wrfrun 0.2.0__py3-none-any.whl → 0.3.1__py3-none-any.whl

wrfrun/model/__init__.py

@@ -3,12 +3,14 @@ wrfrun.model
 ############
 
 To be able to handle different numerical models,
-``wrfrun`` implements various ``Executable`` for model's binary executable based on :class:`ExecutableBase <wrfrun.core.base.ExecutableBase>`,
+``wrfrun`` implements various ``Executable`` for model's binary executable
+based on :class:`ExecutableBase <wrfrun.core.base.ExecutableBase>`,
 which are all placed in this module.
 
 ``wrfrun.model`` currently supports following numerical models:
 
 ========================================= ==========================================
+:doc:`palm </api/model.palm>`             Support for PALM
 :doc:`wrf </api/model.wrf>`               Support for WRF
 ========================================= ==========================================
 
@@ -16,15 +18,17 @@ which are all placed in this module.
     :maxdepth: 1
     :hidden:
 
-    wrf <model.wrf>
-    base <model.base>
+    constants <model.constants>
+    palm <model.palm>
     plot <model.plot>
+    type <model.type>
     utils <model.utils>
+    wrf <model.wrf>
 """
 
-from .base import *
+# just to register executables
+from . import palm as _
+from . import wrf as _
+from .constants import *
 from .plot import *
 from .utils import *
-
-# just to register executables
-from . import wrf

wrfrun/model/constants.py

@@ -0,0 +1,52 @@
+"""
+wrfrun.model.constants
+######################
+
+Definition of constants used by models.
+
+.. autosummary::
+    :toctree: generated/
+
+    NamelistName
+"""
+
+from dataclasses import dataclass
+
+
+@dataclass
+class NamelistName:
+    """
+    Namelist file names.
+
+    .. py:attribute:: WPS
+        :type: str
+        :value: namelist.wps
+
+        WPS namelist file name.
+
+    .. py:attribute:: WRF
+        :type: str
+        :value: namelist.input
+
+        WRF namelist file name.
+
+    .. py:attribute:: WRFDA
+        :type: str
+        :value: namelist.input
+
+        WRFDA namelist file name.
+
+    .. py:attribute:: PALM
+        :type: str
+        :value: wrfrun_p3d
+
+        PALM namelist file name.
+    """
+
+    WPS = "namelist.wps"
+    WRF = "namelist.input"
+    WRFDA = "namelist.input"
+    PALM = "wrfrun_p3d"
+
+
+__all__ = ["NamelistName"]

wrfrun/model/palm/__init__.py

@@ -0,0 +1,30 @@
+"""
+wrfrun.model.palm
+#################
+
+Implementation of PALM model.
+
+Submodules
+**********
+
+============================================ ==================================================================================
+:doc:`core </api/model.palm.core>`           Core implementation of PALM model.
+:doc:`namelist </api/model.palm.namelist>`   Functions to process PALM namelist files.
+============================================ ==================================================================================
+
+About the implementation of PALM
+********************************
+
+Since ``PALM`` provides a bash script ``palmrun`` to take care of the running of ``palm``,
+``wrfrun`` just simply wraps the bash script.
+
+.. toctree::
+    :maxdepth: 1
+    :hidden:
+
+    core <model.palm.core>
+    namelist <model.palm.namelist>
+"""
+
+from .core import *
+from .namelist import *

