220909-23:49:15,906 nipype.workflow INFO:
	 Running with omp_nthreads=8, nthreads=10
220909-23:49:15,907 nipype.workflow IMPORTANT:
	 
    Running qsiprep version 0.16.0RC3:
      * BIDS dataset path: /data.
      * Participant list: ['1049'].
      * Run identifier: 20220909-234914_f5ba524e-e540-4187-9990-a7ec1f15b0ca.
    
220909-23:49:16,472 nipype.utils WARNING:
	 A newer version (1.8.4) of nipy/nipype is available. You are using 1.8.1
220909-23:49:16,647 nipype.workflow INFO:
	 Combining all dwi files within each available session:
220909-23:49:16,647 nipype.workflow INFO:
	 	- 2 scans in session baseline
220909-23:49:16,663 nipype.workflow INFO:
	 [{'dwi_series': ['/data/sub-1049/ses-baseline/dwi/sub-1049_ses-baseline_acq-AP_dwi.nii.gz'], 'dwi_series_pedir': 'j', 'fieldmap_info': {'suffix': 'rpe_series', 'rpe_series': ['/data/sub-1049/ses-baseline/dwi/sub-1049_ses-baseline_acq-PA_dwi.nii.gz']}, 'concatenated_bids_name': 'sub-1049_ses-baseline'}]
220909-23:49:16,719 nipype.workflow IMPORTANT:
	 Creating dwi processing workflow "dwi_preproc_ses_baseline_wf" to produce output sub-1049_ses-baseline (1.05 GB / 86 DWIs). Memory resampled/largemem=1.19/1.24 GB.
220909-23:49:16,720 nipype.workflow INFO:
	 Automatically using 5, 5, 5 window for dwidenoise
220909-23:49:16,739 nipype.workflow INFO:
	 Using 8 threads in eddy
220909-23:49:18,667 nipype.workflow IMPORTANT:
	 Works derived from this qsiprep execution should include the following boilerplate:


Preprocessing was performed using *QSIPrep* 0.16.0RC3,
which is based on *Nipype* 1.8.1
(@nipype1; @nipype2; RRID:SCR_002502).

Anatomical data preprocessing

: The T1-weighted (T1w) image was corrected for intensity non-uniformity (INU)
using `N4BiasFieldCorrection` [@n4, ANTs 2.3.1],
and used as T1w-reference throughout the workflow.
The T1w-reference was then skull-stripped using `antsBrainExtraction.sh`
(ANTs 2.3.1), using OASIS as target template.
Spatial normalization to the ICBM 152 Nonlinear Asymmetrical
template version 2009c [@mni, RRID:SCR_008796] was performed
through nonlinear registration with `antsRegistration`
[ANTs 2.3.1, RRID:SCR_004757, @ants], using
brain-extracted versions of both T1w volume and template.
Brain tissue segmentation of cerebrospinal fluid (CSF),
white-matter (WM) and gray-matter (GM) was performed on
the brain-extracted T1w using `FAST` [FSL 6.0.5.1:57b01774, RRID:SCR_002823,
@fsl_fast].


Diffusion data preprocessing

: Images were grouped into two phase encoding polarity groups. Any images with a b-value less than 100 s/mm^2 were treated as a *b*=0 image. MP-PCA denoising as implemented in MRtrix3's `dwidenoise`[@dwidenoise1] was applied with a 5-voxel window. After MP-PCA, B1 field inhomogeneity was corrected using `dwibiascorrect` from MRtrix3 with the N4 algorithm [@n4]. After B1 bias correction, the mean intensity of the DWI series was adjusted so all the mean intensity of the b=0 images matched across eachseparate DWI scanning sequence.Both distortion groups were then merged into a single file, as required for the FSL workflows.

