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Improve API Error Handling, etc #647

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Improve API Error Handling, etc #647

wants to merge 101 commits into from

Commits on Apr 18, 2024

  1. adjust caiman dependencies

    tienday committed Apr 18, 2024
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Commits on Apr 22, 2024

  1. Merge pull request #342 from arayabrain/feature/adjust-caiman-depende… 

    …ncies

adjust caiman dependencies
    @ahadjiev
    ahadjiev authored Apr 22, 2024
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Commits on Jun 4, 2024

  1. Update docs about x86_64 installation

    @milesAraya
    Miles D authored and milesAraya committed Jun 4, 2024
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Commits on Jun 6, 2024

  1. improve logger 

    - enable debug level for optinist-logger
- adjust logging-format
    tienday committed Jun 6, 2024
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Commits on Jun 7, 2024

  1. add rule name for each rules

    tienday committed Jun 7, 2024
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  2. add validation for node input data

    tienday committed Jun 7, 2024
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  3. refactor snakemake modules 

    - improve error message
- use constants
    tienday committed Jun 7, 2024
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Commits on Jun 11, 2024

  1. Merge pull request #347 from arayabrain/feature/improve-logger 

    improve logger
    @emuemuJP
    emuemuJP authored Jun 11, 2024
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  2. Merge pull request #348 from arayabrain/feature/improve-snakemake-runner 

    improve snakemake runner
    @emuemuJP
    emuemuJP authored Jun 11, 2024
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Commits on Jun 13, 2024

  1. improve workflow runner 

    - Clarify definition and determination of NodeType (Data or Algo)
    tienday committed Jun 13, 2024
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  2. improve workflow runner 

    - Clarify definition and determination of NodeType (Data or Algo)
    tienday committed Jun 13, 2024
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  3. refactor ACCEPT_FILE_EXT 

    Use Enum, simplify implementation
    tienday committed Jun 13, 2024
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  4. fix typo

    tienday committed Jun 13, 2024
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  5. fix typo

    tienday committed Jun 13, 2024
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Commits on Jun 14, 2024

  1. Merge pull request #354 from arayabrain/feature/improve-workflow-runner 

    improve workflow runner
    @emuemuJP
    emuemuJP authored Jun 14, 2024
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Commits on Jun 21, 2024

  1. modify poetry option on dockerfile

    tienday committed Jun 21, 2024
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  2. modify poetry option on dockerfile

    tienday committed Jun 21, 2024
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Commits on Jun 24, 2024

  1. update vscode settings (for prettier)

    tienday committed Jun 24, 2024
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Commits on Jun 25, 2024

  1. update settings for multiuser mode

    tienday committed Jun 25, 2024
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  2. update docs for multiuser mode

    tienday committed Jun 25, 2024
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  3. corrected grammar

    tienday committed Jun 25, 2024
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Commits on Jun 27, 2024

  1. update multiuser mode setup docs

    tienday committed Jun 27, 2024
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  2. add ExptDataWriter

    tienday committed Jun 27, 2024
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  3. Merge pull request #363 from arayabrain/feature/update-vscode-settings 

    update vscode settings (for prettier)
    @emuemuJP
    emuemuJP authored Jun 27, 2024
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  4. Merge pull request #366 from arayabrain/feature/add_expt-data-writer 

    Add ExptDataWriter
    @emuemuJP
    emuemuJP authored Jun 27, 2024
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Commits on Jun 28, 2024

  1. corrected wording

    tienday committed Jun 28, 2024
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  2. Fixed ExptDataWriter bug 

    - A seek(0) was needed before file write in rename().
    tienday committed Jun 28, 2024
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Commits on Jul 1, 2024

  1. Merge pull request #369 from arayabrain/feature/add_expt-data-writer 

    Fixed ExptDataWriter bug
    @itutu-tienday
    itutu-tienday authored Jul 1, 2024
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  2. refactor api loading icon display 

    - add loading flag to <Loading />
- Unified variable naming rules
  - isLoading -> loading
  - selectLoadingXXX -> selectLoading
    tienday committed Jul 1, 2024
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Commits on Jul 2, 2024

  1. Merge pull request #364 from arayabrain/feature/update-multiuser-sett… 

    …ings

Update settings and docs for multiuser mode
    @emuemuJP
    emuemuJP authored Jul 2, 2024
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  2. add api loading icon display for workflow screen

    tienday committed Jul 2, 2024
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  3. Merge branch 'develop-main' into feature/refactor-api-loading-icon

    tienday committed Jul 2, 2024
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  4. added matPath to test snakemake.yaml

    @milesAraya
    milesAraya committed Jul 2, 2024
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  5. add api loading icon display - for record screen 

    - for get experiments
- for delete experiments
    tienday committed Jul 2, 2024
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  6. add api loading icon display - visualize - roi

    tienday committed Jul 2, 2024
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  7. api loading icon display) fix test code

    tienday committed Jul 2, 2024
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Commits on Jul 4, 2024

