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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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Okay it works now!! I commented out AFNI_ATLAS_LIST and AFNI_TEMPLATE_SPACE_LIST in my .afnirc file and suddenly the draw ROI plugin works! So something's just off with how I have one of those two variables set. Which is easily troubleshooted! Thanks for all your help guys!
by
scarlatamj
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AFNI Message Board
Okay gotcha. Yes, I'm connected to a larger central computer through a VPN.
These are the outputs:
afni -q -VAFNI_GLOBAL_SESSION=
++ AFNI is detached from terminal.
afni -q -VAFNI_ATLAS_PATH=
++ AFNI is detached from terminal.
afni -q -VAFNI_ATLAS_LIST=
-Rat_Atlas_Adjusted
++ AFNI is detached from terminal.
afni -q -VAFNI_ATLAS_COLORS=
++ AFNI is detached from terminal
by
scarlatamj
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AFNI Message Board
I believe I am using the windows subsystem linux ubunto but not 100% sure about that. This is the output of uname -a if it helps: Linux xorn 4.4.0-171-generic #200-Ubuntu SMP Tue Dec 3 11:04:55 UTC 2019 x86_64 x86_64 x86_64 GNU/Linux
Here's the output of the check:
-------------------------------- general ---------------------------------
architecture: 64bit ELF
system:
by
scarlatamj
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AFNI Message Board
Okay I updated and unfortunately the same thing happened. I get the same error message:
Fatal Signal 11 (SIGSEGV) received
PLUG_startup_plugin_CB
AFNI_drive_open_plugin
AFNI_drive_open_window
AFNI_driver
AFNI_imag_pop_CB
AFNI:main
Bottom of Debug Stack
** AFNI version = AFNI_20.2.06 Compile date = Jul 23 2020
** []
** Program Death **
** If you report t
by
scarlatamj
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AFNI Message Board
Hi,
I'm having a weird issue where everything in afni is working totally fine except when I go to click on the Draw ROI plugin afni crashes. I get this error message:
Fatal Signal 11 (SIGSEGV) received
Last STATUS: ** free() of non-tracked pointer ??
PLUG_startup_plugin_CB
AFNI_drive_open_plugin
AFNI_drive_open_window
AFNI_driver
AFNI_imag_pop_CB
AFN
by
scarlatamj
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AFNI Message Board
Getting rid of the commas and spaces worked!! Thank you so much for your help!!
by
scarlatamj
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AFNI Message Board
Thank you for your response! Unfortunately I'm still having issues. My CustomAtlases.niml file has my rat space and I set the AFNI environment variable AFNI_SUPP_ATLAS_DIR to the right place but my atlas apparently doesn't contain anything. When I run the command "whereami -show_atlas_code | less" I get this happening for the atlas I made.
Atlas Rat, 0 regions
-----
by
scarlatamj
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AFNI Message Board
Hi,
I have a volumetric dataset made up of labeled regions within the rat brain (I've attached a picture here) and I am attempting to turn it into an afni atlas that I can access using the where am i tool in the GUI. I've tried using @atlasize and haven't been able to make available to use in the whereami tool. Here's my code:
@Atlasize
-dset ROIs.nii
-lab_file ROIs
by
scarlatamj
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AFNI Message Board