refactor: rename ingestor to source throughout codebase

[rorybyrne]

Summary

• Rename ingestor terminology to source across the entire codebase
• Better reflects that data can come from multiple source types (pull APIs, user uploads, webhooks)

Changes

• Directories: osa/domain/ingest/ → source/, osa/infrastructure/ingest/ → source/, osa/sdk/ingest/ → source/, ingestors/ → sources/
• Classes: Ingestor → Source, IngestorRegistry → SourceRegistry, IngestService → SourceService
• Config: IngestConfig → SourceConfig, field ingestors → sources
• Events/Listeners: IngestRequested → SourceRequested, PullFromSource, TriggerInitialSourceRun
• Entry points: osa.ingestors → osa.sources

Closes #21

[github-actions]

Package	Line Rate	Complexity	Health
.	68%	0	➖
application	0%	0	❌
application.api	100%	0	✔
application.api.rest	0%	0	❌
application.api.v1	0%	0	❌
application.api.v1.routes	0%	0	❌
application.event	0%	0	❌
cli	40%	0	❌
cli.commands	18%	0	❌
cli.util	53%	0	➖
domain	100%	0	✔
domain.auth	100%	0	✔
domain.auth.adapter	100%	0	✔
domain.auth.command	100%	0	✔
domain.auth.event	100%	0	✔
domain.auth.model	100%	0	✔
domain.auth.port	100%	0	✔
domain.auth.query	100%	0	✔
domain.auth.service	100%	0	✔
domain.curation	100%	0	✔
domain.curation.adapter	100%	0	✔
domain.curation.command	100%	0	✔
domain.curation.event	0%	0	❌
domain.curation.listener	0%	0	❌
domain.curation.model	100%	0	✔
domain.curation.port	100%	0	✔
domain.curation.query	100%	0	✔
domain.curation.service	100%	0	✔
domain.deposition	100%	0	✔
domain.deposition.adapter	100%	0	✔
domain.deposition.command	0%	0	❌
domain.deposition.event	100%	0	✔
domain.deposition.model	0%	0	❌
domain.deposition.port	0%	0	❌
domain.deposition.query	100%	0	✔
domain.deposition.service	0%	0	❌
domain.export	100%	0	✔
domain.export.adapter	100%	0	✔
domain.export.command	100%	0	✔
domain.export.event	100%	0	✔
domain.export.model	100%	0	✔
domain.export.port	100%	0	✔
domain.export.query	100%	0	✔
domain.export.service	100%	0	✔
domain.index	100%	0	✔
domain.index.listener	0%	0	❌
domain.index.model	74%	0	➖
domain.index.service	100%	0	✔
domain.record	100%	0	✔
domain.record.adapter	100%	0	✔
domain.record.command	100%	0	✔
domain.record.event	100%	0	✔
domain.record.listener	0%	0	❌
domain.record.model	100%	0	✔
domain.record.port	100%	0	✔
domain.record.query	100%	0	✔
domain.record.service	100%	0	✔
domain.schema	100%	0	✔
domain.schema.adapter	100%	0	✔
domain.schema.command	100%	0	✔
domain.schema.event	100%	0	✔
domain.schema.model	100%	0	✔
domain.schema.port	100%	0	✔
domain.schema.query	100%	0	✔
domain.schema.service	100%	0	✔
domain.search	100%	0	✔
domain.search.adapter	100%	0	✔
domain.search.command	100%	0	✔
domain.search.event	100%	0	✔
domain.search.model	100%	0	✔
domain.search.port	100%	0	✔
domain.search.query	100%	0	✔
domain.search.service	100%	0	✔
domain.shared	44%	0	❌
domain.shared.model	90%	0	✔
domain.shared.port	100%	0	✔
domain.source	100%	0	✔
domain.source.event	100%	0	✔
domain.source.listener	0%	0	❌
domain.source.model	76%	0	✔
domain.source.schedule	0%	0	❌
domain.source.service	100%	0	✔
domain.validation	0%	0	❌
domain.validation.adapter	100%	0	✔
domain.validation.command	0%	0	❌
domain.validation.event	0%	0	❌
domain.validation.listener	0%	0	❌
domain.validation.model	0%	0	❌
domain.validation.port	0%	0	❌
domain.validation.query	100%	0	✔
domain.validation.service	0%	0	❌
infrastructure	100%	0	✔
infrastructure.event	0%	0	❌
infrastructure.index	0%	0	❌
infrastructure.index.vector	51%	0	➖
infrastructure.messaging	100%	0	✔
infrastructure.oci	0%	0	❌
infrastructure.persistence	0%	0	❌
infrastructure.persistence.adapter	0%	0	❌
infrastructure.source	0%	0	❌
sdk	100%	0	✔
sdk.index	100%	0	✔
sdk.source	100%	0	✔
util	100%	0	✔
util.di	0%	0	❌
Summary	29% (808 / 2782)	0	❌

