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hosted gene sets routes, plus a few bug fixes (#2155)

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* 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
This commit is contained in:
Bruce Martin
2021-04-27 13:58:58 -07:00
committed by GitHub
parent ebeb1c8818
commit f2e9aecebe
19 changed files with 702 additions and 267 deletions
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backend/test/test_server/unit/common/test_api.py
+2 -2
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@@ -560,7 +560,7 @@ class EndPointsAnnDataGenesets(unittest.TestCase, EndPoints):
"genesets": [
{
"genes": [
{"gene_description": "a gene_description", "gene_symbol": "F5"},
{"gene_description": " a gene_description", "gene_symbol": "F5"},
{"gene_description": "", "gene_symbol": "SUMO3"},
{"gene_description": "", "gene_symbol": "SRM"},
],
@@ -602,7 +602,7 @@ class EndPointsAnnDataGenesets(unittest.TestCase, EndPoints):
self.assertEqual(
result.text,
"""gene_set_name,gene_set_description,gene_symbol,gene_description\r
first gene set name,a description,F5,a gene_description\r
first gene set name,a description,F5, a gene_description\r
first gene set name,a description,SUMO3,\r
first gene set name,a description,SRM,\r
second gene set,,RER1,\r