wrfrun/model/palm/core.py

@@ -0,0 +1,145 @@
+"""
+wrfrun.model.palm.core
+######################
+
+Core implementation of PALM model. All ``Executable`` and function interface of PALM model are defined here.
+
+.. autosummary::
+    :toctree: generated/
+
+    _check_and_prepare_namelist
+    PALMRun
+    palmrun
+"""
+
+from os.path import exists
+from typing import Optional
+
+from wrfrun.core import WRFRUN, ExecutableBase, ExecutableDB
+from wrfrun.log import logger
+from wrfrun.workspace.palm import get_palm_workspace_path
+
+from ..constants import NamelistName
+from .namelist import prepare_palm_namelist
+
+
+def _check_and_prepare_namelist():
+    """
+    Check if namelist of ``PALM`` has been loaded.
+    If not, call :func:`prepare_palm_namelist <wrfrun.model.palm.namelist.prepare_palm_namelist>` to load it.
+    """
+    if not WRFRUN.config.check_namelist("palm"):
+        prepare_palm_namelist()
+
+
+class PALMRun(ExecutableBase):
+    """
+    ``Executable`` for bash script "palmrun".
+    """
+
+    def __init__(self, config_id: str = "default", core_num: Optional[int] = None):
+        """
+        ``Executable`` for bash script "palmrun".
+
+        :param config_id: Configuration identifier of ``PALM``, defaults to "default"
+        :type config_id: str, optional
+        :param core_num: CPU cores to use, defaults to None
+        :type core_num: Optional[int], optional
+        """
+        if isinstance(core_num, int) and core_num <= 0:
+            logger.warning("`core_num` should be greater than 0")
+            core_num = None
+
+        mpi_use = False
+        mpi_cmd = None
+        mpi_core_num = None
+
+        cmd = f"./palmrun -r wrfrun -c {config_id} -a d3# -X {core_num} -v"
+
+        super().__init__("palmrun", cmd, get_palm_workspace_path(), mpi_use, mpi_cmd, mpi_core_num)
+
+        _check_and_prepare_namelist()
+
+    def generate_custom_config(self):
+        """
+        Store custom configs, including:
+
+        * Namelist settings.
+        """
+        self.custom_config.update({"namelist": WRFRUN.config.get_namelist("palm")})
+
+    def load_custom_config(self):
+        """
+        Load custom configs, including:
+
+        * Namelist settings.
+        """
+        WRFRUN.config.update_namelist(self.custom_config["namelist"], "palm")
+
+    def before_exec(self):
+        WRFRUN.config.check_wrfrun_context(True)
+        WRFRUN.config.WRFRUN_WORK_STATUS = "palm"
+
+        config = WRFRUN.config.get_model_config("palm")
+
+        if not WRFRUN.config.IS_IN_REPLAY:
+            # check if user provides topography files
+            if exists(config["topography_file"]):
+                self.add_input_files(
+                    {
+                        "file_path": config["topography_file"],
+                        "save_path": get_palm_workspace_path("input"),
+                        "save_name": "palmrun.topo",
+                        "is_data": True,
+                        "is_output": False,
+                    }
+                )
+
+        super().before_exec()
+
+        WRFRUN.config.write_namelist(f"{get_palm_workspace_path('input')}/{NamelistName.PALM}", "palm")
+
+        # print debug logs
+        logger.debug("Namelist settings of 'palmrun':")
+        logger.debug(WRFRUN.config.get_namelist("palm"))
+
+    def after_exec(self):
+        if not WRFRUN.config.IS_IN_REPLAY:
+            self.add_output_files(
+                output_dir=get_palm_workspace_path("output"), save_path=self._output_save_path, startswith="wrfrun_"
+            )
+
+        super().after_exec()
+
+        logger.info(f"All PALM output files have been copied to {WRFRUN.config.parse_resource_uri(self._output_save_path)}")
+
+
+def palmrun():
+    """
+    Function interface for :class:`PALMRun`.
+
+    Parameters needed to initialize :class:`PALMRun` is read from global variable :doc:`WRFRUN </api/core.core>`.
+    """
+    config = WRFRUN.config.get_model_config("palm")
+    PALMRun(config["config_identifier"], WRFRUN.config.get_core_num())()
+
+
+def _exec_register_func(exec_db: ExecutableDB):
+    """
+    Function to register ``Executable``.
+
+    :param exec_db: ``ExecutableDB`` instance.
+    :type exec_db: ExecutableDB
+    """
+    class_list = [PALMRun]
+    class_id_list = ["palmrun"]
+
+    for _class, _id in zip(class_list, class_id_list):
+        if not exec_db.is_registered(_id):
+            exec_db.register_exec(_id, _class)
+
+
+WRFRUN.set_exec_db_register_func(_exec_register_func)
+
+
+__all__ = ["PALMRun", "palmrun"]