FSL (version 6.0.5.1:57b01774)'s eddy was used for head motion correction and Eddy current correction [@anderssoneddy]. Eddy was configured with a $q$-space smoothing factor of 10, a total of 5 iterations, and 1000 voxels used to estimate hyperparameters. A linear first level model and a linear second level model were used to characterize Eddy current-related spatial distortion. $q$-space coordinates were forcefully assigned to shells. Field offset was attempted to be separated from subject movement. Shells were aligned post-eddy. Eddy's outlier replacement was run [@eddyrepol]. Data were grouped by slice, only including values from slices determined to contain at least 250 intracerebral voxels. Groups deviating by more than 4 standard deviations from the prediction had their data replaced with imputed values. Data was collected with reversed phase-encode blips, resulting in pairs of images with distortions going in opposite directions. Here, multiple DWI series were acquired with opposite phase encoding directions, so b=0 images were extracted from each. From these pairs the susceptibility-induced off-resonance field was estimated using a method similar to that described in [@topup]. The fieldmaps were ultimately incorporated into the Eddy current and head motion correction interpolation. Final interpolation was performed using the `jac` method.

Several confounding time-series were calculated based on the
preprocessed DWI: framewise displacement (FD) using the
implementation in *Nipype* [following the definitions by @power_fd_dvars].
The head-motion estimates calculated in the correction step were also
placed within the corresponding confounds file. Slicewise cross correlation
was also calculated.
The DWI time-series were resampled to ACPC,
generating a *preprocessed DWI run in ACPC space* with 2mm isotropic voxels.


Many internal operations of *QSIPrep* use
*Nilearn* 0.9.1 [@nilearn, RRID:SCR_001362] and
*Dipy* [@dipy].
For more details of the pipeline, see [the section corresponding
to workflows in *QSIPrep*'s documentation](https://qsiprep.readthedocs.io/en/latest/workflows.html "QSIPrep's documentation").


