New error with identical 3dLMEr code

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1

Dear Colleagues,

Hi. The 3dLMEr code below was executed twice. Zero changes were made between the two executions.

Succeeded:
Ran on 2023-11-13
AFNI version=AFNI_23.3.07 (Nov 7 2023)
R 4.3.0
[1] "Congratulations! You've got an output output_lme_audaro_hip_procbasic_rz.nii"

Failed:
Ran on 2023-11-27
AFNI version=AFNI_23.3.09 (Nov 22 2023)
R 4.3.0
** Error: Quitting due to model test failure...

What might be the problem?

Sincerely,

Dante

3dLMEr -prefix output_lme_audaro_hip_procbasic_rz.nii -jobs 32 -model 'cond*AAT+(AAT|Subj)' -qVars AAT -SS_type 3 -gltCode AATeff 'AAT : ' -dataTable Subj cond AAT InputFile s00003 aro1 70 20160713_2255_hip_procbasic_rz.nii s00003 aro2 25 20160713_2326_hip_procbasic_rz.nii s00003 aro3 35 20160714_0004_hip_procbasic_rz.nii s00003 aro4 40 20160714_0040_hip_procbasic_rz.nii s00003 aro5 70 20160714_0220_hip_procbasic_rz.nii s00006 aro1 5 20160901_2245_hip_procbasic_rz.nii s00006 aro2 0 20160901_2300_hip_procbasic_rz.nii s00006 aro3 35 20160901_2310_hip_procbasic_rz.nii s00006 aro4 35 20160901_2340_hip_procbasic_rz.nii s00006 aro5 25 20160901_2358_hip_procbasic_rz.nii s00006 aro6 45 20160902_0050_hip_procbasic_rz.nii s00006 aro7 45 20160902_0140_hip_procbasic_rz.nii s00006 aro8 5 20160902_0625_hip_procbasic_rz.nii s00014 aro1 20 20170118_2235_hip_procbasic_rz.nii s00014 aro2 15 20170119_0025_hip_procbasic_rz.nii s00014 aro3 15 20170119_0055_hip_procbasic_rz.nii s00014 aro4 45 20170119_0140_hip_procbasic_rz.nii s00014 aro5 0 20170119_0240_hip_procbasic_rz.nii s00014 aro6 0 20170119_0253_hip_procbasic_rz.nii s00029 aro1 0 20160518_2322_hip_procbasic_rz.nii s00029 aro2 30 20160518_2336_hip_procbasic_rz.nii s00029 aro3 30 20160519_0005_hip_procbasic_rz.nii s00029 aro4 5 20160519_0035_hip_procbasic_rz.nii s00029 aro5 10 20160519_0136_hip_procbasic_rz.nii s00029 aro6 10 20160519_0304_hip_procbasic_rz.nii s00029 aro7 15 20160519_0416_hip_procbasic_rz.nii s00029 aro8 0 20160519_0431_hip_procbasic_rz.nii s00047 aro1 45 20160630_0000_hip_procbasic_rz.nii s00047 aro2 40 20160630_0031_hip_procbasic_rz.nii s00047 aro3 35 20160630_0124_hip_procbasic_rz.nii s00047 aro4 5 20160630_0437_hip_procbasic_rz.nii s00047 aro5 5 20160630_0600_hip_procbasic_rz.nii s00056 aro1 5 20160921_2250_hip_procbasic_rz.nii s00056 aro2 20 20160921_2305_hip_procbasic_rz.nii s00056 aro3 5 20160921_2336_hip_procbasic_rz.nii s00056 aro4 25 20160921_2345_hip_procbasic_rz.nii s00056 aro5 25 20160922_0015_hip_procbasic_rz.nii s00056 aro6 5 20160922_0035_hip_procbasic_rz.nii s00056 aro7 15 20160922_0222_hip_procbasic_rz.nii s00060 aro1 0 20160804_0012_hip_procbasic_rz.nii s00060 aro2 35 20160804_0110_hip_procbasic_rz.nii s00060 aro3 5 20160804_0225_hip_procbasic_rz.nii s00060 aro4 60 20160804_0322_hip_procbasic_rz.nii s00063 aro1 30 20170222_2305_hip_procbasic_rz.nii s00063 aro2 50 20170222_2323_hip_procbasic_rz.nii s00063 aro3 15 20170222_2350_hip_procbasic_rz.nii s00063 aro4 55 20170223_0155_hip_procbasic_rz.nii s00063 aro5 50 20170223_0239_hip_procbasic_rz.nii s00063 aro6 10 20170223_0434_hip_procbasic_rz.nii s00065 aro1 50 20161027_2230_hip_procbasic_rz.nii s00065 aro2 25 20161027_2330_hip_procbasic_rz.nii s00065 aro3 15 20161028_0012_hip_procbasic_rz.nii s00065 aro4 5 20161028_0053_hip_procbasic_rz.nii s00065 aro5 15 20161028_0137_hip_procbasic_rz.nii s00065 aro6 15 20161028_0313_hip_procbasic_rz.nii s00065 aro7 10 20161028_0406_hip_procbasic_rz.nii s00065 aro8 10 20161028_0630_hip_procbasic_rz.nii s00078 aro1 25 20170308_2255_hip_procbasic_rz.nii s00078 aro2 15 20170308_2336_hip_procbasic_rz.nii s00078 aro3 40 20170308_2349_hip_procbasic_rz.nii s00078 aro4 45 20170309_0027_hip_procbasic_rz.nii s00078 aro5 10 20170309_0051_hip_procbasic_rz.nii s00078 aro6 10 20170309_0153_hip_procbasic_rz.nii s00078 aro7 10 20170309_0414_hip_procbasic_rz.nii s00078 aro8 25 20170309_0525_hip_procbasic_rz.nii s00086 aro1 30 20170208_2238_hip_procbasic_rz.nii s00086 aro2 50 20170208_2305_hip_procbasic_rz.nii s00086 aro3 45 20170208_2347_hip_procbasic_rz.nii s00086 aro4 45 20170209_0000_hip_procbasic_rz.nii s00086 aro5 45 20170209_0022_hip_procbasic_rz.nii s00086 aro6 10 20170209_0309_hip_procbasic_rz.nii s00086 aro7 0 20170209_0405_hip_procbasic_rz.nii s00105 aro1 45 20170412_2304_hip_procbasic_rz.nii s00105 aro2 20 20170413_0112_hip_procbasic_rz.nii s00105 aro3 15 20170413_0303_hip_procbasic_rz.nii s00105 aro4 35 20170413_0406_hip_procbasic_rz.nii s00105 aro5 0 20170413_0535_hip_procbasic_rz.nii
2

