Made change to jupyter notebooks automatic, deleted jupyter argument

pyneuroml/plot/PlotMorphologyVispy.py

@@ -318,7 +318,6 @@ def plot_interactive_3D(
     highlight_spec: typing.Optional[typing.Dict[typing.Any, typing.Any]] = None,
     precision: typing.Tuple[int, int] = (4, 200),
     upright: bool = False,
-    jupyter: bool = False,
 ):
     """Plot interactive plots in 3D using Vispy
 
@@ -435,8 +434,6 @@ def plot_interactive_3D(
         "upwards" instead of "downwards" in most cases. Note that the original cell object
         is unchanged, this is for visualization purposes only.
     :type upright: bool
-    :param jupyter: Set to True to run visualizations in jupyter notebooks. Default is False
-    :type jupyter: bool
 
     :throws ValueError: if `plot_type` is not one of "detailed", "constant",
         "schematic", or "point"
@@ -454,13 +451,9 @@ def plot_interactive_3D(
     if verbose:
         logger.info(f"Visualising {nml_file}")
 
-    if not jupyter:
-        from IPython import get_ipython
-
-        ipython = get_ipython()
-        # Check if the IPython instance is using the kernel environment
-        if ipython and "IPKernelApp" in ipython.config:
-            logging.warning("Kernel detected. Try setting jupyter=True")
+    jupyter = False
+    if app.Application.is_interactive(app):
+        jupyter = True
 
     # if it's a file, load it first
     if isinstance(nml_file, str):
@@ -706,7 +699,6 @@ def plot_interactive_3D(
                         meshdata=meshdata,
                         mesh_precision=precision[0],
                         upright=upright,
-                        jupyter=jupyter,
                     )
                 elif (
                     plot_type == "detailed"
@@ -736,7 +728,6 @@ def plot_interactive_3D(
                         mesh_precision=precision[0],
                         highlight_spec=cell_highlight_spec,
                         upright=upright,
-                        jupyter=jupyter,
                     )
 
             # if too many meshes, reduce precision and retry, recursively
@@ -759,7 +750,6 @@ def plot_interactive_3D(
                     precision=precision,
                     highlight_spec=highlight_spec,
                     upright=upright,
-                    jupyter=jupyter,
                 )
                 # break the recursion, don't plot in the calling method
                 return
@@ -857,7 +847,6 @@ def plot_3D_cell_morphology(
     mesh_precision: int = 2,
     highlight_spec: typing.Optional[typing.Dict[typing.Any, typing.Any]] = None,
     upright: bool = False,
-    jupyter: bool = False,
 ):
     """Plot the detailed 3D morphology of a cell using vispy.
     https://vispy.org/
@@ -958,8 +947,6 @@ def plot_3D_cell_morphology(
         "upwards" instead of "downwards" in most cases. Note that the original cell object
         is unchanged, this is for visualization purposes only.
     :type upright: bool
-    :param jupyter: Set to True to run visualizations in jupyter notebooks. Default is False
-    :type jupyter: bool
     :raises: ValueError if `cell` is None
 
     """
@@ -972,13 +959,9 @@ def plot_3D_cell_morphology(
         highlight_spec = {}
     logging.debug("highlight_spec is " + str(highlight_spec))
 
-    if not jupyter:
-        from IPython import get_ipython
-
-        ipython = get_ipython()
-        # Check if the IPython instance is using the kernel environment
-        if ipython and "IPKernelApp" in ipython.config:
-            logging.warning("Kernel detected. Try setting jupyter=True")
+    jupyter = False
+    if app.Application.is_interactive(app):
+        jupyter = True
 
     view_center = None
     if upright:
@@ -1257,7 +1240,6 @@ def plot_3D_schematic(
     meshdata: typing.Optional[typing.Dict[typing.Any, typing.Any]] = None,
     mesh_precision: int = 2,
     upright: bool = False,
-    jupyter: bool = False,
 ) -> None:
     """Plot a 3D schematic of the provided segment groups using vispy.
     layer..
@@ -1330,19 +1312,13 @@ def plot_3D_schematic(
         "upwards" instead of "downwards" in most cases. Note that the original cell object
         is unchanged, this is for visualization purposes only.
     :type upright: bool
-    :param jupyter: Set to True to run visualizations in jupyter notebooks. Default is False
-    :type jupyter: bool
     """
     if title == "":
         title = f"3D schematic of segment groups from {cell.id}"
 
-    if not jupyter:
-        from IPython import get_ipython
-
-        ipython = get_ipython()
-        # Check if the IPython instance is using the kernel environment
-        if ipython and "IPKernelApp" in ipython.config:
-            logging.warning("Kernel detected. Try setting jupyter=True")
+    jupyter = False
+    if app.Application.is_interactive(app):
+        jupyter = True
 
     view_center = None
     if upright: