[MINC-users] autoreg - mritoself problem

[Soren Christensen]

Hi,
 I have a problem with mritoself in an installation that was compiled
on Fedora 5:
i try to co-register:
mritoself fspgr.mnc DWI.mnc test.xfm

That gives the output shown below. The transform file is the identity
(and it should't be).
Doen anyone have a clue what could have gone wrong during compilation?
the only thing that seemed to cause problems during install was the
MNI perlib library - the output is shown at the end of this message.
Could that be the source of the problem?

Thanks
Soren



[mritoself] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:40] /usr/local/mni/bin/autocrop fspgr.mnc
/usr/tmp/mritoself_12775//fspgr_crop.mnc -step -0.46875 1.5 0.46875
-extend 0,0 0,0 -50,0 -byte
[autocrop] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:40] /usr/local/mni/bin/mincreshape -byte fspgr.mnc
/usr/tmp/mritoself_12775//fspgr_crop.mnc -start 0,107,0 -count
120,406,512
Copying chunks:........................................................................................................................Done.
[mritoself] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:42] /usr/local/mni/bin/autocrop DWI.mnc
/usr/tmp/mritoself_12775//DWI_crop.mnc -step -0.9375
0.93750393390655495374 5 -extend 0,0 0,0 0,0 -byte
[autocrop] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:42] /usr/local/mni/bin/mincreshape -byte DWI.mnc
/usr/tmp/mritoself_12775//DWI_crop.mnc -start 0,0,0 -count 20,257,256
Copying chunks:....................Done.
warning: mutual information used as objective function -- target
threshold forced to volume min
threshold on source volume = 40
threshold on target volume = 0
[mritoself] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:47] /usr/local/mni/bin/minctracc
/usr/tmp/mritoself_12775//fspgr_crop.mnc
/usr/tmp/mritoself_12775//DWI_crop.mnc
/usr/tmp/mritoself_12775//test_tmp1.xfm -identity -est_center -lsq6
-mi -groups 256 -threshold 40 0 -step 7.3 7.3 7.3 -simplex 3
Initial objective function val = 0.00000000
Final objective function value = 0.00000000
[mritoself] [minc at PC2-BIL:/home/minc/siewmin_temp/workbench/minc]
[2006-07-06 09:14:50] /usr/local/mni/bin/minctracc
/usr/tmp/mritoself_12775//fspgr_crop.mnc
/usr/tmp/mritoself_12775//DWI_crop.mnc test.xfm -est_center
-transformation /usr/tmp/mritoself_12775//test_tmp1.xfm -lsq6 -mi
-groups 256 -threshold 40 0 -step 4.3 4.3 4.3 -simplex 1.5
Initial objective function val = 0.00000000
Final objective function value = 0.00000000

The xfm file looks like:
MNI Transform File
%Thu Jul  6 09:14:50 2006>>> /usr/local/mni/bin/minctracc
/usr/tmp/mritoself_12775//fspgr_crop.mnc
/usr/tmp/mritoself_12775//DWI_crop.mnc test.xfm -est_center
-transformation /usr/tmp/mritoself_12775//test_tmp1.xfm -lsq6 -mi
-groups 256 -threshold 40 0 -step 4.3 4.3 4.3 -simplex 1.5
%(Package mni_autoreg 0.99.2, compiled by root at PC2-BIL
(i686-pc-linux-gnu) on Tue Jul  4 13:16:13 EST 2006)

Transform_Type = Linear;
Linear_Transform =
 1 0 0 0
 0 1 0 0
 0 0 1 0;







MNI perllib compilation:
mkdir /usr/local/mni/data
perl Makefile.PL
make test
rm -f t/datadir.t
sed 's|@DEFAULT_DATA_DIR@|/usr/local/mni/data|' t/datadir.t.in > t/datadir.t
chmod 444 t/datadir.t
rm -f t/toy_ls
sed 's|@PERL@|\#!/usr/bin/perl|' t/toy_ls.in > t/toy_ls
chmod 555 t/toy_ls
PERL_DL_NONLAZY=1 /usr/bin/perl "-MExtUtils::Command::MM" "-e"
"test_harness(0, 'blib/lib', 'blib/arch')" t/*.t
t/batch-0........ok
t/batch-1......../usr/bin/getopt: invalid option -- J
/usr/bin/getopt: invalid option -- Q
/usr/bin/getopt: invalid option -- S
/usr/bin/getopt: invalid option -- s
/usr/bin/getopt: invalid option -- o
/usr/bin/getopt: invalid option -- e
batch: error parsing command-line arguments
Error closing pipe to batch:
 at t/batch-1.t line 36
`batch' exited with non-zero status code: 256
 at t/batch-1.t line 36


t/batch-1........NOK 1tail: cannot open `.out29303' for reading: No
such file or directory
t/batch-1........NOK 3/usr/bin/getopt: invalid option -- J
/usr/bin/getopt: invalid option -- Q
/usr/bin/getopt: invalid option -- S
/usr/bin/getopt: invalid option -- s
/usr/bin/getopt: invalid option -- o
/usr/bin/getopt: invalid option -- e
batch: error parsing command-line arguments
Error closing pipe to batch:
 at t/batch-1.t line 36
`batch' exited with non-zero status code: 256
 at t/batch-1.t line 36
t/batch-1........NOK 4tail: cannot open `.out29303' for reading: No
such file or directory
t/batch-1........NOK 6/usr/bin/getopt: invalid option -- J
/usr/bin/getopt: invalid option -- Q
/usr/bin/getopt: invalid option -- S
/usr/bin/getopt: invalid option -- s
/usr/bin/getopt: invalid option -- o
/usr/bin/getopt: invalid option -- e
batch: error parsing command-line arguments
t/batch-1........NOK 8tail: cannot open `.out29303' for reading: No
such file or directory
t/batch-1........NOK 10/usr/bin/getopt: invalid option -- J
/usr/bin/getopt: invalid option -- Q
/usr/bin/getopt: invalid option -- S
/usr/bin/getopt: invalid option -- s
/usr/bin/getopt: invalid option -- o
/usr/bin/getopt: invalid option -- e
batch: error parsing command-line arguments
Error closing pipe to batch:
 at t/batch-1.t line 87
`batch' exited with non-zero status code: 256
 at t/batch-1.t line 87
t/batch-1........NOK 11tail: cannot open `.out29303' for reading: No
such file or directory
t/batch-1........NOK 13/usr/bin/getopt: invalid option -- J
/usr/bin/getopt: invalid option -- Q
/usr/bin/getopt: invalid option -- l
/usr/bin/getopt: invalid option -- S
/usr/bin/getopt: invalid option -- s
/usr/bin/getopt: invalid option -- o
/usr/bin/getopt: invalid option -- e
batch: error parsing command-line arguments
Error closing pipe to batch:
 at t/batch-1.t line 36
`batch' exited with non-zero status code: 256
 at t/batch-1.t line 36