Code

Feature/ebi search dump migration#332

Code

Merged

SandyRogers merged 30 commits intodevelopEBI-Metagenomics/emgapi:developfrom feature/ebi-search-dump-migrationEBI-Metagenomics/emgapi:feature/ebi-search-dump-migrationCopy head branch name to clipboardJan 29, 2024

+42,623-56

Commits

Commits on Jul 12, 2023

• Initial port of the analysis XML dump generation for EBI Search.

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Commits on Sep 25, 2023

• Merge branch 'develop' into feature/ebi-search-dump-migration

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Commits on Oct 20, 2023

• fixes podman compatibility of docker setup

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• adds incremental ebi search dumping for analysisjobs

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Commits on Oct 23, 2023

• integrates indexable sample data into analyses ebi search dump

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Commits on Oct 24, 2023

• adds ebi search dump for studies/projects (plus some tweaks to analyses)

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Commits on Nov 10, 2023

• Merge branch 'develop' into feature/ebi-search-dump-migration

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• resolve migration merge conflicts

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• v2.4.36

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Commits on Nov 13, 2023

• allows analysis features to be null in ebi search dump

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Commits on Nov 15, 2023

• adds support for chunking of analysis-runs ebi search dump

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Commits on Nov 16, 2023

• escapes html chars in ebi search dump

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Commits on Jan 3, 2024

• restore ability to recreate test DB fixtures; recreate them

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• ensure biome hierarchical_field is not empty for root-tagged studies

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• Merge branch 'develop' into feature/ebi-search-dump-migration

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• allow ERA database to be non existent

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Commits on Jan 5, 2024

• bugfixes on analysis-run dumper

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Commits on Jan 16, 2024

• Merge branch 'develop' into feature/ebi-search-dump-migration

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• Merge branch 'develop' into feature/ebi-search-dump-migration

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Commits on Jan 17, 2024

• optimising speed of dump (particularly mongo)

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• avoids serializing last_indexed timestamps

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• loosens test since last-updates are auto fields

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Commits on Jan 22, 2024

• materialise (fetch) lazyily referenced mongo embeds when accessing related attributes

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• test updates since last_update field became auto

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• more materialised lazy reference fields

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• insert test studies in reverse to preserve previous ordering

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• typo

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• restore quote string in csv values

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• 2.4.44

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Commits on Jan 29, 2024

• Merge branch 'develop' into feature/ebi-search-dump-migration

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