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| Original file line number | Diff line number | Diff line change |
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| from middleware.field_converters import BelConverter | ||
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| from resources.status import SimpleStatusResource, HealthCheckResource, StatusResource, VersionResource | ||
| from resources.swagger import SwaggerResource | ||
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| from resources.bel_lang import BelVersions | ||
| from resources.bel_lang import BelSpecificationResource | ||
| from resources.bel_lang import BelCompletion | ||
| from resources.bel_lang import BelCanonicalize | ||
| from resources.bel_lang import BelDecanonicalize | ||
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| from resources.bel_lang import BelMigrate12 | ||
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| from resources.tasks import PipelineTasksResource | ||
| from resources.tasks import ResourcesTasksResource | ||
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| from resources.nanopubs import NanopubValidateResource | ||
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| from resources.edges import EdgeResource | ||
| from resources.edges import EdgesFromNanopubResource | ||
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| from resources.terms import TermResource | ||
| from resources.terms import TermsResource | ||
| from resources.terms import TermCompletionsResource | ||
| from resources.terms import TermEquivalentsResource | ||
| from resources.terms import TermCanonicalizeResource | ||
| from resources.terms import TermDecanonicalizeResource | ||
| from resources.terms import TermTypesResource | ||
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| from resources.orthology import OrthologResource | ||
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| from resources.belspec import BelSpecResource | ||
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| from resources.pubmed import PubmedResource | ||
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| def add_routes(api): | ||
| # Router converter for BEL Expressions and NSArgs | ||
| # converts_FORWARDSLASH_ to / after URI template fields are extracted | ||
| # | ||
| api.router_options.converters['bel'] = BelConverter | ||
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| # Routes ############### | ||
| # Add routes to skip authentication in common/middleware:AuthMiddleware.skip_routes list | ||
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| # BEL Language routes | ||
| api.add_route('/bel/versions', BelVersions()) # GET | ||
| api.add_route('/bel/{version}/completion', BelCompletion()) # GET | ||
| api.add_route('/bel/{version}/completion/{belstr:bel}', BelCompletion()) # GET | ||
| api.add_route('/bel/{version}/canonicalize/{belstr:bel}', BelCanonicalize()) # GET | ||
| api.add_route('/bel/{version}/decanonicalize/{belstr:bel}', BelDecanonicalize()) # GET | ||
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| # BEL1->2 Migration | ||
| api.add_route('/bel/migrate12/{belstr:bel}', BelMigrate12()) # GET | ||
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| # api.add_route('/bel/{version}/functions', BelSpecificationResource()) # GET | ||
| # api.add_route('/bel/{version}/relations', BelSpecificationResource()) # GET | ||
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| # Edges and EdgeStore | ||
| api.add_route('/edges/{edge_id}', EdgeResource()) # GET | ||
| api.add_route('/edges/nanopub/', EdgesFromNanopubResource()) # GET | ||
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| # Nanopub routes | ||
| api.add_route('/nanopubs/validate', NanopubValidateResource()) # POST | ||
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| # Task routes | ||
| api.add_route('/tasks/pipeline', PipelineTasksResource()) # POST | ||
| api.add_route('/tasks/resources', ResourcesTasksResource()) # POST | ||
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| # Term routes | ||
| api.add_route('/terms', TermsResource()) # GET | ||
| api.add_route('/terms/completions/{completion_text:bel}', TermCompletionsResource()) | ||
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| api.add_route('/terms/{term_id:bel}', TermResource()) # GET | ||
| api.add_route('/terms/{term_id:bel}/equivalents', TermEquivalentsResource()) # GET | ||
| api.add_route('/terms/{term_id:bel}/canonicalized', TermCanonicalizeResource()) # GET | ||
| api.add_route('/terms/{term_id:bel}/decanonicalized', TermDecanonicalizeResource()) # GET | ||
| api.add_route('/terms/types', TermTypesResource()) # GET | ||
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| # Orthology routes | ||
| api.add_route('/orthologs', OrthologResource()) # GET | ||
| api.add_route('/orthologs/{gene_id:bel}', OrthologResource()) # GET | ||
| api.add_route('/orthologs/{gene_id:bel}/{species}', OrthologResource()) # GET | ||
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| # BEL Specification routes | ||
| api.add_route('/belspec', BelSpecResource()) # GET listing, PUT update | ||
| api.add_route('/belspec/{version}', BelSpecResource()) # GET, PUT, DELETE | ||
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| # Text routes | ||
| api.add_route('/text/pubmed/{pmid}', PubmedResource()) # GET | ||
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| # Status endpoints - used to check that API is running correctly | ||
| api.add_route('/simple_status', SimpleStatusResource()) # GET un-authenticated | ||
| api.add_route('/healthcheck', HealthCheckResource()) # GET un-authenticated | ||
| api.add_route('/status', StatusResource()) # GET authenticated | ||
| api.add_route('/version', VersionResource()) # version | ||
| api.add_route('/swagger', SwaggerResource()) |
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