### References


[WARNING] This document format requires a nonempty <title> element.
  Please specify either 'title' or 'pagetitle' in the metadata.
  Falling back to 'CITATION'
220909-23:49:26,343 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.denoiser" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/denoiser".
220909-23:49:26,371 nipype.workflow INFO:
	 [Node] Executing "denoiser" <qsiprep.interfaces.mrtrix.DWIDenoise>
220909-23:49:30,460 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.t1_skull_strip" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/t1_skull_strip".
220909-23:49:30,493 nipype.workflow INFO:
	 [Node] Executing "t1_skull_strip" <nipype.interfaces.ants.segmentation.BrainExtraction>
220909-23:53:37,271 nipype.interface INFO:
	 Generating denoising visual report
220909-23:54:02,497 nipype.workflow INFO:
	 [Node] Finished "denoiser", elapsed time 276.000421s.
220909-23:54:06,115 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.get_b0s" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/get_b0s".
220909-23:54:06,133 nipype.workflow INFO:
	 [Node] Executing "get_b0s" <qsiprep.interfaces.gradients.ExtractB0s>
220909-23:54:08,421 nipype.workflow INFO:
	 [Node] Finished "get_b0s", elapsed time 2.271599s.
220909-23:54:12,38 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.quick_mask" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/quick_mask".
220909-23:54:12,60 nipype.workflow INFO:
	 [Node] Executing "quick_mask" <qsiprep.interfaces.nilearn.MaskEPI>
220909-23:54:13,710 nipype.workflow INFO:
	 [Node] Finished "quick_mask", elapsed time 1.630464s.
220909-23:54:15,950 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.biascorr" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/biascorr".
220909-23:54:16,72 nipype.workflow INFO:
	 [Node] Executing "biascorr" <qsiprep.interfaces.mrtrix.DWIBiasCorrect>
220909-23:54:46,547 nipype.interface INFO:
	 Generating denoising visual report
220909-23:55:11,132 nipype.workflow INFO:
	 [Node] Finished "biascorr", elapsed time 54.950989s.
220909-23:55:12,394 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.merge_confounds" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/merge_confounds".
220909-23:55:12,395 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.conformed_images" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/conformed_images".
220909-23:55:14,233 nipype.workflow INFO:
	 [Node] Executing "conformed_images" <nipype.interfaces.utility.base.Merge>
220909-23:55:14,250 nipype.workflow INFO:
	 [Node] Finished "conformed_images", elapsed time 0.000229s.
220909-23:55:14,353 nipype.workflow INFO:
	 [Node] Executing "merge_confounds" <nipype.interfaces.utility.base.Merge>
220909-23:55:14,369 nipype.workflow INFO:
	 [Node] Finished "merge_confounds", elapsed time 0.000185s.
220909-23:55:18,67 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.dwi_denoise_ses_baseline_acq_AP_dwi_wf.hstack_confounds" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/dwi_denoise_ses_baseline_acq_AP_dwi_wf/hstack_confounds".
220909-23:55:18,89 nipype.workflow INFO:
	 [Node] Executing "hstack_confounds" <qsiprep.interfaces.dwi_merge.StackConfounds>
220909-23:55:18,119 nipype.workflow INFO:
	 [Node] Finished "hstack_confounds", elapsed time 0.012092s.
220909-23:55:18,261 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.denoising_confounds" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/denoising_confounds".
220909-23:55:20,96 nipype.workflow INFO:
	 [Node] Executing "denoising_confounds" <nipype.interfaces.utility.base.Merge>
220909-23:55:20,113 nipype.workflow INFO:
	 [Node] Finished "denoising_confounds", elapsed time 0.000176s.
220909-23:55:22,100 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.merge_plus.merge_dwis" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/merge_plus/merge_dwis".
220909-23:55:22,128 nipype.workflow INFO:
	 [Node] Executing "merge_dwis" <qsiprep.interfaces.dwi_merge.MergeDWIs>
220909-23:55:23,248 nipype.workflow INFO:
	 [Node] Finished "merge_dwis", elapsed time 1.102606s.
220909-23:55:24,272 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.pm_dwis" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/pm_dwis".
220909-23:55:24,274 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.pm_bids_dwis" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/pm_bids_dwis".
220909-23:55:24,402 nipype.workflow INFO:
	 [Node] Executing "pm_dwis" <nipype.interfaces.utility.base.Merge>
220909-23:55:24,404 nipype.workflow INFO:
	 [Node] Finished "pm_dwis", elapsed time 0.000652s.
220909-23:55:24,405 nipype.workflow INFO:
	 [Node] Executing "pm_bids_dwis" <nipype.interfaces.utility.base.Merge>
220909-23:55:24,407 nipype.workflow INFO:
	 [Node] Finished "pm_bids_dwis", elapsed time 0.000584s.
220909-23:55:26,265 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.pm_bvals" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/pm_bvals".
220909-23:55:26,267 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.pm_bvecs" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/pm_bvecs".
220909-23:55:26,301 nipype.workflow INFO:
	 [Node] Executing "pm_bvecs" <nipype.interfaces.utility.base.Merge>
220909-23:55:26,302 nipype.workflow INFO:
	 [Node] Finished "pm_bvecs", elapsed time 0.000205s.
220909-23:55:26,310 nipype.workflow INFO:
	 [Node] Executing "pm_bvals" <nipype.interfaces.utility.base.Merge>
220909-23:55:26,312 nipype.workflow INFO:
	 [Node] Finished "pm_bvals", elapsed time 0.000484s.
220909-23:55:28,272 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.pm_denoising_confounds" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/pm_denoising_confounds".
220909-23:55:28,395 nipype.workflow INFO:
	 [Node] Executing "pm_denoising_confounds" <nipype.interfaces.utility.base.Merge>
220909-23:55:28,396 nipype.workflow INFO:
	 [Node] Finished "pm_denoising_confounds", elapsed time 0.00015s.
220909-23:55:30,369 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.rpe_concat" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/rpe_concat".
220909-23:55:30,403 nipype.workflow INFO:
	 [Node] Executing "rpe_concat" <qsiprep.interfaces.dwi_merge.MergeDWIs>
220909-23:55:37,996 nipype.workflow INFO:
	 [Node] Finished "rpe_concat", elapsed time 7.59187s.
220909-23:55:38,243 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.dwi_qc_wf.raw_src" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_src".
220909-23:55:38,245 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.gather_inputs" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/gather_inputs".
220909-23:55:38,285 nipype.workflow INFO:
	 [Node] Executing "gather_inputs" <qsiprep.interfaces.eddy.GatherEddyInputs>
220909-23:55:38,290 nipype.workflow INFO:
	 [Node] Executing "raw_src" <qsiprep.interfaces.dsi_studio.DSIStudioCreateSrc>
220909-23:55:50,347 nipype.workflow INFO:
	 [Node] Finished "raw_src", elapsed time 12.055734s.
220909-23:55:52,299 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.dwi_qc_wf.raw_src_qc" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc".
220909-23:55:52,323 nipype.workflow INFO:
	 [Node] Executing "raw_src_qc" <qsiprep.interfaces.dsi_studio.DSIStudioSrcQC>
220909-23:55:54,212 nipype.interface INFO:
	 DSI Studio Feb 22 2022, Fang-Cheng Yeh
source=/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz
action=qc
checking /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_src_qc/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz

