readd params argument to rerun_invocation, add note about runtime par…

…ams to docs
galaxyproject · May 19, 2021 · de65c1e · de65c1e
1 parent 586aac6
commit de65c1e
Show file tree

Hide file tree

Showing 2 changed files with 11 additions and 3 deletions.
diff --git a/bioblend/galaxy/invocations/__init__.py b/bioblend/galaxy/invocations/__init__.py
@@ -133,7 +133,7 @@ def show_invocation(self, invocation_id):
         return self._get(url=url)
 
     def rerun_invocation(self, invocation_id: str, remap: bool = False, inputs_update: Optional[dict] = None,
-                         history_id: Optional[str] = None,
+                         params_update: Optional[dict] = None, history_id: Optional[str] = None,
                          history_name: Optional[str] = None, import_inputs_to_history: bool = False,
                          replacement_params: Optional[dict] = None, allow_tool_state_corrections: bool = False,
                          inputs_by: Optional[str] = None, parameters_normalized: bool = False):
@@ -156,6 +156,12 @@ def rerun_invocation(self, invocation_id: str, remap: bool = False, inputs_updat
           invocation, this should contain a mapping of workflow inputs to the new
           datasets and dataset collections.
 
+        :type params: dict
+        :param params: If different non-dataset tool parameters should be
+          used to the original invocation, this should contain a mapping of the
+          new parameter values. Runtime parameters should be specified through
+          ``inputs_update``.
+
         :type history_id: str
         :param history_id: The encoded history ID where to store the workflow
           outputs. Alternatively, ``history_name`` may be specified to create a
@@ -222,7 +228,8 @@ def rerun_invocation(self, invocation_id: str, remap: bool = False, inputs_updat
             for inp, input_value in inputs_update.items():
                 inputs[inp] = input_value
         payload = {'inputs': inputs}
-
+        if params:
+            payload['parameters'] = params
         if replacement_params:
             payload['replacement_params'] = replacement_params
         if history_id:

diff --git a/bioblend/galaxy/workflows/__init__.py b/bioblend/galaxy/workflows/__init__.py
@@ -295,7 +295,8 @@ def run_workflow(self, workflow_id, dataset_map=None, params=None,
                             (e.g. ``{'23': {'id': '29beef4fadeed09f', 'src': 'ld'}}``)
 
         :type params: dict
-        :param params: A mapping of non-datasets tool parameters (see below)
+        :param params: A mapping of non-datasets tool parameters (see below). Runtime parameters
+        should be specified through  ``inputs``.
 
         :type history_id: str
         :param history_id: The encoded history ID where to store the workflow