HDF  X`TREEHEAPXminc-2.0@pTREE HEAPX(dimensionsinfoimage0SNOD Pp TREEp8HEAPX yspacexspacezspace8SNOD( 0 X x TREE@HEAPX processing@8TREEpHEAPXX0HTREEDHEAPX0image-minimage-maximage(SNODL Pident+claude:bigbrain:2012.08.08.00.01.04:7005:1 !P `transformation0-filename'/tmp/align_occipital.pl-Jio5/part1.xfm(SNOD( transformation0-filedataMNI Transform File %Wed Jan 13 18:29:21 2010>>> minctracc -clobber -xcorr -lsq6 -step 0.125 0.125 0 -simplex 1 -tol 0.004 -w_translations 1 1 0 -w_rotations 0.0 0.0 0.0174533 -w_scales 0.02 0.02 0.0 -transformation /tmp/bestlinreg_small.pl-AUO48kfe/Spm0001o_3.xfm /tmp/bestlinreg_small.pl-AUO48kfe/Spm0001o_0.25_blur.mnc /tmp/bestlinreg_small.pl-AUO48kfe/Tpm0002z_0.25_blur.mnc /tmp/align_occipital.pl-Jio5/part1.xfm %(Package mni_autoreg 0.99.6, compiled by @bigbrain (x86_64-unknown-linux-gnu) on Fri Nov 20 22:26:11 EST 2009) Transform_Type = Linear; Linear_Transform = 0.994658172130585 -0.103223450481892 0 -0.903919398784637 0.103223450481892 0.994658172130585 0 -0.818237662315369 0 0 1 0; `transformation1-filename'/tmp/align_occipital.pl-z3Z6/part1.xfm transformation1-filedataMNI Transform File %Tue Jan 19 15:37:28 2010>>> minctracc -clobber -xcorr -lsq6 -step 0.125 0.125 0 -simplex 1 -tol 0.004 -w_translations 1 1 0 -w_rotations 0.0 0.0 0.0174533 -w_scales 0.02 0.02 0.0 -transformation /tmp/bestlinreg_small.pl-uSAkI5En/Spm0001o_3.xfm /tmp/bestlinreg_small.pl-uSAkI5En/Spm0001o_0.25_blur.mnc /tmp/bestlinreg_small.pl-uSAkI5En/Tpm0002z_0.25_blur.mnc /tmp/align_occipital.pl-z3Z6/part1.xfm %(Package mni_autoreg 0.99.6, compiled by @bigbrain (x86_64-unknown-linux-gnu) on Fri Nov 20 22:26:11 EST 2009) Transform_Type = Linear; Linear_Transform = 0.999920427799225 -0.0126154152676463 0 -0.0642909705638885 0.0126154152676463 0.999920427799225 0 0.0571307353675365 0 0 1 0; Htransformation2-filename/tmp/part1.xfm transformation2-filedataMNI Transform File %Thu Mar 24 13:08:32 2011>>> minctracc -clobber -xcorr -lsq6 -step 0.125 0.125 0 -simplex 1 -tol 0.004 -w_translations 1 1 0 -w_rotations 0.0 0.0 0.0174533 -w_scales 0.02 0.02 0.0 -transformation /tmp/bestlinreg_small.pl-3jqzoKcl/Spm0001o_3.xfm /tmp/bestlinreg_small.pl-3jqzoKcl/Spm0001o_0.25_blur.mnc /tmp/bestlinreg_small.pl-3jqzoKcl/Tpm0002z_0.25_blur.mnc /tmp/part1.xfm %(Package mni_autoreg 0.99.6, compiled by @bigbrain (x86_64-unknown-linux-gnu) on Thu Jul 8 19:39:26 EDT 2010) Transform_Type = Linear; Linear_Transform = 0.999955713748932 -0.00941364001482725 0 -0.834380030632019 0.00941364001482725 0.999955713748932 0 6.4244236946106 0 0 1 0; transformation3-filenameJ/mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm transformation3-filedataLMNI Transform File %Mon May 21 19:19:06 2012>>> param2xfm -clobber -center 0.00000 0.00000 0.00000 -translation 3.09297 -0.60542 0.00000 -rotation -0.00000 -0.00000 7.15825 -scale 1.00000 1.00000 1.00000 -shear 0.00000 0.00000 0.00000 /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.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 = 0.992205739021301 -0.124610267579556 0 3.09296989440918 0.124610267579556 0.992205739021301 0 -0.605419993400574 0 0 1 0; transformation4-filenameJ/mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm 0transformation4-filedataMNI Transform File %Fri Jun 1 03:44:58 2012>>> 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.pl-3B04vUDX/Spm0001o_11.xfm /ltmp/lepagecl/slicenlreg_grad.pl-3B04vUDX/Spm0001o_0.03125_dxyz.mnc /ltmp/lepagecl/slicenlreg_grad.pl-3B04vUDX/Tavg_0001_0.03125_dxyz.mnc /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/new/pm0001.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 0 0 0 0 1 0 0 0 0 1 0; Transform_Type = Grid_Transform; Displacement_Volume = pm0001_grid_0.mnc; transformation5-filenameN/mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/rsl/flipyz.xfm transformation5-filedata\MNI Transform File Transform_Type = Linear; Linear_Transform = 1 0 0 0 0 0 1 0 0 1 0 0; TREEPXHx^1 Om _* ?@4 4!P 0 length  8varidMINC standard variable9SNOD<X7@ 0vartypedimension____ 8versionMINC Version 1.0 X comments/Y increases from patient posterior to anterior 0spacing regular__ 0 alignmentcentre 0 dimorderyspace `direction_cosines ?@4 4? (unitsmm 8 spacetype native____ 8start ?@4 4 8step ?@4 4{Gz?x ?