220909-23:55:54,214 nipype.workflow INFO:
	 [Node] Finished "raw_src_qc", elapsed time 1.889796s.
220909-23:55:56,296 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.dwi_qc_wf.raw_gqi" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi".
220909-23:55:56,318 nipype.workflow INFO:
	 [Node] Executing "raw_gqi" <qsiprep.interfaces.dsi_studio.DSIStudioGQIReconstruction>
220909-23:56:01,328 nipype.workflow INFO:
	 [Node] Finished "gather_inputs", elapsed time 23.041412s.
220909-23:56:02,263 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.enhance_pre_sdc" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/enhance_pre_sdc".
220909-23:56:02,283 nipype.workflow INFO:
	 [Node] Executing "enhance_pre_sdc" <qsiprep.interfaces.nilearn.EnhanceB0>
 file none does not exist . 
220909-23:56:04,466 nipype.workflow INFO:
	 [Node] Finished "enhance_pre_sdc", elapsed time 2.18202s.
220909-23:56:06,236 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.topup" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/topup".
220909-23:56:06,256 nipype.workflow INFO:
	 [Node] Executing "topup" <nipype.interfaces.fsl.epi.TOPUP>
current dir /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi
input src /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz
split src name sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz
search target /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_gqi/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz*gqi*.fib.gz
220909-23:56:29,630 nipype.workflow INFO:
	 [Node] Finished "raw_gqi", elapsed time 33.311771s.
220909-23:56:30,264 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.topup_to_eddy_reg" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/topup_to_eddy_reg".
220909-23:56:30,287 nipype.workflow INFO:
	 [Node] Executing "topup_to_eddy_reg" <nipype.interfaces.fsl.preprocess.FLIRT>
220909-23:56:35,221 nipype.workflow INFO:
	 [Node] Finished "topup_to_eddy_reg", elapsed time 4.933439s.
220909-23:56:36,376 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.topup_summary" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/topup_summary".
220909-23:56:36,395 nipype.workflow INFO:
	 [Node] Executing "topup_summary" <qsiprep.interfaces.reports.TopupSummary>
220909-23:56:36,398 nipype.workflow INFO:
	 [Node] Finished "topup_summary", elapsed time 0.002628s.
220909-23:56:38,236 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.dwi_qc_wf.raw_fib_qc" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc".
220909-23:56:38,262 nipype.workflow INFO:
	 [Node] Executing "raw_fib_qc" <qsiprep.interfaces.dsi_studio.DSIStudioFibQC>
220909-23:56:39,580 nipype.interface INFO:
	 DSI Studio Feb 22 2022, Fang-Cheng Yeh
source=/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz.odf.gqi.1.25.fib.gz
action=qc
loading /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/raw_fib_qc/sub-1049_ses-baseline_acq-AP_dwi_merged_merged.src.gz.odf.gqi.1.25.fib.gz...

