AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates  

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Vince Hradil
August 04, 2009 09:45AM
Mmmm... I'm reading some analyze files from Windoze to Unix and I want to do -redo_bstat after I do -byteorder LSB_FIRST, but the stats aren't being calculated:

% 3dcopy foo.hdr foo
++ 3dcopy: AFNI version=AFNI_2008_07_18_1710 (May 28 2009) [64-bit]
*+ WARNING: Assuming ANALYZE orientaion is LPI.
++ To change orientation or silence this message,
++ Set AFNI_ANALYZE_ORIENT to the proper orientation
++ in your .afnirc file.
++ e.g.: AFNI_ANALYZE_ORIENT = LPI
*+ WARNING: Assuming view is +orig.
++ To change view or silence this message,
++ Set AFNI_ANALYZE_VIEW to the proper view
++ in your .afnirc file.
++ e.g.: AFNI_ANALYZE_VIEW = orig
*+ WARNING: No ANALYZE origin found in file foo.hdr
** ERROR: File foo.img: found 5759 float errors -- see program float_scan
% 3drefit -byteorder LSB_FIRST -orient RSP -xorigin cen -yorigin cen -zorigin cen foo+orig
++ 3drefit: AFNI version=AFNI_2008_07_18_1710 (May 28 2009) [64-bit]
++ Authored by: RW Cox
++ Processing AFNI dataset foo+orig
*+ WARNING: Over-writing dataset ./foo+orig.HEAD
++ 3drefit processed 1 datasets
% 3dinfo foo+orig
++ 3dinfo: AFNI version=AFNI_2008_07_18_1710 (May 28 2009) [64-bit]

Dataset File: foo+orig
Identifier Code: XYZ_dTBLmUDvU3r3JDqmYCsDOA Creation Date: Tue Aug 4 08:46:14 2009
Dataset Type: MRI Anatomy (-anat)
Byte Order: LSB_FIRST [this CPU native = MSB_FIRST]
Storage Mode: BRIK file
Storage Space: 10420224 (10 million) bytes
Geometry String: "MATRIX(0.776383,0,0,-49.30032,0,0,-0.796,62.884,0,-0.776383,0,49.30032):128,128,159"
Data Axes Tilt: Plumb
Data Axes Orientation:
first (x) = Right-to-Left
second (y) = Superior-to-Inferior
third (z) = Posterior-to-Anterior [-orient RSP]
R-to-L extent: -49.300 [R] -to- 49.300 [L] -step- 0.776 mm [128 voxels]
A-to-P extent: -62.884 [A] -to- 62.884 [P] -step- 0.796 mm [159 voxels]
I-to-S extent: -49.300 -to- 49.300 [S] -step- 0.776 mm [128 voxels]
Number of values stored at each pixel = 1
-- At sub-brick #0 '#0' datum type is float: -3.40133e+38 to 3.40003e+38

----- HISTORY -----
[hradivp@mr7: Tue Aug 4 08:46:14 2009] 3dcopy foo.hdr foo
[hradivp@mr7: Tue Aug 4 08:46:40 2009] 3drefit -byteorder LSB_FIRST -orient RSP -xorigin cen -yorigin cen -zorigin cen foo+orig
% 3drefit -redo_bstat foo+orig
++ 3drefit: AFNI version=AFNI_2008_07_18_1710 (May 28 2009) [64-bit]
++ Authored by: RW Cox
++ Processing AFNI dataset foo+orig
*+ WARNING: Over-writing dataset ./foo+orig.HEAD
++ 3drefit processed 1 datasets
% 3dinfo foo+orig
++ 3dinfo: AFNI version=AFNI_2008_07_18_1710 (May 28 2009) [64-bit]

Dataset File: foo+orig
Identifier Code: XYZ_dTBLmUDvU3r3JDqmYCsDOA Creation Date: Tue Aug 4 08:46:14 2009
Dataset Type: MRI Anatomy (-anat)
Byte Order: LSB_FIRST [this CPU native = MSB_FIRST]
Storage Mode: BRIK file
Storage Space: 10420224 (10 million) bytes
Geometry String: "MATRIX(0.776383,0,0,-49.30032,0,0,-0.796,62.884,0,-0.776383,0,49.30032):128,128,159"
Data Axes Tilt: Plumb
Data Axes Orientation:
first (x) = Right-to-Left
second (y) = Superior-to-Inferior
third (z) = Posterior-to-Anterior [-orient RSP]
R-to-L extent: -49.300 [R] -to- 49.300 [L] -step- 0.776 mm [128 voxels]
A-to-P extent: -62.884 [A] -to- 62.884 [P] -step- 0.796 mm [159 voxels]
I-to-S extent: -49.300 -to- 49.300 [S] -step- 0.776 mm [128 voxels]
Number of values stored at each pixel = 1
-- At sub-brick #0 '#0' datum type is float

----- HISTORY -----
[hradivp@mr7: Tue Aug 4 08:46:14 2009] 3dcopy foo.hdr foo
[hradivp@mr7: Tue Aug 4 08:46:40 2009] 3drefit -byteorder LSB_FIRST -orient RSP -xorigin cen -yorigin cen -zorigin cen foo+orig
[hradivp@mr7: Tue Aug 4 08:48:07 2009] 3drefit -redo_bstat foo+orig

Subject Author Posted

3drefit -redo_bstat fails

Vince Hradil August 04, 2009 09:45AM

Re: 3drefit -redo_bstat fails

Vince Hradil August 07, 2009 09:20AM

Re: 3drefit -redo_bstat fails

rick reynolds August 07, 2009 11:10AM