../native_sections/nl1582.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 = 0.926179707050323 0.0277888607233763 0 -0.301036149263382 -0.0263319201767445 0.928378999233246 0 -0.328121215105057 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = nl1582_grid_0.mnc; Xtransformation1-filename../mri_transforms/pm1582.xfm xtransformation1-filedata@MNI Transform File %Tue May 6 14:31:49 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-Px87MLys/Spm1582o_2.xfm /ltmp/lepagecl/histomri_slicenlreg.pl-Px87MLys/Spm1582o_2_blur.mnc /ltmp/lepagecl/histomri_slicenlreg.pl-Px87MLys/Tmri_1582_2_blur.mnc /home/lepagecl/scratch_mp/BIGBRAIN/pm3903//mri_transform/pm1582.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 = 0.998045444488525 -0.0625003501772881 0 -0.203559994697571 0.0625003501772881 0.998045444488525 0 -4.30884981155396 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm1582_grid_0.mnc; Xtransformation2-filename../nl_transforms/pm1582.xfm transformation2-filedata`MNI Transform File %Wed Apr 8 04:36:25 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-lSU9QQFP/Spm1582o_9.xfm /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-lSU9QQFP/Spm1582o_0.0625_dxyz.mnc /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-lSU9QQFP/Tavg_1582_0.0625_dxyz.mnc /home/lepagecl/BIGBRAIN/pm3903//nl_transform/new/pm1582.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 = 0.998207986354828 0.00317783374339342 0 0.0336385332047939 -8.10029450803995e-05 1.00351715087891 0 0.098079115152359 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm1582_grid_0.mnc; Xtransformation3-filename/tmp/flipyz-iSVuGi/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 18:58:57 2018>>> ../../tiff2mnc Region1sixlayers.tif Region1sixlayers.mnc [kwagstyl@ace-ws-80:/data1/users/kwagstyl/bigbrain/Slice_Verification/new_sections_03-18/Slice_1582/] [2018-08-08 17:51:38] /data1/users/kwagstyl/quarantines/Linux-x86_64/bin/autocrop -clobber -quiet -extend 10,10 10,10 0,0 Slice1582sixlayers.mnc Slice1582sixlayerspadded.mnc Wed Aug 8 17:54:15 2018>>> mincresample -quiet -clob -like ../native_sections/pm1582o.mnc -unsigned -byte -nearest_neighbour -transformation ../native_sections/nl1582.xfm Slice1582sixlayerspadded.mnc pm1582sixlayers.mnc Wed Aug 8 17:56:22 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm1582o.mnc -unsigned -byte -nearest_neighbour -transformation ../mri_transforms/pm1582.xfm pm1582sixlayers.mnc pm1582sixlayers_MRI.mnc Wed Aug 8 17:56:58 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm1582o.mnc -unsigned -byte -nearest_neighbour -transformation ../nl_transforms/pm1582.xfm pm1582sixlayers_MRI.mnc pm1582sixlayers_nl.mnc Thu Aug 9 16:22:39 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} pm1582sixlayers_nl.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1582/pm1582_nl_classifiedsixlayers.mnc Thu Aug 9 16:22:59 2018>>> mincresample -quiet -clob -unsigned -short -nearest -use_input_sampling -transform /tmp/flipyz-iSVuGi/flipyz.xfm -start -70.6666 -38.38 -58.7777 -nelements 6572 1 5711 -step 0.0211666666666666 0.02 0.0211666666666666 -range 0 65535 -keep_real_range /tmp/flipyz-iSVuGi/flip_in.mnc /tmp/flipyz-iSVuGi/flip_out.mnc Thu Aug 9 16:23:00 2018>>> mincresample -clob -nearest_neighbour -like /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1582/block_blocks/slice_blocks.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1582/tmp.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_1582/pm1582_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 4q= ף0C hdirection_cosines ?@4 4? (unitsmm 8 spacetype native____x l[ 0 length  8varidMINC standard variable 0vartypedimension____ 8versionMINC Version 1.0 X comments.Z increases from patient inferior to superior 0spacing regular__ 0 alignmentcentre 8step ?@4 4{Gz? 8start ?@4 4?߾VM hdirection_cosines ?@4 4? (unitsmm 8 spacetype native____p l[ 0 length  8varidMINC standard variable 0vartypedimension____ 8versionMINC Version 1.0 P comments'X increases from patient left to right 0spacing regular__ 0 alignmentcentre 8step ?@4 4{Gz? 8start ?@4 4yz,CQ hdirection_cosines ?@4 4? 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