Merge versioning and scripts into master

This introduces scripts to generate derived data (=tables) and versioning.

changed the description

Before merging:

• Adapt platy browser s.t. it can ingest the new file structure
• Move the repo folder to proper place on EMBL group-share
• Replace softlinks in data/rawdata with the actual h5 files

added 3 commits

• 14fb24f4 - Change to ne file-paths in tests
• ce5d435b - Fix name issues in attribute scripts
• 36796d67 - Add test for region attributes

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• 09b2f9b6 - Add prospr directory

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• e374895d - Add segmented prospr regions
• 07f762e0 - Add segmented prospr regions to initial version and copy scripts
• 4816b25e - Add segmented prospr regions to region attributes and adapt muscle mapping
• 950f116b - Merge branch 'dev' of https://git.embl.de/tischer/platy-browser-tables into dev

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added 1 commit

• 33bcbdb4 - Restrict numpy threads for morphology extraction

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• 886241a6 - Fix several issues in update_platy_browser
• 1c8e755e - Implement anchor correction

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• 72dfb368 - Add scripts to copy tables
• 9ca8db04 - Automatic platy browser update

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• f634feca - Add export scripts for cilia segmentation

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• d9a5b411 - Copy segment id lut when copying segmentation xml
• b92f1e23 - Add cilia segmentation data

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• b336445d - Automatic platy browser update

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added 3 commits

• a082f5b6 - Update prospr segmented regions
• 31618e5c - Add script for legacy platy-browser export
• 77f6442f - Fix region table in latest release

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added 4 commits

• f2356faa - Update region attribute tests
• e0c42e4e - Update nucleus mapping script
• ee1bc067 - Switch nucleus table in latest release
• 1ab5d8d1 - Add cell count script

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• ac241ce3 - Update nucleus mapping test

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• 28f13eb2 - Start to implement subvolume extraction WIP

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• 4bc50d05 - Add chromatin segmentation to data
• 3bbef304 - Add chromatin data

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• 7fe70128 - Working version of subvolume extraction

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• 3606db21 - Automatic platy-browser update

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• 122d78b0 - Fix issues in segmentation id mapping

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• 7fe3e58d - Refactor morphology feature implementation in separate file

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• 81e9a4c9 - Fix some issues in morphology refactor and tests

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• b0d38851 - Fix chromatin default table name

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• d2e267fa - Add scripts for swapping links with original data folder
• 85c5fc38 - Update bdv server script

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unmarked as a Work In Progress

@tischer I think we can merge this, now that we have switched the platy browser. Any objections?

Yes, please do so!

merged

Ok I have merged this. The previous state of master can be found on the branch old-master.