add stop_when_energy_decayed termination condition

doc/docs/Python_User_Interface.md

@@ -87,40 +87,40 @@ control various parameters of the Meep computation.
 
 ```python
 def __init__(self,
-             cell_size:Union[meep.geom.Vector3, Tuple[float, ...], NoneType]=None,
-             resolution:float=None,
-             geometry:Union[List[meep.geom.GeometricObject], NoneType]=None,
-             sources:Union[List[meep.source.Source], NoneType]=None,
-             eps_averaging:bool=True,
-             dimensions:int=3,
-             boundary_layers:Union[List[meep.simulation.PML], NoneType]=None,
-             symmetries:Union[List[meep.simulation.Symmetry], NoneType]=None,
-             force_complex_fields:bool=False,
-             default_material:meep.geom.Medium=Medium(),
-             m:float=0,
-             k_point:Union[meep.geom.Vector3, Tuple[float, ...], bool]=False,
-             kz_2d:str='complex',
-             extra_materials:Union[List[meep.geom.Medium], NoneType]=None,
-             material_function:Union[Callable[[Union[meep.geom.Vector3, Tuple[float, ...]]], meep.geom.Medium], NoneType]=None,
-             epsilon_func:Union[Callable[[Union[meep.geom.Vector3, Tuple[float, ...]]], float], NoneType]=None,
-             epsilon_input_file:str='',
-             progress_interval:float=4,
-             subpixel_tol:float=0.0001,
-             subpixel_maxeval:int=100000,
-             loop_tile_base_db:int=0,
-             loop_tile_base_eh:int=0,
-             ensure_periodicity:bool=True,
-             num_chunks:int=0,
-             Courant:float=0.5,
-             accurate_fields_near_cylorigin:bool=False,
-             filename_prefix:Union[str, NoneType]=None,
-             output_volume:Union[meep.simulation.Volume, NoneType]=None,
-             output_single_precision:bool=False,
-             geometry_center:Union[meep.geom.Vector3, Tuple[float, ...]]=Vector3<0.0, 0.0, 0.0>,
-             force_all_components:bool=False,
-             split_chunks_evenly:bool=True,
+             cell_size: Union[meep.geom.Vector3, Tuple[float, ...], NoneType] = None,
+             resolution: float = None,
+             geometry: Optional[List[meep.geom.GeometricObject]] = None,
+             sources: Optional[List[meep.source.Source]] = None,
+             eps_averaging: bool = True,
+             dimensions: int = 3,
+             boundary_layers: Optional[List[meep.simulation.PML]] = None,
+             symmetries: Optional[List[meep.simulation.Symmetry]] = None,
+             force_complex_fields: bool = False,
+             default_material: meep.geom.Medium = Medium(),
+             m: float = 0,
+             k_point: Union[meep.geom.Vector3, Tuple[float, ...], bool] = False,
+             kz_2d: str = 'complex',
+             extra_materials: Optional[List[meep.geom.Medium]] = None,
+             material_function: Optional[Callable[[Union[meep.geom.Vector3, Tuple[float, ...]]], meep.geom.Medium]] = None,
+             epsilon_func: Optional[Callable[[Union[meep.geom.Vector3, Tuple[float, ...]]], float]] = None,
+             epsilon_input_file: str = '',
+             progress_interval: float = 4,
+             subpixel_tol: float = 0.0001,
+             subpixel_maxeval: int = 100000,
+             loop_tile_base_db: int = 0,
+             loop_tile_base_eh: int = 0,
+             ensure_periodicity: bool = True,
+             num_chunks: int = 0,
+             Courant: float = 0.5,
+             accurate_fields_near_cylorigin: bool = False,
+             filename_prefix: Optional[str] = None,
+             output_volume: Optional[meep.simulation.Volume] = None,
+             output_single_precision: bool = False,
+             geometry_center: Union[meep.geom.Vector3, Tuple[float, ...]] = Vector3<0.0, 0.0, 0.0>,
+             force_all_components: bool = False,
+             split_chunks_evenly: bool = True,
              chunk_layout=None,
-             collect_stats:bool=False):
+             collect_stats: bool = False):
 ```
 
 <div class="method_docstring" markdown="1">
@@ -2843,6 +2843,27 @@ slow group velocities and are absorbed poorly by [PML](Perfectly_Matched_Layer.m
 