[Copilot]

Pull request overview

This pull request performs a comprehensive refactoring to rename "ingestor" terminology to "source" throughout the entire codebase. This change better reflects the broader purpose of these components, which can handle data from multiple source types including pull APIs, user uploads, and webhooks.

Changes:

• Renamed all directories from ingest/ and ingestors/ to source/ and sources/
• Updated all classes, events, and services to use "Source" terminology
• Updated configuration models and entry points to reflect the new naming convention

Reviewed changes

Copilot reviewed 53 out of 57 changed files in this pull request and generated no comments.

Show a summary per file

File	Description
tests/unit/domain/source/test_source_service.py	Updated unit tests to use new SourceService naming and test methods
tests/test_sources/geo_entrez/test_source.py	Updated integration tests to use GEOEntrezSource instead of GEOEntrezIngestor
sources/geo_entrez/source.py	Renamed GEOEntrezIngestor class to GEOEntrezSource
sources/geo_entrez/config.py	Updated config to inherit from SourceConfig
sources/geo_entrez/init.py	Updated exports to use new Source naming
sources/init.py	New sources package initialization with updated documentation
pyproject.toml	Updated entry points from "osa.ingestors" to "osa.sources"
osa/sdk/source/source.py	Renamed Ingestor protocol to Source protocol
osa/sdk/source/record.py	New file location for UpstreamRecord (formerly in ingest)
osa/sdk/source/config.py	Renamed IngestorConfig to SourceConfig
osa/sdk/source/init.py	Updated SDK exports for source components
osa/sdk/ingest/*	Removed old ingest SDK files
osa/infrastructure/source/discovery.py	Renamed discovery functions and classes from Ingestor to Source
osa/infrastructure/source/di.py	Updated DI provider to use SourceRegistry and SourceService
osa/infrastructure/ingest/*	Removed old ingest infrastructure files
osa/infrastructure/event/di.py	Updated event listeners and schedules to use new Source naming
osa/domain/source/service/source.py	Renamed IngestService to SourceService with updated method names
osa/domain/source/schedule/source_schedule.py	Renamed IngestSchedule to SourceSchedule
osa/domain/source/model/registry.py	Renamed IngestorRegistry to SourceRegistry
osa/domain/source/listener/*	Renamed event listeners from IngestFromUpstream to PullFromSource
osa/domain/source/event/*	Renamed events from IngestRequested to SourceRequested
osa/domain/ingest/*	Removed old ingest domain files
osa/domain/shared/event.py	Updated docstring examples to use Source terminology
osa/domain/deposition/model/aggregate.py	Updated comment from "Ingestor info" to "Source info"
osa/domain/deposition/command/submit.py	Updated comment from "not from ingest" to "not from source"
osa/config.py	Renamed IngestConfig to SourceConfig and updated all related fields
osa/cli/commands/local.py	Updated config templates to use sources instead of ingestors
osa/application/di.py	Updated DI container to use SourceProvider
osa/application/api/rest/app.py	Updated startup validation to use validate_sources_at_startup
ingestors/*	Removed old ingestors directory files

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