220909-23:56:39,582 nipype.workflow INFO:
	 [Node] Finished "raw_fib_qc", elapsed time 1.318513s.
220909-23:56:40,354 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.pre_hmc_wf.dwi_qc_wf.merged_qc" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/pre_hmc_wf/dwi_qc_wf/merged_qc".
220909-23:56:40,383 nipype.workflow INFO:
	 [Node] Executing "merged_qc" <qsiprep.interfaces.dsi_studio.DSIStudioMergeQC>
220909-23:56:40,393 nipype.workflow INFO:
	 [Node] Finished "merged_qc", elapsed time 0.009061s.
220909-23:57:36,992 nipype.workflow INFO:
	 [Node] Finished "t1_skull_strip", elapsed time 486.419184s.
220909-23:57:38,220 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.rigid_acpc_align" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_align".
220909-23:57:38,239 nipype.workflow INFO:
	 [Node] Executing "rigid_acpc_align" <nipype.interfaces.ants.registration.Registration>
220909-23:58:25,677 nipype.workflow INFO:
	 [Node] Finished "rigid_acpc_align", elapsed time 47.306772s.
220909-23:58:26,225 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.rigid_acpc_resample_brain" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_resample_brain".
220909-23:58:26,227 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.rigid_acpc_resample_head" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_resample_head".
220909-23:58:26,228 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.rigid_acpc_resample_mask" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_resample_mask".
220909-23:58:26,229 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.skullstrip_wf.rigid_acpc_resample_seg" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_resample_seg".
220909-23:58:26,254 nipype.workflow INFO:
	 [Node] Executing "rigid_acpc_resample_mask" <nipype.interfaces.ants.resampling.ApplyTransforms>
220909-23:58:26,255 nipype.workflow INFO:
	 [Node] Executing "rigid_acpc_resample_seg" <nipype.interfaces.ants.resampling.ApplyTransforms>
220909-23:58:26,261 nipype.workflow INFO:
	 [Node] Executing "rigid_acpc_resample_brain" <nipype.interfaces.ants.resampling.ApplyTransforms>
220909-23:58:26,268 nipype.workflow INFO:
	 [Node] Executing "rigid_acpc_resample_head" <nipype.interfaces.ants.resampling.ApplyTransforms>
220909-23:58:47,490 nipype.workflow INFO:
	 [Node] Finished "rigid_acpc_resample_brain", elapsed time 21.052086s.
220909-23:58:48,240 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.t1_seg" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/t1_seg".
220909-23:58:48,268 nipype.workflow INFO:
	 [Node] Executing "t1_seg" <nipype.interfaces.fsl.preprocess.FAST>
220909-23:58:50,434 nipype.workflow INFO:
	 [Node] Finished "rigid_acpc_resample_head", elapsed time 23.989805s.
220909-23:59:01,651 nipype.workflow INFO:
	 [Node] Finished "rigid_acpc_resample_mask", elapsed time 35.235527s.
220909-23:59:01,900 nipype.workflow INFO:
	 [Node] Finished "rigid_acpc_resample_seg", elapsed time 35.488515s.
220909-23:59:02,228 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.t1_2_mni" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/t1_2_mni".
220909-23:59:02,251 nipype.workflow INFO:
	 [Node] Executing "t1_2_mni" <qsiprep.niworkflows.interfaces.registration.RobustMNINormalizationRPT>
220910-00:00:14,987 nipype.workflow INFO:
	 [Node] Finished "t1_seg", elapsed time 86.718274s.
220910-00:00:16,389 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.seg2msks" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/seg2msks".
220910-00:00:16,405 nipype.workflow INFO:
	 [Node] Executing "seg2msks" <nipype.interfaces.utility.wrappers.Function>
220910-00:00:17,219 nipype.workflow INFO:
	 [Node] Finished "seg2msks", elapsed time 0.812728s.
220910-00:00:20,463 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.seg_rpt" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/seg_rpt".
220910-00:00:20,485 nipype.workflow INFO:
	 [Node] Executing "seg_rpt" <qsiprep.niworkflows.interfaces.masks.ROIsPlot>
220910-00:00:32,328 nipype.workflow INFO:
	 [Node] Finished "seg_rpt", elapsed time 11.842719s.
220910-00:00:57,739 nipype.workflow INFO:
	 [Node] Finished "topup", elapsed time 291.481745s.
220910-00:00:58,210 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.unwarped_mean" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/unwarped_mean".
220910-00:00:58,230 nipype.workflow INFO:
	 [Node] Executing "unwarped_mean" <qsiprep.interfaces.images.IntraModalMerge>
220910-00:00:59,626 nipype.workflow INFO:
	 [Node] Finished "unwarped_mean", elapsed time 1.39548s.
220910-00:01:00,217 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.register_t1_to_raw" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/register_t1_to_raw".
