Fix short ids in tool panel views.

Use new data structure to optimize get_tool(exact=False) as well - should speed up certain kinds of toolbox related operations.
galaxyproject · Sep 10, 2023 · a45012b · a45012b
1 parent cd50265
commit a45012b
Show file tree

Hide file tree

Showing 2 changed files with 10 additions and 5 deletions.
diff --git a/lib/galaxy/tool_util/toolbox/base.py b/lib/galaxy/tool_util/toolbox/base.py
@@ -95,7 +95,8 @@ def __init__(self, toolbox: "AbstractToolBox"):
         self.__toolbox = toolbox
 
     def has_tool(self, tool_id: str) -> bool:
-        return tool_id in self.__toolbox._tools_by_id
+        toolbox = self.__toolbox
+        return tool_id in toolbox._tools_by_id or tool_id in toolbox._tools_by_old_id
 
     def get_tool(self, tool_id: str):
         return self.__toolbox.get_tool(tool_id)
@@ -153,6 +154,7 @@ def __init__(
         # so each will be present once in the above dictionary. The following
         # dictionary can instead hold multiple tools with different versions.
         self._tool_versions_by_id = {}
+        self._tools_by_old_id = {}
         self._workflows_by_id = {}
         # Cache for tool's to_dict calls specific to toolbox. Invalidates on toolbox reload.
         self._tool_to_dict_cache = {}
@@ -710,9 +712,8 @@ def get_tool(self, tool_id, tool_version=None, get_all_versions=False, exact=Fal
                         rval.append(lineage_tool)
             if not rval:
                 # still no tool, do a deeper search and try to match by old ids
-                for tool in self._tools_by_id.values():
-                    if tool.old_id == tool_id:
-                        rval.append(tool)
+                if tool_id in self._tools_by_old_id:
+                    rval.extend(self._tools_by_old_id[tool_id])
                 if get_all_versions and tool_id in self._tool_versions_by_id:
                     for tool in self._tool_versions_by_id[tool_id].values():
                         if tool not in rval:
@@ -1152,6 +1153,10 @@ def register_tool(self, tool):
                 self._tools_by_id[tool_id] = tool
         else:
             self._tools_by_id[tool_id] = tool
+        old_id = tool.old_id
+        if old_id not in self._tools_by_old_id:
+            self._tools_by_old_id[old_id] = []
+        self._tools_by_old_id[old_id].append(tool)
 
     def package_tool(self, trans, tool_id):
         """

diff --git a/test/integration/panel_views_1/custom_6.yml b/test/integration/panel_views_1/custom_6.yml
@@ -2,7 +2,7 @@ name: Custom Panel in a New Section
 type: generic
 items:
 - type: section
-  name: My Completely New Sectin
+  name: My Completely New Section
   items:
   - type: label
     text: The Start