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edickie / ciftify

The tools of the Human Connectome Project (HCP) adapted for working with non-HCP datasets
https://edickie.github.io/ciftify/
MIT License
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Error creating atlas files (aparc.a2009s+aseg.nii.gz) #180

Open arioskyag opened 1 year ago

arioskyag commented 1 year ago

Dear community: I am running Ciftify in an example dataset and I am getting this warning, the process does not crash but doesn't generate the atlas files correctly in each subject.

Any help or ideas would be vary helpfull. Thank you in advance.

This is the warning in the log file:

Running: wb_command -set-map-names /data3_260T/data/CCLAB_DATASETS/CHBM/CHBM_ARIOSKY/Data_report/DS_BIDS_CHBM/derivatives/ciftify/sub-CBM00001/MNINonLinear/Native/sub-CBM00001.aparc.a2009s.native.dlabel.nii -map 1 sub-CBM00001_aparc.a2009s label file /tmp/tmpz4flmgdn/MNINonLinear/native/sub-CBM00001.L.BA.native.label.gii does not exist. Skipping dlabel creation. Running: wb_command -cifti-create-label /data3_260T/data/CCLAB_DATASETS/CHBM/CHBM_ARIOSKY/Data_report/DS_BIDS_CHBM/derivatives/ciftify/sub-CBM00001/MNINonLinear/Native/sub-CBM00001.aparc.DKTatlas.native.dlabel.nii -left-label /tmp/tmpz4flmgdn/MNINonLinear/native/sub-CBM00001.L.aparc.DKTatlas.native.label.gii -roi-left /data3_260T/data/CCLAB_DATASETS/CHBM/CHBM_ARIOSKY/Data_report/DS_BIDS_CHBM/derivatives/ciftify/sub-CBM00001/MNINonLinear/Native/sub-CBM00001.L.roi.native.shape.gii -right-label /tmp/tmpz4flmgdn/MNINonLinear/native/sub-CBM00001.R.aparc.DKTatlas.native.label.gii -roi-right /data3_260T/data/CCLAB_DATASETS/CHBM/CHBM_ARIOSKY/Data_report/DS_BIDS_CHBM/derivatives/ciftify/sub-CBM00001/MNINonLinear/Native/sub-CBM00001.R.roi.native.shape.gii

WARNING: conflicting key value for label 'R_bankssts' reassigned to key 36

WARNING: conflicting key value for label 'R_caudalanteriorcingulate' reassigned to key 37 cifti_recon_all.log

WARNING: conflicting key value for label 'R_caudalmiddlefrontal' reassigned to key 38

WARNING: conflicting key value for label 'R_corpuscallosum' reassigned to key 39

WARNING: conflicting key value for label 'R_cuneus' reassigned to key 40

WARNING: conflicting key value for label 'R_entorhinal' reassigned to key 41

WARNING: conflicting key value for label 'R_fusiform' reassigned to key 42

WARNING: conflicting key value for label 'R_inferiorparietal' reassigned to key 43

WARNING: conflicting key value for label 'R_inferiortemporal' reassigned to key 44

WARNING: conflicting key value for label 'R_isthmuscingulate' reassigned to key 45

WARNING: conflicting key value for label 'R_lateraloccipital' reassigned to key 46

WARNING: conflicting key value for label 'R_lateralorbitofrontal' reassigned to key 47

WARNING: conflicting key value for label 'R_lingual' reassigned to key 48

WARNING: conflicting key value for label 'R_medialorbitofrontal' reassigned to key 49

WARNING: conflicting key value for label 'R_middletemporal' reassigned to key 50

WARNING: conflicting key value for label 'R_parahippocampal' reassigned to key 51

WARNING: conflicting key value for label 'R_paracentral' reassigned to key 52

WARNING: conflicting key value for label 'R_parsopercularis' reassigned to key 53

WARNING: conflicting key value for label 'R_parsorbitalis' reassigned to key 54

WARNING: conflicting key value for label 'R_parstriangularis' reassigned to key 55

WARNING: conflicting key value for label 'R_pericalcarine' reassigned to key 56

WARNING: conflicting key value for label 'R_postcentral' reassigned to key 57

WARNING: conflicting key value for label 'R_posteriorcingulate' reassigned to key 58

WARNING: conflicting key value for label 'R_precentral' reassigned to key 59

WARNING: conflicting key value for label 'R_precuneus' reassigned to key 60

WARNING: conflicting key value for label 'R_rostralanteriorcingulate' reassigned to key 61

WARNING: conflicting key value for label 'R_rostralmiddlefrontal' reassigned to key 62

WARNING: conflicting key value for label 'R_superiorfrontal' reassigned to key 63

WARNING: conflicting key value for label 'R_superiorparietal' reassigned to key 64

WARNING: conflicting key value for label 'R_superiortemporal' reassigned to key 65

WARNING: conflicting key value for label 'R_supramarginal' reassigned to key 66

WARNING: conflicting key value for label 'R_frontalpole' reassigned to key 67

WARNING: conflicting key value for label 'R_temporalpole' reassigned to key 68

WARNING: conflicting key value for label 'R_transversetemporal' reassigned to key 69

WARNING: conflicting key value for label 'R_insula' reassigned to key 70