wrfrun/model/palm/namelist.py

@@ -0,0 +1,33 @@
+"""
+wrfrun.model.palm.namelist
+##########################
+
+Functions to process namelist for ``PALM``.
+
+.. autosummary::
+    :toctree: generated/
+
+    prepare_palm_namelist
+"""
+
+from os.path import exists
+
+from wrfrun.core import WRFRUN
+from wrfrun.log import logger
+
+
+def prepare_palm_namelist():
+    """
+    This function loads user PALM namelist file and save it in :doc:`WRFRUN </api/core.core>`.
+    """
+    palm_config = WRFRUN.config.get_model_config("palm")
+    namelist_file = palm_config["user_namelist"]
+
+    if not exists(namelist_file):
+        logger.error(f"Can't find PALM namelist: {namelist_file}")
+        raise FileNotFoundError(f"Can't find PALM namelist: {namelist_file}")
+
+    WRFRUN.config.read_namelist(namelist_file, "palm")
+
+
+__all__ = ["prepare_palm_namelist"]

wrfrun/model/plot.py

@@ -1,5 +1,21 @@
+"""
+wrfrun.model.plot
+#################
+
+This module is used to plot domain area so users can check their domain settings before running simulation.
+
+.. autosummary::
+    :toctree: generated/
+
+    _calculate_x_y_offset
+    create_projection
+    parse_domain_setting
+    plot_domain_area
+    generate_domain_area
+"""
+
 from os.path import abspath, exists
-from typing import Literal, Optional, TypedDict, Union
+from typing import Union
 
 import cartopy.feature as cfeature
 import f90nml
@@ -8,31 +24,14 @@ from cartopy import crs
 from cartopy.mpl.geoaxes import GeoAxes
 from cartopy.mpl.gridliner import LATITUDE_FORMATTER, LONGITUDE_FORMATTER
 from haversine.haversine import Direction, Unit, inverse_haversine
+from matplotlib.figure import Figure
 
-from wrfrun.core import get_wrfrun_config
-from wrfrun.utils import check_path, logger
+from ..core import WRFRUN
+from ..log import logger
+from ..utils import check_path
+from .type import DomainSetting
 
 
-class DomainSetting(TypedDict):
-    """
-    Domain settings which can be used to create a projection.
-    """
-    dx: int
-    dy: int
-    e_sn: Union[list[int], tuple[int]]
-    e_we: Union[list[int], tuple[int]]
-    i_parent_start: Union[list[int], tuple[int]]
-    j_parent_start: Union[list[int], tuple[int]]
-    max_dom: int
-    parent_grid_ratio: Union[list[int], tuple[int]]
-    map_proj: Literal["lambert", "polar", "mercator", "lat-lon"]
-    ref_lat: Union[int, float]
-    ref_lon: Union[int, float]
-    truelat1: Union[int, float]
-    truelat2: Union[int, float]
-    stand_lon: Union[int, float]
-    
-    
 def _calculate_x_y_offset(domain_settings: DomainSetting) -> tuple[float, float]:
     """
     Calculate X and Y offset from planar origin in metres.
@@ -42,12 +41,14 @@ def _calculate_x_y_offset(domain_settings: DomainSetting) -> tuple[float, float]
     :return: (X offset, Y offset)
     :rtype: tuple
     """
-    false_easting = (domain_settings["e_we"][0] - 1) / 2 * domain_settings["dx"]
-    false_northing = (domain_settings["e_sn"][0] - 1) / 2 * domain_settings["dy"]
+    false_easting = (domain_settings["points_x"][0] - 1) / 2 * domain_settings["resolution_x"]
+    false_northing = (domain_settings["points_y"][0] - 1) / 2 * domain_settings["resolution_y"]
     return false_easting, false_northing
 
 
-def create_projection(domain_settings: DomainSetting) -> crs.Projection:
+def create_projection(
+    domain_settings: DomainSetting,
+) -> Union[crs.LambertConformal, crs.NorthPolarStereo, crs.SouthPolarStereo, crs.Mercator, crs.PlateCarree]:
     """
     Create a projection from domain settings which can be used to draw images.
 
