feat: catalog functions implemented

Author: ymarcon

Makefile

@@ -1,6 +1,10 @@
 install:
 	uv sync --all-extras
 
+update:
+	rm uv.lock
+	uv sync
+
 test:
 	uv run --all-extras pytest
 

datashield_opal/impl.py

@@ -142,6 +142,10 @@ def __init__(self, name: str, loginInfo: OpalClient.LoginInfo, profile: str = "d
         self.rsession = None
         self.rsession_started = False
 
+    def get_name(self):
+        """Get the name of the connection."""
+        return self.name
+
     def check_user(self) -> bool:
         """Check if the user can authenticate by trying to retrieve the current subject profile."""
         try:
@@ -169,6 +173,30 @@ def has_table(self, name: str) -> bool:
         response = self._get(UriBuilder(["datasource", parts[0], "table", parts[1]]).build()).send()
         return response.code == 200
 
+    def list_table_variables(self, table) -> list:
+        tokens = table.split(".")
+        project_name = tokens[0]
+        table_name = tokens[1]
+        return (
+            self
+            ._get(UriBuilder(["datasource", project_name, "table", table_name, "variables"]).build())
+            .fail_on_error()
+            .send()
+            .from_json()
+        )
+
+    def list_taxonomies(self) -> list:
+        return self._get(UriBuilder(["system", "conf", "taxonomies"]).build()).fail_on_error().send().from_json()
+
+    def search_variables(self, query) -> list:
+        return (
+            self
+            ._get(UriBuilder(["datasources", "variables", "_search"]).query("query", query).build())
+            .fail_on_error()
+            .send()
+            .from_json()
+        )
+
     def list_resources(self) -> list:
         response = self._get("/projects").fail_on_error().send()
         projects = response.from_json()

pyproject.toml

@@ -1,6 +1,6 @@
 [project]
 name = "datashield-opal"
-version = "0.2.0"
+version = "0.3.0"
 description = ""
 authors = [
     {name = "Yannick Marcon", email = "yannick.marcon@obiba.org"}
@@ -23,7 +23,7 @@ classifiers = [
     "Programming Language :: Python :: 3.13",
 ]
 dependencies = [
-    "datashield>=0.2.0",
+    "datashield @ git+https://github.com/datashield/datashield-python.git@catalog",
     "obiba_opal>=6.0.2"
 ]
 

tests/test_impl.py

@@ -85,6 +85,13 @@ def test_tables(self):
         assert "CNSIM.CNSIM1" in tables
         assert conn.has_table("CNSIM.CNSIM1")
 
+    @pytest.mark.integration
+    def test_table_variables(self):
+        conn = self.conn
+        variables = conn.list_table_variables("CNSIM.CNSIM1")
+        assert type(variables) is list
+        assert "LAB_TSC" in [v.get("name") for v in variables]
+
     @pytest.mark.integration
     def test_resources(self):
         conn = self.conn