220910-00:01:00,241 nipype.workflow INFO:
	 [Node] Executing "register_t1_to_raw" <nipype.interfaces.ants.registration.Registration>
220910-00:01:46,804 nipype.workflow INFO:
	 [Node] Finished "register_t1_to_raw", elapsed time 46.561338s.
220910-00:01:48,195 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.t1_mask_to_b0" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/t1_mask_to_b0".
220910-00:01:48,218 nipype.workflow INFO:
	 [Node] Executing "t1_mask_to_b0" <nipype.interfaces.ants.resampling.ApplyTransforms>
220910-00:01:52,766 nipype.workflow INFO:
	 [Node] Finished "t1_mask_to_b0", elapsed time 4.547147s.
220910-00:01:54,189 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.pre_eddy_b0_ref_wf.enhance_and_mask_b0" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/enhance_and_mask_b0".
220910-00:01:54,207 nipype.workflow INFO:
	 [Node] Executing "enhance_and_mask_b0" <qsiprep.interfaces.nilearn.EnhanceAndSkullstripB0>
 file none does not exist . 
220910-00:02:00,563 nipype.interface WARNING:
	 Degenerate Mask case. Using compute_epi_mask
220910-00:02:02,940 nipype.interface WARNING:
	 Masking appears to have failed. Using a backup method
 file none does not exist . 
220910-00:02:06,328 nipype.workflow INFO:
	 [Node] Finished "enhance_and_mask_b0", elapsed time 12.120207s.
220910-00:02:08,178 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.b0_ref_to_lps" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/b0_ref_to_lps".
220910-00:02:08,179 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.b0_ref_mask_to_lps" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/b0_ref_mask_to_lps".
220910-00:02:08,198 nipype.workflow INFO:
	 [Node] Executing "b0_ref_to_lps" <qsiprep.interfaces.images.ConformDwi>
220910-00:02:08,202 nipype.workflow INFO:
	 [Node] Executing "b0_ref_mask_to_lps" <qsiprep.interfaces.images.ConformDwi>
220910-00:02:08,255 nipype.interface INFO:
	 Re-orienting /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/enhance_and_mask_b0/topup_imain_corrected_avg_mask.nii.gz to LPS
220910-00:02:08,276 nipype.workflow INFO:
	 [Node] Finished "b0_ref_mask_to_lps", elapsed time 0.073083s.
220910-00:02:08,544 nipype.interface INFO:
	 Re-orienting /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/enhance_and_mask_b0/topup_imain_corrected_avg_unbiasedsharpened.nii.gz to LPS
220910-00:02:08,749 nipype.workflow INFO:
	 [Node] Finished "b0_ref_to_lps", elapsed time 0.550182s.
220910-00:02:10,185 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.b0_ref_brain_to_lps" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/b0_ref_brain_to_lps".
220910-00:02:10,206 nipype.workflow INFO:
	 [Node] Executing "b0_ref_brain_to_lps" <qsiprep.interfaces.images.ConformDwi>
220910-00:02:10,520 nipype.interface INFO:
	 Re-orienting /work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/pre_eddy_b0_ref_wf/enhance_and_mask_b0/topup_imain_corrected_avg_brain.nii.gz to LPS
220910-00:02:10,560 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.b0_anat_coreg.b0_to_anat" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/b0_anat_coreg/b0_to_anat".
220910-00:02:10,582 nipype.workflow INFO:
	 [Node] Executing "b0_to_anat" <qsiprep.interfaces.niworkflows.ANTSRegistrationRPT>
220910-00:02:10,751 nipype.workflow INFO:
	 [Node] Finished "b0_ref_brain_to_lps", elapsed time 0.544052s.
220910-00:04:43,114 nipype.interface INFO:
	 Report - setting fixed (/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/skullstrip_wf/rigid_acpc_resample_brain/highres001_BrainExtractionBrain_trans.nii.gz) and moving (/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/b0_anat_coreg/b0_to_anat/transform_Warped.nii.gz) images
220910-00:04:52,67 nipype.workflow INFO:
	 [Node] Finished "b0_to_anat", elapsed time 161.483194s.
220910-00:04:54,285 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.fmap_unwarp_report_wf.map_seg" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/fmap_unwarp_report_wf/map_seg".
220910-00:04:54,311 nipype.workflow INFO:
	 [Node] Executing "map_seg" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:04:59,477 nipype.workflow INFO:
	 [Node] Finished "map_seg", elapsed time 5.022047s.
220910-00:05:00,170 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.fmap_unwarp_report_wf.sel_wm" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/fmap_unwarp_report_wf/sel_wm".
220910-00:05:00,187 nipype.workflow INFO:
	 [Node] Executing "sel_wm" <nipype.interfaces.utility.wrappers.Function>
220910-00:05:00,231 nipype.workflow INFO:
	 [Node] Finished "sel_wm", elapsed time 0.043217s.