@@ -59,26 +60,25 @@ def create_projection(domain_settings: DomainSetting) -> crs.Projection:
     :return: Projection object and the used domain settings.
     :rtype: (Projection, domain settings)
     """
-    match domain_settings["map_proj"]:
+    # declare the proj to pass static type check
+    proj = None
 
+    match domain_settings["projection_type"]:
         case "lat-lon":
-            proj = crs.PlateCarree(central_longitude=domain_settings["ref_lon"])
+            proj = crs.PlateCarree(central_longitude=domain_settings["reference_lon"])
 
         case "lambert":
             false_easting, false_northing = _calculate_x_y_offset(domain_settings)
             proj = crs.LambertConformal(
-                central_longitude=domain_settings["ref_lon"],
-                central_latitude=domain_settings["ref_lat"],
-                standard_parallels=(
-                    domain_settings["truelat1"],
-                    domain_settings["truelat2"]
-                ),
+                central_longitude=domain_settings["reference_lon"],
+                central_latitude=domain_settings["reference_lat"],
+                standard_parallels=(domain_settings["true_lat1"], domain_settings["true_lat2"]),
                 false_easting=false_easting,
-                false_northing=false_northing
+                false_northing=false_northing,
             )
 
         case "polar":
-            ref_lat = domain_settings["ref_lat"]
+            ref_lat = domain_settings["reference_lat"]
             if ref_lat > 0:
                 proj = crs.NorthPolarStereo(central_longitude=domain_settings["stand_lon"])
 
@@ -97,17 +97,18 @@ def create_projection(domain_settings: DomainSetting) -> crs.Projection:
             # ref_lat_distance = ref_lat_distance if central_latitude < 0 else -ref_lat_distance
             # false_northing = ref_lat_distance + false_northing
             proj = crs.Mercator(
-                central_longitude=domain_settings["ref_lon"],
-                latitude_true_scale=domain_settings["truelat1"],
+                central_longitude=domain_settings["reference_lon"],
+                latitude_true_scale=domain_settings["true_lat1"],
                 # false_northing=false_northing,
                 # false_easting=false_easting
             )
 
-        case _:
-            logger.error(f"Unknown projection name: {domain_settings['map_proj']}")
-            raise KeyError(f"Unknown projection name: {domain_settings['map_proj']}")
+    if proj is not None:
+        return proj
 
-    return proj
+    else:
+        logger.error(f"Unknown projection name: {domain_settings['projection_type']}")
+        raise KeyError(f"Unknown projection name: {domain_settings['projection_type']}")
 
 
 def parse_domain_setting(namelist: Union[str, dict]) -> DomainSetting:
@@ -140,30 +141,26 @@ def parse_domain_setting(namelist: Union[str, dict]) -> DomainSetting:
         namelist = f90nml.read(namelist).todict()
 
     domain_setting: DomainSetting = {
-        "dx": namelist["geogrid"]["dx"],
-        "dy": namelist["geogrid"]["dy"],
-        "e_sn": namelist["geogrid"]["e_sn"],
-        "e_we": namelist["geogrid"]["e_we"],
-        "i_parent_start": namelist["geogrid"]["i_parent_start"],
-        "j_parent_start": namelist["geogrid"]["j_parent_start"],
-        "max_dom": namelist["share"]["max_dom"],
-        "parent_grid_ratio": namelist["geogrid"]["parent_grid_ratio"],
-        "ref_lat": namelist["geogrid"]["ref_lat"],
-        "ref_lon": namelist["geogrid"]["ref_lon"],
-        "truelat1": namelist["geogrid"]["truelat1"],
-        "truelat2": namelist["geogrid"]["truelat2"],
+        "resolution_x": namelist["geogrid"]["dx"],
+        "resolution_y": namelist["geogrid"]["dy"],
+        "points_y": namelist["geogrid"]["e_sn"],
+        "points_x": namelist["geogrid"]["e_we"],
+        "x_parent_index": namelist["geogrid"]["i_parent_start"],
+        "y_parent_index": namelist["geogrid"]["j_parent_start"],
+        "domain_num": namelist["share"]["max_dom"],
+        "grid_spacing_ratio": namelist["geogrid"]["parent_grid_ratio"],
+        "reference_lat": namelist["geogrid"]["ref_lat"],
+        "reference_lon": namelist["geogrid"]["ref_lon"],
+        "true_lat1": namelist["geogrid"]["truelat1"],
+        "true_lat2": namelist["geogrid"]["truelat2"],
         "stand_lon": namelist["geogrid"]["stand_lon"],
-        "map_proj": namelist["geogrid"]["map_proj"]
+        "projection_type": namelist["geogrid"]["map_proj"],
     }
 
