Comments (1)
Sorry - you should use ciftify_statclust_report
it's a newer version with the proper flag you need.
singularity exec --cleanenv
-B "$DataDir"/:/data
/pathtosingularityimage/tigrlab_fmriprep_ciftify_latest-2019-08-16-5bd89f536284.simg
ciftify_peaktable
--min-threshold $(cat $DataDir/rest/"$Subject"/neg_thresh.txt)
--max-threshold $(cat $DataDir/rest/"$Subject"/pos_thresh.txt)
--area-threshold 2
--surface-distance 0
--volume-distance 0
--outputbase /data/rest/"$Subject"/ciftify_statclust_report
--left-surface /data/anat/"$Subject"_3T_Structural_preproc/"$Subject"/T1w/fsaverage_LR32k/"$Subject".L.midthickness.32k_fs_LR.surf.gii
--right-surface /data/anat/"$Subject"_3T_Structural_preproc/"$Subject"/T1w/fsaverage_LR32k/"$Subject".R.midthickness.32k_fs_LR.surf.gii
--output-peaks
--debug
/data/rest/"$Subject"/"$Subject"_mergedData_clean_smooth"$SmoothingKernel"_seedCorr_masked.dscalar.nii
```
from ciftify.
Related Issues (20)
- Deprecation warnings due to invalid escape sequences HOT 1
- add notebook from tigr_parc as a tutorial in docs
- move dlabelIO functions from tigr_parc to ciftify
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- Error with ciftify_peaktable : "ValueError : must have equal en keys and value when setting an iterable". HOT 4
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- ciftify_recon_all fails occasionally with returncode 1 HOT 2
- Error in ciftify_peaktable and ciftify_statclust_report HOT 1
- T1w anatomical normalization issue HOT 2
- Yaml file HOT 3
- Error in ciftify_peaktable HOT 1
- permission error HOT 7
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