  1. Merge pull request #345 from arayabrain/feature/docsExplainRosetta 

    Update docs about x86_64 installation
    @itutu-tienday
    itutu-tienday authored Jul 4, 2024
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Commits on Jul 8, 2024

  1. Merge branch 'develop-main' into feature/refactor-api-loading-icon

    tienday committed Jul 8, 2024
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Commits on Jul 9, 2024

  1. modify doc internal link 

    Support for internal linking in multiple environments (markdonw,sphinx). (Use special characters for numbers)
    tienday committed Jul 9, 2024
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  2. Merge pull request #382 from arayabrain/feature/update-multiuser-setu… 

    …p-doc

modify doc internal link
    @itutu-tienday
    itutu-tienday authored Jul 9, 2024
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  3. build frontend for refactor loading icon

    tienday committed Jul 9, 2024
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  4. Merge pull request #376 from arayabrain/feature/refactor-api-loading-… 

    …icon

Refactoring loading icon display at API request
    @itutu-tienday
    itutu-tienday authored Jul 9, 2024
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Commits on Jul 11, 2024

  1. add ExptOutputPathIds

    tienday committed Jul 11, 2024
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  2. Merge pull request #386 from arayabrain/feature/add-output-path-id-pa… 

    …rser

Add a parser for each ID in the experiment output data path
    @itutu-tienday
    itutu-tienday authored Jul 11, 2024
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Commits on Jul 16, 2024

  1. add loading icon for fetch workflow api

    tienday committed Jul 16, 2024
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  2. Merge pull request #388 from arayabrain/feature/refactor-api-loading-… 

    …icon

add loading icon for fetch workflow api
    @itutu-tienday
    itutu-tienday authored Jul 16, 2024
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Commits on Jul 23, 2024

  1. Merge branch 'develop-main' into feature/test_update

    tienday committed Jul 23, 2024
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Commits on Jul 25, 2024

  1. update makefile 

    - add comments
- change `docker compose` command to modern format
    tienday committed Jul 25, 2024
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  2. update makefile 

    - Adjusted build_frontend to work properly
- Adjustment of useless container removal behavior
  - Removed --remove-orphans from docker compose down
  s- Added rm_unused_docker_containers function
    tienday committed Jul 25, 2024
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  3. Merge branch 'feature/update-makefile' into feature/test_update

    tienday committed Jul 25, 2024
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Commits on Jul 29, 2024

  1. Merge pull request #393 from arayabrain/feature/update-makefile 

    Update optinist Makefile
    @itutu-tienday
    itutu-tienday authored Jul 29, 2024
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Commits on Jul 30, 2024

  1. improve suite2p conda yaml 

    - Stabilize and speed up create env (mainly for apple sillicon machine)
    tienday committed Jul 30, 2024
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Commits on Aug 1, 2024

  1. add export version info script

    tienday committed Aug 1, 2024
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  2. add DevelopmentInformation component

    tienday committed Aug 1, 2024
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  3. add export version info script (add prebuild option)

    tienday committed Aug 1, 2024
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Commits on Aug 2, 2024

  1. support dynamic import of .versions.json

    tienday committed Aug 2, 2024
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Commits on Aug 5, 2024

  1. Merge pull request #401 from arayabrain/feature/add-development-info 

    Feature/add development info
    @itutu-tienday
    itutu-tienday authored Aug 5, 2024
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Commits on Aug 6, 2024

  1. Merge pull request #400 from arayabrain/feature/improve-suite2p-conda… 

    …-yaml

improve suite2p conda yaml
    @itutu-tienday
    itutu-tienday authored Aug 6, 2024
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  2. Merge branch 'develop-main' into feature/test_update

    tienday committed Aug 6, 2024
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Commits on Aug 7, 2024

  1. update test makefile and docker files 

    - makefile
  - keep test docker image
- docker files
  - docker-compose
    - rename docker-compose service name
  - dockerfile
    - build conda environment in dockerfile
    - keep poetry install status
    tienday committed Aug 7, 2024
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  2. modify test_snakemake_executor.py 

    - fixed snakemake to run properly
  - add and update files needed for testing (.yaml, .pkl)
- organized test cases
    tienday committed Aug 7, 2024
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  3. resolve pytest warnings

    tienday committed Aug 7, 2024
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  4. test code refactoring 

    - organize test data input/output paths
- detailed factoring of test code
    tienday committed Aug 7, 2024
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Commits on Aug 8, 2024

  1. add util func to PickleReader

    tienday committed Aug 8, 2024
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  2. add lccd workflow to snakemake test code

    tienday committed Aug 8, 2024
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  3. add lccd workflow to snakemake test code #2

    tienday committed Aug 8, 2024
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  4. Supports mode switching for testing by environment 

    - Switch between test_backend (lighter process) and test_backend_full (heavier process)
    tienday committed Aug 8, 2024
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Commits on Aug 15, 2024

  1. update docs with algorithm node descriptions & Some renaming/reorgani… 

    …sation

Add some more information to data_nodes
    @milesAraya
    milesAraya committed Aug 15, 2024
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Commits on Aug 16, 2024