220910-00:05:02,171 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.fmap_unwarp_report_wf.dwi_rpt" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/fmap_unwarp_report_wf/dwi_rpt".
220910-00:05:02,194 nipype.workflow INFO:
	 [Node] Executing "dwi_rpt" <qsiprep.niworkflows.interfaces.registration.SimpleBeforeAfterRPT>
220910-00:05:10,506 nipype.workflow INFO:
	 [Node] Finished "dwi_rpt", elapsed time 8.31156s.
220910-00:25:45,259 nipype.workflow INFO:
	 [Node] Finished "t1_2_mni", elapsed time 1603.007207s.
220910-00:25:46,93 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.mni_mask" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_mask".
220910-00:25:46,95 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.anat_preproc_wf.mni_seg" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_seg".
220910-00:25:46,115 nipype.workflow INFO:
	 [Node] Executing "mni_mask" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:25:46,121 nipype.workflow INFO:
	 [Node] Executing "mni_seg" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:25:49,904 nipype.workflow INFO:
	 [Node] Setting-up "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.eddy" in "/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy".
220910-00:25:49,930 nipype.workflow INFO:
	 [Node] Executing "eddy" <qsiprep.interfaces.eddy.ExtendedEddy>
220910-00:26:39,345 nipype.workflow INFO:
	 [Node] Finished "mni_mask", elapsed time 53.229249s.
220910-00:26:40,131 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms0" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms0".
220910-00:26:40,151 nipype.workflow INFO:
	 [Node] Executing "_mni_tpms0" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:26:43,942 nipype.workflow INFO:
	 [Node] Finished "_mni_tpms0", elapsed time 3.790706s.
220910-00:26:45,366 nipype.workflow INFO:
	 [Node] Finished "mni_seg", elapsed time 59.244401s.
220910-00:26:46,122 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms1" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms1".
220910-00:26:46,125 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms2" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms2".
220910-00:26:46,139 nipype.workflow INFO:
	 [Node] Executing "_mni_tpms1" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:26:46,143 nipype.workflow INFO:
	 [Node] Executing "_mni_tpms2" <qsiprep.niworkflows.interfaces.fixes.FixHeaderApplyTransforms>
220910-00:26:49,861 nipype.workflow INFO:
	 [Node] Finished "_mni_tpms2", elapsed time 3.717387s.
220910-00:26:50,267 nipype.workflow INFO:
	 [Node] Finished "_mni_tpms1", elapsed time 3.937631s.
220910-00:26:51,988 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms0" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms0".
220910-00:26:51,992 nipype.workflow INFO:
	 [Node] Cached "_mni_tpms0" - collecting precomputed outputs
220910-00:26:51,992 nipype.workflow INFO:
	 [Node] "_mni_tpms0" found cached.
220910-00:26:51,993 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms1" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms1".
220910-00:26:51,996 nipype.workflow INFO:
	 [Node] Cached "_mni_tpms1" - collecting precomputed outputs
220910-00:26:51,996 nipype.workflow INFO:
	 [Node] "_mni_tpms1" found cached.
220910-00:26:51,998 nipype.workflow INFO:
	 [Node] Setting-up "_mni_tpms2" in "/work/qsiprep_wf/single_subject_1049_wf/anat_preproc_wf/mni_tpms/mapflow/_mni_tpms2".
220910-00:26:52,1 nipype.workflow INFO:
	 [Node] Cached "_mni_tpms2" - collecting precomputed outputs
220910-00:26:52,1 nipype.workflow INFO:
	 [Node] "_mni_tpms2" found cached.
220910-00:27:13,976 nipype.workflow INFO:
	 [Node] Finished "eddy", elapsed time 84.043826s.
220910-00:27:13,976 nipype.workflow WARNING:
	 Storing result file without outputs
220910-00:27:13,981 nipype.workflow WARNING:
	 [Node] Error on "qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.eddy" (/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy)
220910-00:27:15,893 nipype.workflow ERROR:
	 Node eddy failed to run on host 84a32ecdf80a.
220910-00:27:15,898 nipype.workflow ERROR:
	 Saving crash info to /out/qsiprep/sub-1049/log/20220909-234914_f5ba524e-e540-4187-9990-a7ec1f15b0ca/crash-20220910-002715-root-eddy-7b39f67a-72dc-4e42-910f-762458cb1cf1.txt
Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node
    result["result"] = node.run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 524, in run
    result = self._run_interface(execute=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 642, in _run_interface
    return self._run_command(execute)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 750, in _run_command
    raise NodeExecutionError(
nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node eddy.

