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Trajectory Endpoint#1845

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JPBergsma wants to merge 123 commits intoMaterials-Consortia:0.25.xMaterials-Consortia/optimade-python-tools:0.25.xfrom JPBergsma:JPBergsma/trajectory_endpointJPBergsma/optimade-python-tools:JPBergsma/trajectory_endpointCopy head branch name to clipboard

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Commits

Commits on Jul 6, 2023

• Addded meta field to entry model

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Commits on Jul 19, 2023

• Added validator for meta field.

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• Merge branch 'master' into JPBergsma/add_metadata

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Commits on Jul 20, 2023

• Update pyyaml version in requirements.txt

  JPBergsma

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• Update requirements.txt

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• Update requirements.txt

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• Merge branch 'master' into JPBergsma/add_metadata

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• Remove test structures to get an idea of what triggers yaml import error on github.

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• Readding meta field to test_good_structures.

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• Readding meta field to test_structures.json.

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Commits on Jul 21, 2023

• Added handling None for property_metadata to validator + small correctionds.

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• Added test for validator per entry meta field.

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• Added test for presence metadata field in test_structures.py.

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• Remove metadata fields when the fields that they belong to are not returned.

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• add extra test for bad prefix.

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Commits on Jul 25, 2023

• Merge branch 'master' into JPBergsma/add_metadata

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• Test if dependancy conflict causes error.

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• Merge branch 'master' into JPBergsma/add_metadata

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• Revert "Test if dependancy conflict causes error."

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  bf9692a

• Revert "Revert "Test if dependancy conflict causes error.""

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• Merge branch 'JPBergsma/add_metadata' of https://github.com/JPBergsma/optimade-python-tools into JPBergsma/add_metadata

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Commits on Jul 26, 2023

• correct version httpx.

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• commenting out validator to see if this resolves issue github.

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• Slowly reassembling validator to see if this resolves issue github.

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• Slowly reassembling validator to see if this resolves issue github.

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• Slowly reassembling validator to see if this resolves issue github.

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• Slowly reassembling validator to see if this resolves issue github.

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  95bf11b

• Slowly reassembling validator to see if this resolves issue github.

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  7c02f38

• Slowly reassembling validator to see if this resolves issue github.

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  2b52248

• Slowly reassembling validator to see if this resolves issue github.

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  20e228d

• Slowly reassembling validator to see if this resolves issue github.

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  7be2a0f

• Slowly reassembling validator to see if this resolves issue github.

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  bffb5d1

• Slowly reassembling validator to see if this resolves issue github.

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  1f0bbb9

• Slowly reassembling validator to see if this resolves issue github.

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  7c0a8be

• Slowly reassembling validator to see if this resolves issue github.

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• Slowly reassembling validator to see if this resolves issue Github.

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• Slowly reassembling validator to see if this resolves issue Github.

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• Slowly reassembling validator to see if this resolves issue Github..

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  ed44736

• Slowly reassembling validator to see if this resolves issue Github..

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• Placed yaml import in try except block.

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Commits on Aug 2, 2023

• Added more cases to test data and added bugfix for removing associated metadata when a field is excluded.

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  5b41b71

• Removed seemingly unneccesary mypy ignore exception statement.

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  f694d15

• Merge branch 'master' into JPBergsma/add_metadata

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  5bac762

• remove change in version pyyaml in requirements.txt.

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  40ff136

• correct spelling mistake

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  8f7ca29

• moved starts_with_supported_prefix and check_starts_with_supported_prefix functions to BaseresouceMapper.

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Commits on Aug 3, 2023

• Expanded docstring check_starts_with_supported_prefix

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• Expanded docstring check_starts_with_supported_prefix

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  bcd7971

• Added return type for starts_with_supported_prefix and check_starts_with_supported_prefix.

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  748bacc

• Added return type for starts_with_supported_prefix and check_starts_with_supported_prefix.

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  8430ddd

• Adjusted validators baseed on suggestion Matthew.

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• small corrections validators.

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• small correction in removing unrequested metadata.

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  7dab3a7

• Added spaces before values 'exmpl_originates_from _project'.

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Commits on Aug 4, 2023

• First draft version of model of jsonlines response.

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Commits on Aug 8, 2023

• renamed files to partialdata.

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Commits on Aug 10, 2023

• First draft version of model of jsonlines response.

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Commits on Aug 14, 2023

• added metadata fields for partial data protocal to entry models.

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• Added descriptions for fields partial data links.