     return domain_setting
 
 
-def plot_domain_area(
-    fig: plt.Figure,
-    domain_settings: Optional[DomainSetting] = None,
-    model_name: Optional[str] = None
-):
+def plot_domain_area(fig: Figure, domain_settings: DomainSetting):
     """
     Plot domain area based on domain settings.
 
@@ -175,78 +172,53 @@ def plot_domain_area(
     :type fig: Figure
     :param domain_settings: Dictionary contains domain settings. If None, read domain settings from ``WRFRUNConfig``.
     :type domain_settings: DomainSetting | None
-    :param model_name: Model's name for reading domain settings.
-    :type model_name: str | None
     """
-    if domain_settings is None:
-        if model_name is None:
-            logger.error("You need to give 'model_name' if `domain_settings == None`")
-            raise ValueError("You need to give 'model_name' if `domain_settings == None`")
-
-        user_settings = get_wrfrun_config().get_model_config(model_name)["domain"]
-        domain_settings: DomainSetting = {
-            "dx": user_settings["dx"],
-            "dy": user_settings["dy"],
-            "e_sn": user_settings["e_sn"],
-            "e_we": user_settings["e_we"],
-            "i_parent_start": user_settings["i_parent_start"],
-            "j_parent_start": user_settings["j_parent_start"],
-            "max_dom": user_settings["domain_num"],
-            "parent_grid_ratio": user_settings["parent_grid_ratio"],
-            "ref_lat": user_settings["ref_lat"],
-            "ref_lon": user_settings["ref_lon"],
-            "truelat1": user_settings["truelat1"],
-            "truelat2": user_settings["truelat2"],
-            "stand_lon": user_settings["stand_lon"],
-            "map_proj": user_settings["map_proj"]
-        }
-
     proj = create_projection(domain_settings)
 
     fig.clear()
-    ax: GeoAxes = fig.add_subplot(1, 1, 1, projection=proj)     # type: ignore
+    ax: GeoAxes = fig.add_subplot(1, 1, 1, projection=proj)  # type: ignore
     ax.coastlines(resolution="50m")
     ax.add_feature(cfeature.OCEAN)
     ax.add_feature(cfeature.LAND)
 
     # set gridline attributes, close the default labels
     grid_line = ax.gridlines(
-        draw_labels=True, dms=True, linestyle=":", linewidth=0.3,
-        x_inline=False, y_inline=False, color='k'
+        draw_labels=True,
+        dms=True,
+        linestyle=":",
+        linewidth=0.3,
+        x_inline=False,
+        y_inline=False,
+        color="k",
+        rotate_labels=None,
+        xformatter=LONGITUDE_FORMATTER,
+        yformatter=LATITUDE_FORMATTER,
     )
 
     # close coordinates labels on the top and right
     grid_line.top_labels = False
     grid_line.right_labels = False
 
-    # align coordinates labels
-    grid_line.rotate_labels = None
-
-    # set label formatter
-    grid_line.xformattter = LONGITUDE_FORMATTER
-    grid_line.yformatter = LATITUDE_FORMATTER
     ax.set_title("Domain Configuration")
 
