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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June 10, 2021 07:03AM
Hi all,

a quick question. When using the "WhereAmI" button in the clusterize report window, I get the following warning messages in the terminal:

** Warning: Atlas CA_N27_PM could not be loaded.
** Warning: Atlas CA_PM_18_MNIA could not be loaded.
** Warning: Atlas DKD_Desai_PM could not be loaded.
** Warning: Atlas DD_Desai_PM could not be loaded.
** Warning: Atlas FS_Desai_PM could not be loaded.

I have actually re-downloaded the atlases tarball from:
[afni.nimh.nih.gov]

and placed it in my ~/abin directory, but the warning remains because the corresponding atlases are still missing, as shown by "whereami -show_atlases":

++ ----- Atlas list: -------
++ Name Space Dataset Description
++ __________________________________________________________
++ MNI_Glasser_HCP_v1.0 MNI /home/giuseppep/abin//MNI_Glasser_HCP_v1.0.nii.gz Glasser HCP 2016 surface-based parcellation
++ Brainnetome_1.0 MNI /home/giuseppep/abin//BN_Atlas_246_1mm.nii.gz Brainnetome MPM
++ CA_MPM_22_MNI MNI /home/giuseppep/abin//MNI_caez_mpm_22+tlrc Eickhoff-Zilles MPM atlas
++ CA_MPM_22_TT TT_N27 /home/giuseppep/abin//TT_caez_mpm_22+tlrc Eickhoff-Zilles MPM atlas 2.2 - Talairach space
++ CA_N27_ML TT_N27 /home/giuseppep/abin//TT_caez_ml_18+tlrc Macro Labels (N27)
++ CA_N27_MPM TT_N27 /home/giuseppep/abin//TT_caez_mpm_18+tlrc Cytoarch. Max. Prob. Maps
++ CA_N27_PM TT_N27 TT_caez_pmaps_18+tlrc Cytoarch. Probabilistic Maps 1.8
++ CA_N27_GW TT_N27 /home/giuseppep/abin//TT_caez_gw_18+tlrc Cytoarch. Prob. Maps for gray/white matter 1.8
++ CA_N27_LR TT_N27 /home/giuseppep/abin//TT_caez_lr_18+tlrc Left/Right (N27) 1.8
++ CA_ML_18_MNI MNI /home/giuseppep/abin//MNI_caez_ml_18+tlrc Macro Labels (N27-MNI)
++ CA_MPM_18_MNI MNI /home/giuseppep/abin//MNI_caez_mpm_18+tlrc Cytoarch. Max. Prob. Maps (MNI)
++ CA_LR_18_MNI MNI /home/giuseppep/abin//MNI_caez_lr_18+tlrc Left/Right (N27-MNI)
++ CA_ML_18_MNIA MNI_ANAT /home/giuseppep/abin//MNIa_caez_ml_18+tlrc Macro Labels (N27)
++ CA_MPM_18_MNIA MNI_ANAT /home/giuseppep/abin//MNIa_caez_mpm_18+tlrc Cytoarch. Max. Prob. Maps
++ CA_PM_18_MNIA MNI_ANAT MNIa_caez_pmaps_18+tlrc Cytoarch. Probabilistic Maps
++ CA_GW_18_MNIA MNI_ANAT /home/giuseppep/abin//MNIa_caez_gw_18+tlrc Cytoarch. Prob. Maps for gray/white matter
++ CA_LR_18_MNIA MNI_ANAT /home/giuseppep/abin//MNIa_caez_lr_18+tlrc Left/Right (N27)
++ DKD_Desai_PM TT_N27 TT_desai_dkpmaps+tlrc Probability maps of 35 cortical areas (gyri)
++ DD_Desai_PM TT_N27 TT_desai_ddpmaps+tlrc Probability maps of 75 cortical areas
++ FS_Desai_PM TT_N27 TT_desai_fspmaps+tlrc 40 subcortical areas
++ DD_Desai_MPM TT_N27 /home/giuseppep/abin//TT_desai_dd_mpm+tlrc Maximum probability maps of Desai DD and FS maps
++ DKD_Desai_MPM TT_N27 /home/giuseppep/abin//TT_desai_dk_mpm+tlrc Maximum probability maps of Desai DKD and FS maps
++ MNI_VmPFC MNI /home/giuseppep/abin//MNI_VmPFC+tlrc Ventromedial Prefrontal Cortex
++ TT_Daemon TLRC /home/giuseppep/abin//TTatlas+tlrc Talairach-Tournoux Atlas
++ Haskins_Pediatric_Nonline HaskinsPeds /home/giuseppep/abin//HaskinsPeds_NL_atlas1.0+tlrc.HEAD Version 1.0

My question is why are those atlases missing from the distribution? Is it because they are obsolete/superseded and somewhat the "whereami" function has not been notified?

thanks in advance for any comment/advice!
giuseppe
Subject Author Posted

Missing atlases in whereami

gpagnon June 10, 2021 07:03AM

Re: Missing atlases in whereami

Daniel Glen June 13, 2021 12:25PM

Re: Missing atlases in whereami

gpagnon June 16, 2021 05:21AM

Re: Missing atlases in whereami

wppfighting July 20, 2021 04:49AM