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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

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vasudev
November 19, 2019 10:36AM
I am getting a 3dDeconvolve error when i run my script, kindly suggest me the issue here.


3dDeconvolve -input /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/Opt_ii_Despike/despiked_sprl_shft_al_brain_disdaq_mcf.nii -ortvec /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/extra_regressors/covar_design.1D lll -nobucket -polort A -errts /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/2_MotionFiltered/despiked_sprl_shft_al_brain_disdaq_mcf_mregress
++ 3dDeconvolve extending num_stimts from 0 to 10 due to -ortvec
++ 3dDeconvolve: AFNI version=AFNI_19.2.26 (Sep 24 2019) [64-bit]
++ Authored by: B. Douglas Ward, et al.
++ current memory malloc-ated = 596,152 bytes (about 596 thousand)
++ loading dataset /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/Opt_ii_Despike/despiked_sprl_shft_al_brain_disdaq_mcf.nii
++ current memory malloc-ated = 596,152 bytes (about 596 thousand)
++ STAT automask has 162006 voxels (out of 673920 = 24.0%)
++ Skipping check for initial transients
++ Imaging duration=2390.0 s; Automatic polort=16
++ Number of time points: 1195 (no censoring)
+ Number of parameters: 27 [27 baseline ; 0 signal]
++ Memory required for output bricks = 3,224,033,280 bytes (about 3.2 billion)
++ Wrote matrix values to file Decon.xmat.1D
++ ========= Things you can do with the matrix file =========
++ (a) Linear regression with ARMA(1,1) modeling of serial correlation:

3dREMLfit -matrix Decon.xmat.1D -input /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/Opt_ii_Despike/despiked_sprl_shft_al_brain_disdaq_mcf.nii \
-Rerrts /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/2_MotionFiltered/despiked_sprl_shft_al_brain_disdaq_mcf_mregress_REML -verb


3dREMLfit -matrix Decon.xmat.1D -input /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/Opt_ii_Despike/despiked_sprl_shft_al_brain_disdaq_mcf.nii \
-Rerrts /BioInformatics/Bmax_neuro/data/imaging_data/biomax/Workflow_000000000000822/2_MotionFiltered/despiked_sprl_shft_al_brain_disdaq_mcf_mregress_REML -verb

++ N.B.: 3dREMLfit command above written to file 3dDeconvolve.REML_cmd
++ (b) Visualization/analysis of the matrix via ExamineXmat.R
++ (c) Synthesis of sub-model datasets using 3dSynthesize
++ ==========================================================
** ERROR: symeigval_double error code = 1
*+ WARNING: ----- !! Signal+Baseline matrix condition [X] (1195x27): nan ** BEWARE **
++ Signal+Baseline matrix singular values:
nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan
*** MCW_malloc post-corruption! serial=689278 size=216 source=matrix.c line#1664
<- calculate_results <- 3dDeconvolve main
** ERROR: symeigval_double error code = 1
*+ WARNING: ----- !! Baseline-only matrix condition [X] (1195x27): nan ** BEWARE **
++ Baseline-only matrix singular values:
nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
-nan -nan
*** MCW_malloc post-corruption! serial=689291 size=216 source=matrix.c line#1664
<- calculate_results <- 3dDeconvolve main
** ERROR: symeigval_double error code = 1
*+ WARNING: ----- !! stim_base-only matrix condition [X] (1195x10): nan ** BEWARE **
++ stim_base-only matrix singular values:
nan -nan -nan -nan -nan
-nan -nan -nan -nan -nan
*** MCW_malloc post-corruption! serial=689303 size=80 source=matrix.c line#1664
<- calculate_results <- 3dDeconvolve main
++ ----- polort-only matrix condition [X] (1195x17): 1.03361 ++ VERY GOOD ++


Thanks
Dev



Edited 1 time(s). Last edit at 11/19/2019 11:21AM by vasudev.
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Subject Author Posted

3dDeconvolve: ERROR: symeigval_double error code = 1

vasudev November 19, 2019 10:36AM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

rick reynolds November 22, 2019 01:38PM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

vasudev December 11, 2019 05:00AM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

rick reynolds December 11, 2019 09:16AM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

vasudev December 12, 2019 04:04AM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

rick reynolds December 18, 2019 06:48PM

Re: 3dDeconvolve: ERROR: symeigval_double error code = 1

Daniel Glen December 23, 2019 06:03PM