     # set area range
-    match type(proj):
-
-        case crs.Mercator:
-            # we may need to calculate the range of longitude and latitude
-            ref_lon = domain_settings["ref_lon"]
-            ref_lat = domain_settings["ref_lat"]
-            false_easting, false_northing = _calculate_x_y_offset(domain_settings)
-            _, start_lon = inverse_haversine((ref_lat, ref_lon), false_easting, direction=Direction.WEST, unit=Unit.METERS)
-            _, end_lon = inverse_haversine((ref_lat, ref_lon), false_easting, direction=Direction.EAST, unit=Unit.METERS)
-            start_lat, _ = inverse_haversine((ref_lat, ref_lon), false_northing, direction=Direction.SOUTH, unit=Unit.METERS)
-            end_lat, _ = inverse_haversine((ref_lat, ref_lon), false_northing, direction=Direction.NORTH, unit=Unit.METERS)
-            ax.set_extent([start_lon, end_lon, start_lat, end_lat])
+    if isinstance(proj, crs.Mercator):
+        # we may need to calculate the range of longitude and latitude
+        ref_lon = domain_settings["reference_lon"]
+        ref_lat = domain_settings["reference_lat"]
+        false_easting, false_northing = _calculate_x_y_offset(domain_settings)
+        _, start_lon = inverse_haversine((ref_lat, ref_lon), false_easting, direction=Direction.WEST, unit=Unit.METERS)
+        _, end_lon = inverse_haversine((ref_lat, ref_lon), false_easting, direction=Direction.EAST, unit=Unit.METERS)
+        start_lat, _ = inverse_haversine((ref_lat, ref_lon), false_northing, direction=Direction.SOUTH, unit=Unit.METERS)
+        end_lat, _ = inverse_haversine((ref_lat, ref_lon), false_northing, direction=Direction.NORTH, unit=Unit.METERS)
+        ax.set_extent([start_lon, end_lon, start_lat, end_lat])
 
-        case crs.LambertConformal:
-            false_easting, false_northing = _calculate_x_y_offset(domain_settings)
-            ax.set_extent([0, false_easting * 2, 0, false_northing * 2], crs=proj)
+    elif isinstance(proj, crs.LambertConformal):
+        false_easting, false_northing = _calculate_x_y_offset(domain_settings)
+        ax.set_extent([0, false_easting * 2, 0, false_northing * 2], crs=proj)
 
-        case _:
-            logger.error(f"Unsupported project type: {type(proj)}")
+    else:
+        logger.error(f"Unsupported project type: {type(proj)}")
 
 
 def generate_domain_area():
@@ -254,24 +226,32 @@ def generate_domain_area():
     Generate domain area for each model based on user's config.
     Images are saved to the output directory with name: "${model_name}_domain.png".
 
-    :return:
-    :rtype:
+    :return: True if domain area is ploted, else False.
+    :rtype: bool
     """
-    WRFRUNConfig = get_wrfrun_config()
+    WRFRUNConfig = WRFRUN.config
     save_path = WRFRUNConfig.parse_resource_uri(WRFRUNConfig.WRFRUN_OUTPUT_PATH)
     check_path(save_path)
     save_path = abspath(save_path)
 
     fig = plt.figure(figsize=(10.24, 10.24))
 
+    flag = False
+
     model_configs = WRFRUNConfig["model"]
     for model_name in model_configs:
-        plot_domain_area(fig, model_name=model_name)
+        if model_name in ["wrf"] and model_configs[model_name]["use"]:
+            namelist = model_configs[model_name]
+            plot_domain_area(fig, parse_domain_setting(namelist))
+
+            _save_path = f"{save_path}/{model_name}_domain.png"
+            fig.savefig(_save_path)
+
+            logger.info(f"Save domain image for '{model_name}' to '{_save_path}'")
 
-        _save_path = f"{save_path}/{model_name}_domain.png"
-        fig.savefig(_save_path)
+            flag = True
 
-        logger.info(f"Save domain image for '{model_name}' to '{_save_path}'")
+    return flag
 
 
-__all__ = ["plot_domain_area", "DomainSetting", "create_projection", "parse_domain_setting", "generate_domain_area"]
+__all__ = ["plot_domain_area", "create_projection", "generate_domain_area"]