 </div>
 
+<a id="stop_when_energy_decayed"></a>
+
+```python
+def stop_when_energy_decayed(dt=None, decay_by=None):
+```
+
+<div class="function_docstring" markdown="1">
+
+Return a `condition` function, suitable for passing to `Simulation.run` as the `until`
+or `until_after_sources` parameter, that examines the field energy over the entire
+cell volume at every `dt` time units and keeps incrementing the run time by `dt`  until
+its absolute value has decayed by at least `decay_by` from its maximum recorded value.
+
+Note that, if you make `decay_by` very small, you may need to increase the `cutoff`
+property of your source(s), to decrease the amplitude of the small high-frequency
+field components that are excited when the source turns off. High frequencies near the
+[Nyquist frequency](https://en.wikipedia.org/wiki/Nyquist_frequency) of the grid have
+slow group velocities and are absorbed poorly by [PML](Perfectly_Matched_Layer.md).
+
+</div>
+
 <a id="stop_when_dft_decayed"></a>
 
 ```python

doc/docs/Python_User_Interface.md.in

@@ -501,6 +501,7 @@ A common point of confusion is described in [The Run Function Is Not A Loop](The
 In particular, a useful value for `until_after_sources` or `until` is often `stop_when_field_decayed`, which is demonstrated in [Tutorial/Basics](Python_Tutorials/Basics.md#transmittance-spectrum-of-a-waveguide-bend). These top-level functions are available:
 
 @@ stop_when_fields_decayed @@
+@@ stop_when_energy_decayed @@
 @@ stop_when_dft_decayed @@
 @@ stop_after_walltime @@
 @@ stop_on_interrupt @@

python/meep.i

@@ -1833,6 +1833,7 @@ PyObject *_get_array_slice_dimensions(meep::fields *f, const meep::volume &where
         stop_on_interrupt,
         stop_when_dft_decayed,
         stop_when_fields_decayed,
+        stop_when_energy_decayed,
         synchronized_magnetic,
         to_appended,
         vec,

python/simulation.py

@@ -4514,6 +4514,42 @@ def _stop(sim):
     return _stop
 
 
+def stop_when_energy_decayed(dt=None, decay_by=None):
+    """
+    Return a `condition` function, suitable for passing to `Simulation.run` as the `until`
+    or `until_after_sources` parameter, that examines the field energy over the entire
+    cell volume at every `dt` time units and keeps incrementing the run time by `dt`  until
+    its absolute value has decayed by at least `decay_by` from its maximum recorded value.
+
+    Note that, if you make `decay_by` very small, you may need to increase the `cutoff`
+    property of your source(s), to decrease the amplitude of the small high-frequency
+    field components that are excited when the source turns off. High frequencies near the
+    [Nyquist frequency](https://en.wikipedia.org/wiki/Nyquist_frequency) of the grid have
+    slow group velocities and are absorbed poorly by [PML](Perfectly_Matched_Layer.md).
+    """
+    if (dt is None) or (decay_by is None):
+        raise ValueError("dt and decay_by are all required.")
+
+    closure = {
+        'max_abs': 0,
+        't0': 0,
+    }
+
+    def _stop(sim):
+        if sim.round_time() <= dt + closure['t0']:
+            return False
+        else:
+            cell_volume = mp.Volume(center=sim.geometry_center, size=sim.cell_size)
+            cur_abs = abs(sim.field_energy_in_box(box=cell_volume))
+            closure['max_abs'] = max(closure['max_abs'], cur_abs)
+            closure['t0'] = sim.round_time()
+            if closure['max_abs'] != 0 and verbosity.meep > 0:
+                fmt = "energy decay(t = {}): {} / {} = {}"
+                print(fmt.format(sim.meep_time(), cur_abs, closure['max_abs'], cur_abs / closure['max_abs']))
+            return cur_abs <= closure['max_abs'] * decay_by
+    return _stop
+
+
 def stop_after_walltime(t):
     """
     Return a `condition` function, suitable for passing to `Simulation.run` as the `until`

python/tests/test_bend_flux.py

@@ -80,7 +80,7 @@ def init(self, no_bend=False, gdsii=False):
     def run_bend_flux(self, from_gdsii_file):
         # Normalization run
         self.init(no_bend=True, gdsii=from_gdsii_file)
-        self.sim.run(until_after_sources=mp.stop_when_fields_decayed(50, mp.Ez, self.pt, 1e-3))
+        self.sim.run(until_after_sources=mp.stop_when_energy_decayed(100, 1e-3))
         # Save flux data for use in real run below
         fdata = self.sim.get_flux_data(self.refl)
         fdata_decimated = self.sim.get_flux_data(self.refl_decimated)
@@ -126,7 +126,7 @@ def run_bend_flux(self, from_gdsii_file):
         # Load flux data obtained from normalization run
         self.sim.load_minus_flux_data(self.refl, fdata)
         self.sim.load_minus_flux_data(self.refl_decimated, fdata_decimated)
-        self.sim.run(until_after_sources=mp.stop_when_fields_decayed(50, mp.Ez, self.pt, 1e-3))
+        self.sim.run(until_after_sources=mp.stop_when_energy_decayed(100, 1e-3))
 
         expected = [
             (0.09999999999999999, 1.8392235204829767e-5, -7.259467687598002e-6),