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 454, in aggregate_outputs
    setattr(outputs, key, val)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate
    value = super(File, self).validate(objekt, name, value, return_pathlike=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate
    self.error(objekt, name, str(value))
  File "/usr/local/miniconda/lib/python3.8/site-packages/traits/base_trait_handler.py", line 74, in error
    raise TraitError(
traits.trait_errors.TraitError: The 'out_parameter' trait of an ExtendedEddyOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' <class 'str'> was specified.

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 401, in run
    outputs = self.aggregate_outputs(runtime)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 461, in aggregate_outputs
    raise FileNotFoundError(msg)
FileNotFoundError: No such file or directory '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' for output 'out_parameter' of a ExtendedEddy interface


220910-00:27:17,897 nipype.workflow ERROR:
	 could not run node: qsiprep_wf.single_subject_1049_wf.dwi_preproc_ses_baseline_wf.hmc_sdc_wf.eddy
QSIPrep failed: Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node
    result["result"] = node.run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 524, in run
    result = self._run_interface(execute=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 642, in _run_interface
    return self._run_command(execute)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 750, in _run_command
    raise NodeExecutionError(
nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node eddy.

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 454, in aggregate_outputs
    setattr(outputs, key, val)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate
    value = super(File, self).validate(objekt, name, value, return_pathlike=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate
    self.error(objekt, name, str(value))
  File "/usr/local/miniconda/lib/python3.8/site-packages/traits/base_trait_handler.py", line 74, in error
    raise TraitError(
traits.trait_errors.TraitError: The 'out_parameter' trait of an ExtendedEddyOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' <class 'str'> was specified.

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 401, in run
    outputs = self.aggregate_outputs(runtime)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 461, in aggregate_outputs
    raise FileNotFoundError(msg)
FileNotFoundError: No such file or directory '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' for output 'out_parameter' of a ExtendedEddy interface


Traceback (most recent call last):
  File "/usr/local/miniconda/bin/qsiprep", line 8, in <module>
    sys.exit(main())
  File "/usr/local/miniconda/lib/python3.8/site-packages/qsiprep/cli/run.py", line 659, in main
    qsiprep_wf.run(**plugin_settings)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/workflows.py", line 638, in run
    runner.run(execgraph, updatehash=updatehash, config=self.config)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/plugins/base.py", line 212, in run
    raise error from cause
RuntimeError: Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/plugins/multiproc.py", line 67, in run_node
    result["result"] = node.run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 524, in run
    result = self._run_interface(execute=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 642, in _run_interface
    return self._run_command(execute)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/pipeline/engine/nodes.py", line 750, in _run_command
    raise NodeExecutionError(
nipype.pipeline.engine.nodes.NodeExecutionError: Exception raised while executing Node eddy.

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 454, in aggregate_outputs
    setattr(outputs, key, val)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 330, in validate
    value = super(File, self).validate(objekt, name, value, return_pathlike=True)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/traits_extension.py", line 135, in validate
    self.error(objekt, name, str(value))
  File "/usr/local/miniconda/lib/python3.8/site-packages/traits/base_trait_handler.py", line 74, in error
    raise TraitError(
traits.trait_errors.TraitError: The 'out_parameter' trait of an ExtendedEddyOutputSpec instance must be a pathlike object or string representing an existing file, but a value of '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' <class 'str'> was specified.

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 401, in run
    outputs = self.aggregate_outputs(runtime)
  File "/usr/local/miniconda/lib/python3.8/site-packages/nipype/interfaces/base/core.py", line 461, in aggregate_outputs
    raise FileNotFoundError(msg)
FileNotFoundError: No such file or directory '/work/qsiprep_wf/single_subject_1049_wf/dwi_preproc_ses_baseline_wf/hmc_sdc_wf/eddy/eddy_corrected.eddy_parameters' for output 'out_parameter' of a ExtendedEddy interface


Sentry is attempting to send 4 pending error messages
Waiting up to 2 seconds
Press Ctrl-C to quit