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Add opensearch#31

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ElliottKasoar wants to merge 96 commits intomainElliottKasoar/abcd:mainfrom add_opensearchElliottKasoar/abcd:add_opensearchCopy head branch name to clipboard

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Commits on Jun 13, 2024

• Create initial GitHub Actions workflow

  ElliottKasoar

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  a382a58

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• Add OpenSearch dependency

  ElliottKasoar

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  7e4662c

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• Create initial OpenSearch interface

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  7d35230

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• Add OpenSearch insertion and deletion functions

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  86cf6fa

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• Add OpenSearch property functions

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  0f59b23

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• Add openmock dependency

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  21bbae2

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• Add OpenSearch example notebooks

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  375b1fe

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• Add functions required for OpenSearch CLI

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  1ffd18d

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• Add function to add properties

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• Add function to rename properties

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  d52a2bf

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• Add function to delete properties

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• Add luqum query parsing for OpenSearch

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  4a47df3

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• Fix unit tests for OpenSearch

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• Refactor default OpenSearch query

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  131e41f

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• Add function to return data as dictionary

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  13fcde8

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• Update OpenSearch useage tutorial

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  1d082d0

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• Add function to delete documents by ID

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• Add function to update documents by ID

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  fae3062

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• Update extra info parsing for Lucene-like inputs

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• Add docstrings and type hints

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• Tidy code

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• Fix formatting for non-string value error

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  bc09c6d

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• Add class to read csv data

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• Enable spacegroups to be stored from Atoms

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• Move structure files to list and make units optional

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• Update README for OpenSearch

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• Update assertions for database tests

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• Add tests for csv reader

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• Add flake8 and black

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• Apply black formatting

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• Conform to flake8 style

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• Add notebook for extra information examples

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• Enable kwargs for OpenSearch client settings

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• Fix property function if property not present

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• Run OpenSearch unit tests with GitHub Actions

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• Add refresh function for OpenSearch

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• Update unit tests

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  b1b81d9

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• Fix delete property function

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• Add tolerance for failed connections in testing

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• Update README

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  6e45d18

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• Update OpenSearch notebook

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• Apply black formatting

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• Improve property file reader

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• Add benchmarking examples

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• Enable uploading list of extra info

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  97e3898

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• Extend benchmarking

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  4cf65ee

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• Fix OpenSearch CLI queries

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• Tidy unit tests

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• Add option to disabled SSL

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• Add initial CLI integration tests

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  93d86f5

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• Catch process errors in CLI tests

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• Add chunk and timeout kwargs for bulk push

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  4d1baea

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• Refactor backend code

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• Update minimum openserch for security

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• Update admin default password in CI

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• Add query test

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• Add OpenSearch refresh CLI command

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• Replace luqum with native query_string

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• Speed up property function

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• Apply black formatter

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• Add timeout to count

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• Add comment for property function

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  085a581

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• Fix deleting keys via CLI

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  a018e04

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• Fix adding keys via CLI

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• Fix renaming properties

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• Add notebook with example queries

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• Allow multiple properties to be returned

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• Fix CLI code formatting

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• Apply suggestions from code review

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• Tidy for flake8

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• Tidy README formatting

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• Tidy optional type hints

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• Add return type hint

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• Apply suggestions from code review

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• Update abcd/backends/atoms_opensearch.py

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• Fix type Optional Union type hints

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• Fix connection type

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• Apply suggestions from code review

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• Fix renaming keys

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  c546d6d

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• Tidy setting db

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• Tidy code

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• Tidy logs

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• Tidy code

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• Fix extra info

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• Tidy code

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• Update mongomock tests for pytest

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  8da3c11

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• Update mock opensearch tests for pytest

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• Update CLI tests for pytest

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• Update property tests for pytest

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• Update opensearch tests for pytest

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• Fix opensearch mock tests

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  84637db

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• Fix opensearch test

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  be2d64b

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• Tidy code

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  db3c36a

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• Fix opensearch test

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  74d24c7

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• Fix mock opensearch tests

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• Fix histogram query

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