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- #! /bin/bash
- for dir in $(find ./neuroglancer-scripts-input/meshes/ -mindepth 1 -maxdepth 1 -type d)
- do
- output_json={}
- # exclude files that start with `.` e.g. .gitkeep etc
- for f in $(find $dir/meshes/ -type l -o -type f ! -name \\.* )
- do
- pathedname=${f#$dir/meshes/}
- bname=$(basename $f)
- seg_id=$(echo $bname | sed -E -e 's/WHS_SD_rat_atlas_v4_0+//g' -e 's/\.[a-zA-Z]+$//g')
- # echo ${f#$dir/meshes/}
- final=$(echo $output_json | jq -c ". + {\"$pathedname\": { \"format\": \"STL_ASCII\", \"labelIndex\": $seg_id }}")
- output_json=$final
- done
- echo $output_json | jq '.' > $dir/manifest.json
- done
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