AllenNeuralDynamics / AllenNeuralDynamics/aind-smartspim-ccf-registration

The template used for registration is not in the processing.json

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#34 0 comentarios 0 reacciones 0 asignados Ver en GitHub
Lenguaje dominante
Python
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4
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5
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4 d 4 h
PR fusionados (30 d)
1

Descripción

I can't find any mention of which template was used to register volumes in `processing.json`. I believe this is the relevant section for [SmartSPIM_767405_2025-07-11_15-26-05_stitched_2025-07-12_12-38-20/](https://us-west-2.console.aws.amazon.com/s3/object/aind-open-data?region=us-west-2&bucketType=general&prefix=SmartSPIM_767405_2025-07-11_15-26-05_stitched_2025-07-12_12-38-20/processing.json)

```
...
{
"code_url": "https://github.com/ANTsX/ANTs",
"code_version": "0.4.2",
"end_date_time": "2025-07-12T12:08:38.852488Z",
"input_location": "/tmp/nxf.xTSHmOz12F/capsule/data/fused/Ex_639_Em_667.zarr/3",
"name": "Image atlas alignment",
"notes": "Template based registration: LS -> template -> Allen CCFv3 Atlas",
"output_location": "/tmp/nxf.xTSHmOz12F/capsule/results/ccf_Ex_639_Em_667/metadata/registration_metadata",
"outputs": {},
"parameters": {
"affine_path": "/tmp/nxf.xTSHmOz12F/capsule/results/ccf_Ex_639_Em_667/metadata/registration_metadata/moved_affine.nii.gz",
"ccf_anno_to_brain_path": "/tmp/nxf.xTSHmOz12F/capsule/results/ccf_Ex_639_Em_667/metadata/registration_metadata/moved_ccf_anno_to_ls.nii.gz",
"moved_to_ccf_path": "../results/ccf_Ex_639_Em_667/moved_ls_to_ccf.nii.gz",
"moved_to_template_path": "/tmp/nxf.xTSHmOz12F/capsule/results/ccf_Ex_639_Em_667/metadata/registration_metadata/moved_ls_to_template.nii.gz",
"new_spacing": [
25,
25,
25
],
"rigid_path": "/tmp/nxf.xTSHmOz12F/capsule/results/ccf_Ex_639_Em_667/metadata/registration_metadata/moved_rigid.nii.gz",
"spacing": [
0.016,
0.0144,
0.0144
],
"template_orientations": {
"anterior_to_posterior": 1,
"right_to_left": 0,
"superior_to_inferior": 2
},
"unit": "millimetre"
},
"resources": null,
"software_version": "0.0.31",
"start_date_time": "2025-07-12T11:26:05.889490Z"
},
...
```

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