  1. Update docs and Visualise naming of ref image and windows/boxes

    @milesAraya
    milesAraya committed Aug 16, 2024
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Commits on Aug 20, 2024

  1. Merge pull request #405 from arayabrain/feature/update-test-run 

    Update Test Run
    @itutu-tienday
    itutu-tienday authored Aug 20, 2024
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  2. adjusted document tree hierarchy

    tienday committed Aug 20, 2024
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  3. adjusted document tree hierarchy (additional fixes)

    tienday committed Aug 20, 2024
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  4. fixed a bug in the rename of exepriment name

    tienday committed Aug 20, 2024
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Commits on Aug 21, 2024

  1. Merge pull request #416 from arayabrain/feature/add_expt-data-writer 

    fixed a bug in the rename of exepriment name
    @itutu-tienday
    itutu-tienday authored Aug 21, 2024
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  2. Merge pull request #415 from arayabrain/feature/update-docs-2 

    Update for feature/update-docs
    @milesAraya
    milesAraya authored Aug 21, 2024
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  3. update docs with algorithm node descriptions & Some renaming/reorgani… 

    …sation

Add some more information to data_nodes
    @milesAraya
    milesAraya committed Aug 21, 2024
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  4. Update docs and Visualise naming of ref image and windows/boxes

    @milesAraya
    milesAraya committed Aug 21, 2024
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  5. adjusted document tree hierarchy

    @milesAraya
    tienday authored and milesAraya committed Aug 21, 2024
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  6. adjusted document tree hierarchy (additional fixes)

    @milesAraya
    tienday authored and milesAraya committed Aug 21, 2024
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  7. fixes based on PR comments

    @milesAraya
    milesAraya committed Aug 21, 2024
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  8. Merge branch 'feature/update-docs' of https://github.com/arayabrain/b… 

    …arebone-studio into feature/update-docs
    @milesAraya
    milesAraya committed Aug 21, 2024
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Commits on Aug 27, 2024

  1. New images, rename file, fix link

    @milesAraya
    milesAraya committed Aug 27, 2024
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Commits on Aug 30, 2024

  1. nwb file to for_developer

    @milesAraya
    milesAraya committed Aug 30, 2024
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Commits on Sep 10, 2024

  1. Improved handling of authentication errors

    tienday committed Sep 10, 2024
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  2. Adjusted header icon display in multiuser mode

    tienday committed Sep 10, 2024
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  3. Merge pull request #430 from arayabrain/feature/improve-auth-and-mino… 

    …r-issues

Improvements in auth and minor ui
    @itutu-tienday
    itutu-tienday authored Sep 10, 2024
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Commits on Sep 17, 2024

  1. multiuser mode docs fix

    @milesAraya
    milesAraya committed Sep 17, 2024
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  2. multiuser mode docs fix-spelling update

    @milesAraya
    milesAraya committed Sep 17, 2024
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  3. multiuser mode docs fix-spelling update

    @milesAraya
    milesAraya committed Sep 17, 2024
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  4. multiuser mode docs fix-spelling update

    @milesAraya
    milesAraya committed Sep 17, 2024
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  5. Merge branch 'feature/update-docs' of https://github.com/arayabrain/b… 

    …arebone-studio into feature/update-docs
    @milesAraya
    milesAraya committed Sep 17, 2024
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Commits on Sep 26, 2024

  1. [edit_roi] improve loading icon: consider async requests to multiple api

    tienday committed Sep 26, 2024
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  2. [edit_roi] improve loading icon: Full screen display of loading icon … 

    …in “commit roi”
    tienday committed Sep 26, 2024
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  3. [edit roi] Improved message display in frontend when backend errors o… 

    …ccur

- be: Fixed snakemake run to correctly detect if there is an error or not.
- fe: Fixed proper display of snackbar when be error occurs
    tienday committed Sep 26, 2024
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Commits on Sep 27, 2024

  1. [edit roi] refactor variables

    tienday committed Sep 27, 2024
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  2. Merge pull request #446 from arayabrain/feature/edit-roi-ui-improve-b… 

    …ugfix

Edit ROI UI improve bugfix
    @itutu-tienday
    itutu-tienday authored Sep 27, 2024
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Commits on Oct 1, 2024

  1. Merge pull request #410 from arayabrain/feature/update-docs 

    update docs with algorithm node descriptions & Some renaming/reorganisation
    @milesAraya
    milesAraya authored Oct 1, 2024
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Commits on Oct 7, 2024

  1. improve frontend dotenv 

    - Change default value of API endpoint variable (from window.location)
    tienday committed Oct 7, 2024
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Commits on Oct 8, 2024

  1. Merge pull request #458 from arayabrain/feature/improve-fe-dotenv 

    improve frontend dotenv
    @itutu-tienday
    itutu-tienday authored Oct 8, 2024
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Commits on Oct 12, 2024

  1. improve api request error handling

    tienday committed Oct 12, 2024
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  2. improve frontend .env validation

    tienday committed Oct 12, 2024
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