Added praire vole file #336
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| ATLAS_BASE_URL = "https://ndownloader.figshare.com/files/" | ||
| ORIENTATION = "..." | ||
| ROOT_ID = 997 | ||
| ATLAS_PACKAGER = "..." |
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| def create_atlas(working_dir): | ||
| ATLAS_NAME = "..." |
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I've emailed the lab that originally made this atlas to see if they have a preference for the name, but for now it can just be prairie_vole_brain.
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| def create_atlas(working_dir): | ||
| ATLAS_NAME = "..." | ||
| SPECIES = "..." |
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This can be Microtus ochrogaster
| def create_atlas(working_dir): | ||
| ATLAS_NAME = "..." | ||
| SPECIES = "..." | ||
| ATLAS_LINK = "https://elifesciences.org/articles/87029#data" |
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This can be Gustison et al. 2024, https://doi.org/10.7554/eLife.87029
| ATLAS_LINK = "https://elifesciences.org/articles/87029#data" | ||
| CITATION = "..." | ||
| ATLAS_BASE_URL = "https://ndownloader.figshare.com/files/" | ||
| ORIENTATION = "..." |
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This is the orientation of the raw data (before packaging), and should be asr. Details here if you're interested.
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| with zipfile.ZipFile( | ||
| r"C:\Users\sacha\Downloads\atlas shit\PrV_results_datasets.zip", "r" |
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This should be a relative path, defined by Pathlib so it will work on any system, e.g. atlas_path / "PrV_results_datasets.zip"
| decimate_fraction = 0.2 | ||
| smooth = False # smooth meshes after creation | ||
| start = time.time() | ||
| if PARALLEL: |
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Our parallel mesh extraction is broken, so all of this part can be removed, and just keep the stuff after else:.
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