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J ` TREE HEAP X minc-2.0 @ p TREE HEAP X ( dimensions info image 0 SNOD P p TREE 8 HEAP X yspace xspace zspace 8 SNOD (
0 X x
TREE " HEAP X
processing @ 8 TREE p HEAP X X 0 H TREE C HEAP X 0 image-max image-min image ( SNOD 5 P ident , claude:bigbrain:2012.08.13.00.25.53:15590:1 ? @ 4 4 deflate K ہ(P 0 length SNOD ( 0 dimorder yspace 8 varid MINC standard variable 0 vartype dimension____ 8 version MINC Version 1.0 X comments / Y increases from patient posterior to anterior 0
alignment centre ` direction_cosines ? @ 4 4 ? ( units mm 8
spacetype native____ 0 spacing
regular__ 8 start ? @ 4 4 8 step ? @ 4 4 {Gz? x ? @ 4 4 ہ(P 0 length 8 varid MINC standard variable 0 vartype dimension____ 8 version MINC Version 1.0 P comments ' X increases from patient left to right 0 spacing
regular__ 0
alignment centre ` direction_cosines ? @ 4 4 ? ( units mm 8
spacetype native____ 8 step ? @ 4 4 e? 8 start ? @ 4 4 Q ? @ 4 4 ہ(P 0 length 8 varid MINC standard variable 0 vartype dimension____ 8 version MINC Version 1.0 X comments . Z increases from patient inferior to superior 0 spacing
regular__ 0
alignment centre ` direction_cosines ? @ 4 4 ? ( units mm 8
spacetype native____ 8 step ? @ 4 4 e? 8 start ? @ 4 4 ہ(P ` transformation0-filename ' /tmp/align_occipital.pl-Jio5/part1.xfm $ ( SNOD ! transformation0-filedata MNI 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-filedata MNI 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;
H transformation2-filename /tmp/part1.xfm transformation2-filedata MNI 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-filename J /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm transformation3-filedata L MNI 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-filename J /mnt/scratch_mp2/evans/lepagecl/BIGBRAIN/pm3903//mri_transform/pm0001.xfm 0 transformation4-filedata MNI 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-filename N /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;
H h history Wed 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
Mon Aug 13 00:22:25 2012>>> mincreshape -clob -quiet -unsigned -short -image_range 0 65535 -valid_range 0 65535 -start 459,0,0 -count 1,1,6572 -dimorder yspace,zspace,xspace /sdata/SCRATCH/claude/A3D/model7400/coronal/pm0001o.mnc /sdata/SCRATCH/claude/A3D/model7400/tmp0460/pm0001o.mnc
Mon Aug 13 00:25:48 2012>>> mincconcat -clob -quiet -unsigned -short -filelist /sdata/SCRATCH/claude/A3D/model7400/tmp0460/list -concat_dimension yspace -sequential /sdata/SCRATCH/claude/A3D/model7400/axial/mnc/pm0460o.mnc
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