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Miscellaneous bug fixes and updates #40

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merged 3 commits into from
Sep 28, 2023
Merged

Miscellaneous bug fixes and updates #40

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2e1d5ee
Make output_type a tuple
tkkuehn Sep 20, 2023
a31df91
Update heudiconv and dcm2niix
tkkuehn Sep 20, 2023
e681c0b
Handle datatype when deleting _ROI files
tkkuehn Sep 20, 2023
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4 changes: 2 additions & 2 deletions Dockerfile
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Original file line number Diff line number Diff line change
Expand Up @@ -2,10 +2,10 @@ FROM debian:bullseye
LABEL maintainer="<[email protected]>"

# dcm2niix version
ENV DCM2NIIXTAG v1.0.20220720
ENV DCM2NIIXTAG v1.0.20230411

#heudiconv version:
ENV HEUDICONVTAG v0.11.3
ENV HEUDICONVTAG v0.13.1

#bids validator version:
ENV BIDSTAG 1.9.7
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2 changes: 1 addition & 1 deletion heuristics/cfmm_base.py
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@@ -1,6 +1,6 @@
import os

def create_key(template, outtype=('nii.gz'), annotation_classes=None):
def create_key(template, outtype=('nii.gz',), annotation_classes=None):
if template is None or not template:
raise ValueError('Template must be a valid format string')
return (template, outtype, annotation_classes)
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2 changes: 1 addition & 1 deletion tar2bids
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Expand Up @@ -499,7 +499,7 @@ else
fi

echo " Removing _ROI#.nii.gz files (unused scale bars from qMRI)..."
rm -vf $output_dir/sub*/*/*ROI[0-9].nii.gz $output_dir/sub*/ses*/*ROI[0-9].nii.gz 2> /dev/null
rm -vf $output_dir/sub*/*/*ROI[0-9].nii.gz $output_dir/sub*/ses*/*/*ROI[0-9].nii.gz 2> /dev/null

echo " Running bids-validator..."
bids-validator $output_dir | tee $validator_out
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