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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October 16, 2019 07:59PM
I am having the same issue with 3dTcorr1d in C-PAC after updating afni in July. Error is below. I am in Ubuntu 16.04.
I need to get an older version of afni (pre June 2019) for Ubuntu 16.04. Is this possible? Otherwise I am quite stuck.


error:
3dTcorr1D main
** Command line was:
3dTcorr1D -pearson -prefix scrubbed_preprocessed_correlation.nii.gz /home/jlee38/RS/wrk/resting_preproc_113051-100/sca_roi_0/_scan_funcf/_threshold_0.25/_compcor_ncomponents_5_selector_pc10.linear1.wm1.global1.motion1.quadratic0.gm0.compcor0.csf1/_bandpass_freqs_0.008.0.08/_mask_tt_mask_pad/3dTCorr1D/scrubbed_preprocessed.nii.gz /home/jlee38/RS/wrk/resting_preproc_113051-100/roi_timeseries_for_sca_0/_scan_funcf/_threshold_0.25/_compcor_ncomponents_5_selector_pc10.linear1.wm1.global1.motion1.quadratic0.gm0.compcor0.csf1/_bandpass_freqs_0.008.0.08/_mask_tt_mask_pad/3dROIstats/roi_stats.csv
** AFNI compile date = Jun 25 2019
** [[Precompiled binary linux_openmp_64: Jun 25 2019]]
** Program Crash **

*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=452) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
THD_datablock_apply_atr -- brick statistics {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=452) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
+++++++THD_find_atr [7]: {ENTRY (file=thd_atr.c line=408) from THD_datablock_apply_atr {500 ms}
-------THD_find_atr [7]: EXIT} (file=thd_atr.c line=448) to THD_datablock_apply_atr {500 ms}
------THD_datablock_apply_atr [6]: EXIT} (file=thd_initdblk.c line=1178) to THD_open_nifti {500 ms}
-----THD_open_nifti [5]: EXIT} (file=thd_niftiread.c line=800) to THD_open_one_dataset {500 ms}
+++++THD_patch_brickim [5]: {ENTRY (file=thd_loaddblk.c line=1274) from THD_open_one_dataset {500 ms}
-----THD_patch_brickim [5]: EXIT} (file=thd_loaddblk.c line=1313) to THD_open_one_dataset {500 ms}
+++++THD_report_obliquity [5]: {ENTRY (file=thd_coords.c line=704) from THD_open_one_dataset {500 ms}
++++++AFNI_process_environ [6]: {ENTRY (file=afni_environ.c line=112) from THD_report_obliquity {500 ms}
+++++++AFNI_suck_file [7]: {ENTRY (file=afni_environ.c line=25) from AFNI_process_environ {500 ms}
-------AFNI_suck_file [7]: EXIT} (file=afni_environ.c line=30) to AFNI_process_environ {500 ms}
------AFNI_process_environ [6]: EXIT} (file=afni_environ.c line=132) to THD_report_obliquity {500 ms}
-----THD_report_obliquity [5]: EXIT} (file=thd_coords.c line=711) to THD_open_one_dataset {500 ms}
----THD_open_one_dataset [4]: EXIT} (file=thd_opendset.c line=252) to THD_open_dataset {500 ms}
++++THD_patch_brickim [4]: {ENTRY (file=thd_loaddblk.c line=1274) from THD_open_dataset {500 ms}
----THD_patch_brickim [4]: EXIT} (file=thd_loaddblk.c line=1313) to THD_open_dataset {500 ms}
---THD_open_dataset [3]: EXIT} (file=thd_mastery.c line=171) to 3dTcorr1D main {500 ms}
+++mri_read_1D [3]: {ENTRY (file=mri_read.c line=2997) from 3dTcorr1D main {500 ms}
Subject Author Posted

Downgrade afni possible? New version breaks pipeline

nimzodisaster October 16, 2019 07:59PM

Re: Downgrade afni possible? New version breaks pipeline

rick reynolds October 16, 2019 10:52PM

Re: Downgrade afni possible? New version breaks pipeline

rick reynolds October 16, 2019 11:18PM