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Commits on Aug 22, 2023

• Storing intermediate code on the way to implement partial data to get second opinion on behaviour mongomock vs pymogo.

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• Merge with master.

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Commits on Sep 4, 2023

• First somewhat working version of partial_data endpoint.

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Commits on Sep 5, 2023

• Merge branch 'master' into JPBergsma/Partial_data

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• Move _check_aliases to it's own subclass so it can be used for both gridfs and MongoDB.

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• Merge branch 'master' into optimade_python_tools_trajectory_0.1

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• Extra todo's and comments after trying to add validator for format field.

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• Fixed validator for format field.

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Commits on Sep 12, 2023

• first minimal version partial data.

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Commits on Sep 13, 2023

• merge with master

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• merge with master

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  944d374

• update openapijson

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• update openapijson

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• update openapijson

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Commits on Sep 14, 2023

• changed 'regex' to 'pattern'.

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• Moved generate_links_partial_data function to routers/utils.py and made it use the request url when no base url was defined in the configuration.

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Commits on Sep 15, 2023

• Added relevant code from original trajectory proposal.

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Commits on Sep 23, 2023

• Made some adjustment to be more compatible with export to traj mongo script.

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Commits on Sep 24, 2023

• Expanded model partial_data.

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• Expanded model partial_data.

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• Added some validators for the trajectory specific fields.

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• Clarified why field is named describedby and not described_by.

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Commits on Sep 26, 2023

• Added instructions for setting up a trajectory database.

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Commits on Sep 27, 2023

• Various bug fixes

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Commits on Sep 28, 2023

• Fix whitespace for code snippets to allow copying through GH UI

  ml-evs

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• Add note about MongoDB install

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• Suggest Python 3.10 instead of 11

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Commits on Sep 29, 2023

• Merge pull request #6 from ml-evs/patch-1

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  JPBergsma

  authored
  95bda33

• Merge branch 'JPBergsma/trajectory_endpoint' into JPBergsma/trajectory_endpoint

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  221e163

• Merge pull request #8 from ml-evs/JPBergsma/trajectory_endpoint

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  JPBergsma

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  e4606cc

• Merge pull request #7 from ml-evs/patch-2

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  JPBergsma

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  d080fbf

• updated optimade_config.json for trajectories.

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Commits on Sep 30, 2023

• use lstrip instead of manually removing / one at a time.

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Commits on Oct 2, 2023

• Update optimade/models/entries.py

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  JPBergsma

  and

  ml-evs

  authored
  389e679

• Update description per entry meta datafield.

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Commits on Oct 3, 2023

• Merge branch 'master' into JPBergsma/add_metadata

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• Merge branch 'master' into JPBergsma/add_metadata

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  1cd73e3

• update openapijson.

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• trying to merge with remote.

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• try to see if moving yaml is still necessary.

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• Revert "try to see if moving yaml is still necessary."

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Commits on Oct 11, 2023

• Added supported_prefixes field to config.py

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• Merge branch 'master' of https://github.com/JPBergsma/optimade-python-tools

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• Merge branch 'master' into JPBergsma/add_metadata

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• Merged latest version metadata branch with partial data branch.

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• Merged JPBergsma/Partial_data in trajectory branch.

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Commits on Oct 12, 2023

• changing Priocfile to see if this fixes problem with uvicorn complaining about receiving too many arguments.

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• Add numpy to requirements.

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• Made a correction in the testdata for trajectories.

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• Add numpy to requirements.

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Commits on Oct 13, 2023

• Added jsonlines dependancy.

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• Made changes to make mypy happy.

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  075ef06

• Trying to determine why jsonlines is not impoeted properly on github.

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• Update requirements-client.txt (Materials-Consortia#1813)

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  JPBergsma

  authored
  cf45488

• Merge branch 'master' of https://github.com/JPBergsma/optimade-python-tools

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  committed
  2466fb1

• Merge branch 'master' into JPBergsma/add_metadata

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• Merge branch 'JPBergsma/add_metadata' into JPBergsma/Partial_data

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Commits on Oct 15, 2023

• Modernize all Python 3.8 annotations (Materials-Consortia#1815)

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  ml-evs

  and

  CasperWA

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  8510ffa

Commits on Oct 17, 2023

• Merging with master.

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• merging with metadata branch

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• merging with partial data branch

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Commits on Oct 18, 2023

• Corrected wrong name validator in trajectory model.

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Commits on Oct 19, 2023

• removed importing List from typing.

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Commits on Nov 6, 2023

• Merge branch '0.25.x' into JPBergsma/trajectory_endpoint

  ml-evs

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