HDF  D`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-80:2018.08.09.16.27.27:9646:1 l[ Xtransformation0-filename../native_sections/nl3380.xfmh 0SNOD( transformation0-filedataEMNI Transform File %Thu Aug 9 11:55:19 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-oItlRLMG/SSlice3380_padded_blur_9.xfm /tmp/slicenlreg_grad_nov2014.pl-oItlRLMG/SSlice3380_padded_blur_0.0625_dxyz.mnc /tmp/slicenlreg_grad_nov2014.pl-oItlRLMG/Tpm3380o_0.0625_dxyz.mnc ../native_sections/nl3380.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 = 0.997962594032288 0.00963094923645258 0 -0.608241856098175 -0.00767644494771957 0.999363541603088 0 -0.212573781609535 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = nl3380_grid_0.mnc; Xtransformation1-filename../mri_transforms/pm3380.xfm xtransformation1-filedata:MNI Transform File %Tue May 6 14:35:01 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-ssEfTyzw/Spm3380o_2.xfm /ltmp/lepagecl/histomri_slicenlreg.pl-ssEfTyzw/Spm3380o_2_blur.mnc /ltmp/lepagecl/histomri_slicenlreg.pl-ssEfTyzw/Tmri_3380_2_blur.mnc /home/lepagecl/scratch_mp/BIGBRAIN/pm3903//mri_transform/pm3380.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 = 0.999688744544983 0.0249482896178961 0 2.72761011123657 -0.0249482896178961 0.999688744544983 0 7.29833984375 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm3380_grid_0.mnc; Xtransformation2-filename../nl_transforms/pm3380.xfm transformation2-filedata]MNI Transform File %Wed Apr 8 04:55:41 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-b4JTbCRl/Spm3380o_9.xfm /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-b4JTbCRl/Spm3380o_0.0625_dxyz.mnc /ltmp/lepagecl/slicenlreg_grad_nov2014.pl-b4JTbCRl/Tavg_3380_0.0625_dxyz.mnc /home/lepagecl/BIGBRAIN/pm3903//nl_transform/new/pm3380.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 = 1.00003612041473 0.00187800102867186 0 0.163259267807007 -0.00113364052958786 1.00025737285614 0 0.119005762040615 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm3380_grid_0.mnc; Xtransformation3-filename/tmp/flipyz-xhhd_B/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 19:41:45 2018>>> minccalc -quiet -clob -unsigned -byte -expr A[0]+A[1] Region1sixlayers.mnc Region2sixlayers.mnc Slice3380sixlayers.mnc [kwagstyl@ace-ws-80:/data1/users/kwagstyl/bigbrain/Slice_Verification/new_sections_03-18/Slice_3380/] [2018-08-09 12:01:04] /data1/users/kwagstyl/quarantines/Linux-x86_64/bin/autocrop -clobber -quiet -extend 10,10 10,10 0,0 Slice3380sixlayers.mnc Slice3380sixlayerspadded.mnc Thu Aug 9 12:01:13 2018>>> mincresample -quiet -clob -like ../native_sections/pm3380o.mnc -unsigned -byte -nearest_neighbour -transformation ../native_sections/nl3380.xfm Slice3380sixlayerspadded.mnc pm3380sixlayers.mnc Thu Aug 9 12:03:35 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm3380o.mnc -unsigned -byte -nearest_neighbour -transformation ../mri_transforms/pm3380.xfm pm3380sixlayers.mnc pm3380sixlayers_MRI.mnc Thu Aug 9 12:04:19 2018>>> mincresample -quiet -clob -like ../aligned_dir/pm3380o.mnc -unsigned -byte -nearest_neighbour -transformation ../nl_transforms/pm3380.xfm pm3380sixlayers_MRI.mnc pm3380sixlayers_nl.mnc Thu Aug 9 16:27:03 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} pm3380sixlayers_nl.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_3380/pm3380_nl_classifiedsixlayers.mnc Thu Aug 9 16:27:26 2018>>> mincresample -quiet -clob -unsigned -short -nearest -use_input_sampling -transform /tmp/flipyz-xhhd_B/flipyz.xfm -start -70.6666 -2.42 -58.7777 -nelements 6572 1 5711 -step 0.0211666666666666 0.02 0.0211666666666666 -range 0 65535 -keep_real_range /tmp/flipyz-xhhd_B/flip_in.mnc /tmp/flipyz-xhhd_B/flip_out.mnc Thu Aug 9 16:27:26 2018>>> mincresample -clob -nearest_neighbour -like /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_3380/block_blocks/slice_blocks.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_3380/tmp.mnc /data1/users/kwagstyl/bigbrain/NeuralNetworks/TrainingData/new_sections_03-18/Slice_3380/pm3380_nl_classifiedsixlayers_aligned.mnc X/l[ 0 length  8varidMINC standard variable 0vartypedimension____SNODh5,1 8versionMINC Version 1.0 X comments/Y increases from patient posterior to anterior 0spacing regular__ 0 alignmentcentre 8step ?@4 4{Gz? 8start ?@4 4\(\ 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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