"debabeler"? We have a few specific programs that convert files
between specific formats and AFNI format. None of them are in Java.
I hope this answers your question, or maybe you can give me
more hints. :)
rich
Matthew Brett wrote:
>Hi,
>
>Is the debabeler part of AFNI? It seemed to be a separate java application...
>
>Matthew
>
>
>On Mon, 21 Mar 2005 14:42:43 -0500, Rich Hammett <[log in to unmask]> wrote:
>
>
>>All of AFNI's source code is available at
>>http://afni.nimh.nih.gov
>>
>>Underlying nifti I/O libraries are already available there and at
>>http://nifti.nimh.nih.gov , although they may differ.
>>
>>rich
>>
>>Matthew Brett wrote:
>>
>>
>>
>>>Hi,
>>>
>>>Thanks for making this tool available. Just to ask, are there plans
>>>to release the source code?
>>>
>>>Best,
>>>
>>>Matthew
>>>
>>>On Mon, 21 Mar 2005 13:21:42 -0500, Rich Hammett <[log in to unmask]> wrote:
>>>
>>>
>>>
>>>
>>>>As the person who's writing that software, I have to rush to
>>>>say that the NIFTI I/O isn't complete yet, but we should have
>>>>full conversion capabilities within a week or so.
>>>>
>>>>rich
>>>>
>>>>
>>>>Dianne Patterson wrote:
>>>>
>>>>
>>>>
>>>>
>>>>
>>>>>Afni's tools, especially to3d, should also handle all three formats and
>>>>>converting between them.
>>>>>
>>>>>-Dianne
>>>>>
>>>>>Dianne K. Patterson Ph.D.
>>>>>Psychology, Room 217E
>>>>>626-4571
>>>>>Cognition and NeuroImaging Labs
>>>>>University of Arizona
>>>>>Tucson, AZ
>>>>>
>>>>>
>>>>>Quoting "Stephen J. Fromm" <[log in to unmask]>:
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>>On Sun, 20 Mar 2005 16:17:34 +0000, Johannes Gerber <[log in to unmask]
>>>>>>DRESDEN.DE> wrote:
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>dear SPMers,
>>>>>>>
>>>>>>>trying to enjoy the best of all worlds I used Brain Extraction Tool
>>>>>>>from
>>>>>>>FSL to get brainy brains. then I got stuck when trying to
>>>>>>>reintroduce the
>>>>>>>extracted volumes into SPM (which I know best). does anybody have an
>>>>>>>idea
>>>>>>>how to convert NIFTI-images to ANALYZE? neither MRIcro nor SPM would
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>digest
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>it without graet unease.
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>You can direct FSL to output Analyze and not NIFTI.
>>>>>>
>>>>>>(Assuming you're using UNIX or LINUX and csh or tcsh...)
>>>>>>
>>>>>>Create a directory
>>>>>> .fslconf
>>>>>>in your home directory.
>>>>>>
>>>>>>Create a file named
>>>>>> fsl.csh
>>>>>>consisting of the single line
>>>>>> setenv FSLOUTPUTTYPE ANALYZE
>>>>>>(For safety's sake, make sure you return to the next line; sometimes not
>>>>>>having a file end on a new line causes problems with these files).
>>>>>>
>>>>>>Then make sure that you log out and back in (or similar step to ensure
>>>>>>this file is actually read). The variable is correctly read if you
>>>>>>see it
>>>>>>after typing
>>>>>> printenv | grep -i fsl
>>>>>>(at least this command works on my system...)
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>>>thanks a lot!
>>>>>>>
>>>>>>>Johannes
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>--
>>>>rich hammett SSCC/DIRP/NIMH
>>>>National Institutes of Health
>>>>Building 10, Room 1D80
>>>>10 Center Drive, MSC1148
>>>>Bethesda, MD 20892-1148
>>>>ph 301-402-8416 fax 301-402-1370
>>>>
>>>>
>>>>
>>>>
>>>>
>>--
>>rich hammett SSCC/DIRP/NIMH
>>National Institutes of Health
>>Building 10, Room 1D80
>>10 Center Drive, MSC1148
>>Bethesda, MD 20892-1148
>>ph 301-402-8416 fax 301-402-1370
>>
>>
>>
>>
--
rich hammett SSCC/DIRP/NIMH
National Institutes of Health
Building 10, Room 1D80
10 Center Drive, MSC1148
Bethesda, MD 20892-1148
ph 301-402-8416 fax 301-402-1370
|