app-C-PAC-brainlife.io v0.0.0.dev - default pipeline, matched paths in run command

[shnizzedy]

C-PAC Run Info

**Description**	Default pipeline, 48 hours, absolute paths in run command https://brainlife.io/project/5f299e1fbeafe973f362a972/process/5f9c2f2029699c16afecc876 Same as #4 (https://brainlife.io/project/5f299e1fbeafe973f362a972/process/5f981e148226064cdb0a1ae7) except [paths are matched between container and disk](https://github.com/FCP-INDI/app-C-PAC-brainlife.io/commit/9bf7a186961f794a9d71be40dea2f1b698c755fd).
**Version**	1.7.1
**Container**	Singularity
**System**	brainlife.io
**Data Size**	how many TRs is your data? (if BOLD)
**Results**	The path-matching seems to make no difference. **FAILED: TIMEOUT** at 48 hours. ```BASH ++ Output dataset /export/prod/5f9c2f2029699c16afecc876/5f9c2f2129699cde4eecc879/output/working/resting_preproc_sub-A00021039_ses-DS2/func_preproc_afni_mean_3dvolreg_0/_scan_rest_acq-645/split/sub-A00021039_ses-DS2_task-rest_acq-645_bold_calc_tshift_resample_2.nii.gz du: cannot access './output/working/resting_preproc_sub-A00021039_ses-DS2/_scan_rest_acq-645/_selector_CSF-2mmE-M_aC-CSF+WM-2mm-DPC5_G-M_M-SDB_P-2_BP-B0.01-T0.1/_mask_rois_3mm_mask_file_..cpac_templates..rois_3mm.nii.gz/sca_roi_files_mean_0/mapflow/_sca_roi_files_mean_053/sca_ROI_54.nii.gz': No such file or directory du: cannot access './output/working/resting_preproc_sub-A00021039_ses-DS2/_scan_rest_acq-645/_selector_CSF-2mmE-M_aC-CSF+WM-2mm-DPC5_G-M_M-SDB_P-2_BP-B0.01-T0.1/_mask_ez_mask_pad_mask_file_..cpac_templates..ez_mask_pad.nii.gz/sca_tempreg_maps_files_mean_0/mapflow/_sca_tempreg_maps_files_mean_091/.proc-27393_time-1604112704.2589953_freq-1.00': No such file or directory du: cannot access './output/working/resting_preproc_sub-A00021039_ses-DS2/_scan_rest_acq-645/_selector_CSF-2mmE-M_aC-CSF+WM-2mm-DPC5_G-M_M-SDB_P-2_BP-B0.01-T0.1/_mask_CC400_mask_file_..cpac_templates..CC400.nii.gz/sca_roi_files_mean_0/mapflow/_sca_roi_files_mean_0186/sca_ROI_190.nii.gz': No such file or directory du: cannot access './output/working/resting_preproc_sub-A00021039_ses-DS2/_scan_rest_acq-645/_selector_CSF-2mmE-M_aC-CSF+WM-2mm-DPC5_M-SDB_P-2_BP-B0.01-T0.1/_mask_CC400_mask_file_..cpac_templates..CC400.nii.gz/_fwhm_4/sca_roi_files_smooth_mean_1/mapflow/_sca_roi_files_smooth_mean_167/sca_ROI_69_maths.nii.gz': No such file or directory du: cannot access './output/working/resting_preproc_sub-A00021039_ses-DS2/_scan_rest_acq-645/_selector_CSF-2mmE-M_aC-CSF+WM-2mm-DPC5_M-SDB_P-2_BP-B0.01-T0.1/_mask_CC400_mask_file_..cpac_templates..CC400.nii.gz/_fwhm_4/sca_roi_files_smooth_mean_1/mapflow/_sca_roi_files_smooth_mean_1351/sca_ROI_356_maths.nii.gz': No such file or directory slurmstepd-slurm7-compute5: error: *** JOB 24555 ON slurm7-compute5 CANCELLED AT 2020-11-01T16:54:17 DUE TO TIME LIMIT *** ``` logs and outputs available at [brainlife.io](https://brainlife.io/project/5f299e1fbeafe973f362a972/process/5f9c2f2029699c16afecc876) The only crash files are `sinker`s and `FileNotFoundError`s.

Include:

• [x] Run Command:

anat/t1w:
  NKI: A00021039 / DS2 | DS2
func/task: 
  NKI: A00021039 / DS2 rest | DS2,rest,645

• [x] Pipeline Config: default pipeline
• [x] Data Config: BIDS

Developers only:

• [ ] Default Pipeline Diff: n/a

• [x] Screenshots of brain extraction and registration wireframe overlays from QC pages (if available):

• [x] Node timing information: :paperclip: sorted_node_times.txt