shnizzedy
commented
3 years ago Running 3dECM -mask /cpac_templates/Mask_ABIDE_85Percent_GM.nii.gz -memory 1.000000 -prefix eigenvector_centrality_merged.nii.gz -sparsity 0.001000 bandpassed_demeaned_filtered_trans_flirt.nii.gz outside of C-PAC / brainlife replicates. Here's the AFNI crash log:
*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
-----mri_free [5]: EXIT} (file=mri_free.c line=67) to THD_delete_datablock {49 ms}
+++++mri_free [5]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {49 ms}
mri_free -- call killpurge {49 ms}
++++++mri_killpurge [6]: {ENTRY (file=mri_purger.c line=259) from mri_free {49 ms}
mri_killpurge -- check if im==NULL ptr=0x562e5d6d6d80
mri_killpurge -- can't killpurge NULL fname! {49 ms}
------mri_killpurge [6]: EXIT} (file=mri_purger.c line=270) to mri_free {49 ms}
mri_free -- free im {49 ms}
-----mri_free [5]: EXIT} (file=mri_free.c line=67) to THD_delete_datablock {49 ms}
+++++mri_free [5]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {49 ms}
mri_free -- call killpurge {49 ms}
++++++mri_killpurge [6]: {ENTRY (file=mri_purger.c line=259) from mri_free {49 ms}
mri_killpurge -- check if im==NULL ptr=0x562e5d6d6e40
mri_killpurge -- can't killpurge NULL fname! {49 ms}
------mri_killpurge [6]: EXIT} (file=mri_purger.c line=270) to mri_free {49 ms}
mri_free -- free im {49 ms}
-----mri_free [5]: EXIT} (file=mri_free.c line=67) to THD_delete_datablock {49 ms}
+++++mri_free [5]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {49 ms}
mri_free -- call killpurge {49 ms}
++++++mri_killpurge [6]: {ENTRY (file=mri_purger.c line=259) from mri_free {49 ms}
mri_killpurge -- check if im==NULL ptr=0x562e5d6d6f00
mri_killpurge -- can't killpurge NULL fname! {49 ms}
------mri_killpurge [6]: EXIT} (file=mri_purger.c line=270) to mri_free {49 ms}
mri_free -- free im {49 ms}
-----mri_free [5]: EXIT} (file=mri_free.c line=67) to THD_delete_datablock {49 ms}
THD_delete_datablock -- free brick_ stuff {49 ms}
THD_delete_datablock -- KILL_KILL {49 ms}
THD_delete_datablock -- free attributes {49 ms}
----THD_delete_datablock [4]: EXIT} (file=thd_delete.c line=122) to THD_delete_3dim_dataset {49 ms}
THD_delete_3dim_dataset -- KILL_KILL {49 ms}
---THD_delete_3dim_dataset [3]: EXIT} (file=thd_delete.c line=179) to 3dECM main {49 ms}
............................................................................
** Command line was:
3dECM -mask /cpac_templates/Mask_ABIDE_85Percent_GM.nii.gz -memory 1.000000 -prefix eigenvector_centrality_merged.nii.gz -sparsity 0.001000 bandpassed_demeaned_filtered_trans_flirt.nii.gz
............................................................................
3dECM main
** Command line was:
3dECM -mask /cpac_templates/Mask_ABIDE_85Percent_GM.nii.gz -memory 1.000000 -prefix eigenvector_centrality_merged.nii.gz -sparsity 0.001000 bandpassed_demeaned_filtered_trans_flirt.nii.gz
** AFNI compile date = Mar 15 2021
** [[Precompiled binary linux_ubuntu_16_64: Mar 15 2021]]
** Program Crash **
sgiavasis
, Saturday, Apr 17, 2021 11:38 AM
C-PAC Run Info
T1W: 256 × 256 × 192
CPAC run errorcrash-20210408-011807-user-afni_centrality.a0-801f0be8-89c0-4f18-a142-ab8a64e47b5e.txt
tail of
pypeline.log(before run summary)tail of
slurm-18050.err(before run summary)/output/working/afni_centrality_eigenvector_centrality_274/_scan_rest/afni_centrality/command.txt/output/working/afni_centrality_eigenvector_centrality_274/_scan_rest/afni_centrality/_report/report.rstInclude:
[x] Run Config: (excerpt)
[x] Pipeline Config: cpac_pipeline_config_2021-04-07T17-40-30Z.yml
[x] Data Config: cpac_data_config_2021-04-07T17-40-30Z.yml
Developers only:
[x] Default Pipeline Diff: cpac_pipeline_config_2021-04-07T17-40-30Z_min.yml
[x] Node timing information: sorted_node_times.txt