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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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The latest 3dttest++ available in the linux_xorg7_64 distribution has a bug, I've confirmed it on two machines now. 3dttest++ works as expected for linux_openmp_64. The problem appears to be some off-by-one indexing error with the argument parsing maybe? Symptoms are error messages complaining about unrecognized options and then listing an argument as the unrecognized option.
using lin
by
kijoshua
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AFNI Message Board
Currently, 3dLSS only supports one stim_times_IM option. However, all the designs I've worked on in which I've used IM (or my own implementation of the LSS approach) involve multiple trial types that we wish to explore trial-by-trial. Are there any plans to improve 3dLSS to work with multiple stim_times_IM ? And any possibility that this functionality will be added to 3dDeconvolve as
by
kijoshua
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AFNI Message Board
I just needed to add an offset to a timing file, so used 1deval -expr 'a+9' -a stim.1D. It seemed completely logical to me. Unfortunately, 1deval only works on the first column, and the analysis run on 70+ subjects was all wrong.
It is perfectly clear in the documentation, and rather easy to test. It is totally my fault. But I think it would be a great idea to add a warning to 1d
by
kijoshua
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AFNI Message Board
Yep, it was the input I was using (and all the other files nearby that I also tried). It should have been Talairach, but was somehow corrupted. And I was using coordinates from that file in whereami, not realizing that the coordinates were messed up... thanks!
by
kijoshua
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AFNI Message Board
I don't know when it happened, but I'm now noticing that whereami isn't working correctly. Playing with it via the AFNI GUI, I'm getting "not near any region stored in databases" for most places in the brain. "go to atlas region" is similarly borked, with the left insula [39, 7, 9] warping the cursor to [0,0,9] (at which coordinates whereami claims that t
by
kijoshua
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AFNI Message Board
I would find it convenient to have in afni_proc. afni_restproc.py seems to have a few features all to itself, while afni_proc.py can just do more things. Ideally, afni_restproc could just be a wrapper to afni_proc, right? Is that a possibility, or will both processing scripts always remain separate things?
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kijoshua
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AFNI Message Board
And of course figure it out only once I finally asked! needed to add the lib path to "LD_LIBRARY_PATH"
by
kijoshua
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AFNI Message Board
3dSkullStrip: error while loading shared libraries: libgsl.so.0: cannot open shared object file: No such file or directory
I can't install gsl to the default place on this system, but have downloaded/compiled/installed it into to a different folder. I've added the lib folder to the path, as well as defined environment variables GSL_LIB and GSL_INC. But still 3dSkullStrip complains
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kijoshua
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AFNI Message Board
Just discovered that there are options for this sort of thin once you register. But for completeness, is there a way to change the view for nonregistered users?
by
kijoshua
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AFNI Message Board