Dante,

3dLMEr is functioning properly with my testing dataset. To facilitate a more thorough diagnosis, would it be possible for you to share a small sample of your data? This would enable me to pinpoint the root cause of the issue you're encountering.

Gang

1 Like
3

Gang,

Weird. Thank you for your help.

I ran

file_tool -test -infiles test.sh

on the problematic script. It reported "0 bad characters."

For sharing, does the following work for you? I opened the relevant files on Biowulf to world access.

See Line 266 of

/data/AMRI/picchioni/20220909_pilot_matricies_05.06_atlases/unix_files/subanalysis_3dlme_region_29/slurm_h_multinode.sh

for the 3dLMEr command that succeeded. See Line 670 of

/data/AMRI/picchioni/20220909_pilot_matricies_05.06_atlases/unix_files/subanalysis_3dlme_region_29/log_swarm_03/swarm_12379383_0.o

for the associated message of success.

See

/data/AMRI/picchioni/20220909_pilot_matricies_05.06_atlases/unix_files/subanalysis_3dlme_region_29/test_R2_03/test.sh

for the 3dLMEr command that failed. See Line 119

/data/AMRI/picchioni/20220909_pilot_matricies_05.06_atlases/unix_files/subanalysis_3dlme_region_29/test_R2_03/slurm-13206381.out

for the associated message of failure.

See

/data/AMRI/picchioni/20220909_pilot_matricies_05.06_atlases/unix_files/subanalysis_3dlme_region_29/*_hip_procbasic_rz.nii

for the input data, which was identical in both executions. Biowulf has downtime from "Thursday Nov 30 at 6 pm and running until Sunday Dec 3 at 8 pm," so this might need to wait until Monday.

Sincerely,

Dante