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new atlas file added - for cat#403

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HenryCrosswell wants to merge 26 commits intobrainglobe:mainbrainglobe/brainglobe-atlasapi:mainfrom HenryCrosswell:catlasHenryCrosswell/brainglobe-atlasapi:catlasCopy head branch name to clipboard

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Commits on Sep 3, 2024

• new atlas file added - for cat

  HenryCrosswell

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• [pre-commit.ci] auto fixes from pre-commit.com hooks

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Commits on Sep 8, 2024

• included relevant metadata - root_id is 999 as labels are a non structured list

  HenryCrosswell

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• Merge branch 'catlas' of github.com:HenryCrosswell/brainglobe-atlasapi into catlas

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• [pre-commit.ci] auto fixes from pre-commit.com hooks

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• formatted for black

  HenryCrosswell

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• fixed precommit issues

  HenryCrosswell

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• Merge branch 'brainglobe:main' into catlas

  HenryCrosswell

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• modified for precommit

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• Merge branch 'catlas' of github.com:HenryCrosswell/brainglobe-atlasapi into catlas

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• loaded raw data instead of url, loaded niftis into template and ref

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• changed reference and template slice index

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Commits on Sep 9, 2024

• testing csv and text files for discrepancys before proceeding

  HenryCrosswell

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Commits on Sep 18, 2024

• changed for pre-commit formatting purposes

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• changed from structure, r,g,b to rgba, adding another function to account for structure id

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Commits on Sep 20, 2024

• edited function to create and add structure id, as well as adding a first line root to df

  HenryCrosswell

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Commits on Sep 28, 2024

• changed df into a dicitonary list to work with the helper functions - create region mesh

  HenryCrosswell

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  e4c8df0

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• added the ability to make meshes, however it fails for about 10 ids, going to try and extract annotations from vtk files provided with data

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  b2dbf7d

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• created new function to take mesh from vtk files - uses a lot of temp locations, will endeaver to tidy

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• remove unecessary mesh function

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Commits on Sep 29, 2024

• edited structure id to work with wrapper function, removed unecessary text and functions

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Commits on Oct 2, 2024

• changed download resources to obtain annotations instead of relying on a local path

  HenryCrosswell

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Commits on Oct 11, 2024

• hardcoded my csv of fullnames, mostly for testing and help on the code, can change back into csv if necessary

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Commits on Nov 22, 2024

• downscaled reference image and added a root for the mask, tidied up some docstrings and removed a redundant variable name

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Commits on Dec 5, 2024

• updated download functions to properly use pooch hashes, when available. Also updated some variable names and docstrings to be more accurate

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  ede19b5

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• made sure the functionality behind the hash_json worked

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