Restore the cached environments for now ... better to completely eliminate them later

lib/galaxy/webapps/galaxy/api/tools.py

@@ -142,6 +142,8 @@ class ToolsController( BaseAPIController, UsesVisualizationMixin ):
         """
         tool = self._get_tool(id)
         tool._view.install_dependencies(None, tool.requirements)
+        if kwds.get('build_dependency_cache'):
+            tool.build_dependency_cache(**kwds)
         # TODO: rework resolver install system to log and report what has been done.
         # _view.install_dependencies should return a dict with stdout, stderr and success status
         return tool.tool_requirements_status

lib/tool_shed/galaxy_install/install_manager.py

@@ -911,6 +911,8 @@ class InstallRepositoryManager( object ):
                     if tool and tool.requirements not in installed_requirements:
                         installed_requirements.append(tool.requirements)
                         self._view.install_dependencies(None, tool.requirements)
+                        if self.app.config.use_cached_dependency_manager:
+                            tool.build_dependency_cache()
             if install_tool_dependencies and tool_shed_repository.tool_dependencies and 'tool_dependencies' in metadata:
                 work_dir = tempfile.mkdtemp( prefix="tmp-toolshed-itsr" )
                 # Install tool dependencies.