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https://github.com/chanzuckerberg/cellxgene.git
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hosted gene sets routes, plus a few bug fixes (#2155)
* first cut at hosted gs routes * lint * update tests to match csv parser changes * update tests to new API * update gene set name validation rules to match requirements * add path mapping from dataset to geneset * add test cases for geneset GET route * fix test assertion * remove debugging code * update gene set uri mapping function * fix error message * allow extra user-specified headers in gene set csv file * clarify comment
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@@ -17,8 +17,8 @@ from backend.czi_hosted.db.cellxgene_orm import Annotation
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class AnnotationsHostedTileDB(Annotations):
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CXG_ANNO_COLLECTION = "cxg_anno_collection"
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def __init__(self, directory_path, db):
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super().__init__()
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def __init__(self, config, directory_path, db):
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super().__init__(config)
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self.db = db
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if directory_path[-1] == "/":
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self.directory_path = directory_path
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@@ -158,6 +158,8 @@ class AnnotationsHostedTileDB(Annotations):
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self.db.session.commit()
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def update_parameters(self, parameters, data_adaptor):
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super().update_parameters(parameters, data_adaptor)
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params = {}
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params["annotations"] = True
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params["user_annotation_collection_name_enabled"] = False
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