@4 4!P 0 length  8varidMINC standard variable 0vartypedimension____ 8versionMINC Version 1.0 P comments'X increases from patient left to right 0spacing regular__ 0 alignmentcentre `direction_cosines ?@4 4? (unitsmm 8 spacetype native____ 8step ?@4 4e? 8start ?@4 4 ?@4 4!P 0 length O 8varidMINC standard variable 0vartypedimension____ 8versionMINC Version 1.0 X comments.Z increases from patient inferior to superior 0spacing regular__ 0 alignmentcentre `direction_cosines ?@4 4? (unitsmm 8 spacetype native____ 8step ?@4 4e? 8start ?@4 4 qcM  ?@4 4 deflateH)!P 0 dimorderyspaceFSNOD(PJFC 8varidMINC standard variable 8versionMINC Version 1.0 0vartypevar_attribute  ?@4 4 deflate[!P 0 dimorderyspace 8varidMINC standard variable 8versionMINC Version 1.0 0vartypevar_attributex^1 Om x4`x^1 J8@<:Nm۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶m۶^H^ @ O deflate cWO!P @ dimorderyspace,xspace,zspace 8varidMINC standard variable 0vartypegroup________ 8versionMINC Version 1.0 P valid_range ?@4 4@ 0 completetrue_Hh historyWed Jan 13 18:28:15 2010>>> minccalc -expr if(A[1]>0.5){A[0]}else{0} pm0001o.mnc ttt.mnc tttt.mnc -quiet Wed Jan 13 18:29:22 2010>>> mincresample -clobber -quiet -transform /tmp/align_occipital.pl-Jio5/part1.xfm -keep_real_range -range 0 65535 -tricubic -like /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001o.mnc /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001o.mnc /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001z.mnc Tue Jan 19 15:37:28 2010>>> mincresample -clobber -quiet -transform /tmp/align_occipital.pl-z3Z6/part1.xfm -keep_real_range -range 0 65535 -tricubic -like /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001o.mnc /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001o.mnc /data/BIG_BRAIN/pm3903/postmortem/mnc_original/pm0001z.mnc Thu Mar 24 13:08:32 2011>>> mincresample -clobber -quiet -transform /tmp/part1.xfm -keep_real_range -range 0 65535 -tricubic -like /tmp/pm0001_centered.mnc /data/BIG_BRAIN/pm3903/postmortem//mnc_original/pm0001o.mnc /data/BIG_BRAIN/pm3903/postmortem//mnc_original/pm0001z.mnc Mon May 21 19:35:45 2012>>> mincresample -quiet -clobber -transform /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm -like /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/template.mnc -keep_real_range -range 0 65535 -tricubic /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mnc_fixed/pm0001o.mnc /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001o.mnc Tue Jun 5 16:05:54 2012>>> mincresample -quiet -clobber -transform /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm -like /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/rsl/template.mnc -keep_real_range -range 0 65535 -tricubic /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001o.mnc /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//tmp/rsl0001/pm0001o_xy.mnc Tue Jun 5 16:06:25 2012>>> mincresample -quiet -clobber -unsigned -short -nearest -use_input_sampling -transform /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/rsl/flipyz.xfm -keep_real_range -start -70.6666 0 -58.7777 -nelements 6572 1 5711 -step 0.0211666666666666 0.02 0.0211666666666666 -range 0 65535 /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//tmp/rsl0001/pm0001o_xy.mnc /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/rsl/pm0001o.mnc Tue Jun 5 16:06:30 2012>>> minclookup -clob -quiet -lookup_table /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/histogram/h0001.lup -range 0 65535 -continuous /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/rsl/pm0001o.mnc /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//tmp/rsl0001/pm0001o_norm.mnc Tue Aug 7 12:48:33 2012>>> mincconvert -clob /sdata/SCRATCH/claude/A3D/model7400/coronal/pm0001o.mnc /sdata/SCRATCH/claude/A3D/model7400/tmp/pm0001x.mnc Tue Aug 7 12:48:34 2012>>> mincreshape -clob -quiet -dimorder xspace,yspace,zspace /sdata/SCRATCH/claude/A3D/model7400/tmp/pm0001x.mnc /sdata/SCRATCH/claude/A3D/model7400/tmp/pm0001o.mnc Tue Aug 7 23:43:30 2012>>> mincreshape -clob -quiet -unsigned -short -image_range 0 65535 -valid_range 0 65535 -start 325,0,0 -count 5,1,5711 -dimorder yspace,xspace,zspace /sdata/SCRATCH/claude/A3D/model7400/coronal-xyz/pm0001o.mnc /sdata/SCRATCH/claude/A3D/model7400/tmp325/pm0001o.mnc Tue Aug 7 23:55:21 2012>>> mincconcat -clob -quiet -unsigned -short 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