ECOv003-L2T-STARS 1.0.0__py3-none-any.whl → 1.1.0__py3-none-any.whl

ECOv003_L2T_STARS/retrieve_STARS_sources.py

@@ -0,0 +1,101 @@
+from datetime import date
+import logging
+
+from dateutil.rrule import rrule, DAILY
+
+from rasters import RasterGeometry
+
+import colored_logging as cl
+
+from harmonized_landsat_sentinel import HLS2CMR
+
+from harmonized_landsat_sentinel import (
+    HLSTileNotAvailable,
+    HLSSentinelNotAvailable,
+    HLSLandsatNotAvailable,
+    HLSDownloadFailed,
+    HLSNotAvailable,
+)
+
+from ECOv003_exit_codes import *
+
+from .daterange import get_date
+from .VNP43NRT import VNP43NRT
+
+logger = logging.getLogger(__name__)
+
+def retrieve_STARS_sources(
+    tile: str,
+    geometry: RasterGeometry,
+    HLS_start_date: date,
+    HLS_end_date: date,
+    VIIRS_start_date: date,
+    VIIRS_end_date: date,
+    HLS_connection: HLS2CMR,
+    VIIRS_connection: VNP43NRT,  # Using VNP43NRT as a representative VIIRS connection
+):
+    """
+    Retrieves necessary Harmonized Landsat Sentinel (HLS) and VIIRS source data.
+
+    This function downloads HLS Sentinel and Landsat data, and prefetches VIIRS VNP09GA
+    data for the specified tile and date ranges. It includes error handling for
+    download failures and data unavailability.
+
+    Args:
+        tile (str): The HLS tile ID.
+        geometry (RasterGeometry): The spatial geometry of the area of interest.
+        HLS_start_date (date): The start date for HLS data retrieval.
+        HLS_end_date (date): The end date for HLS data retrieval.
+        VIIRS_start_date (date): The start date for VIIRS data retrieval.
+        VIIRS_end_date (date): The end date for VIIRS data retrieval.
+        HLS_connection (HLS2CMR): An initialized HLS data connection object.
+        VIIRS_connection (VNP43NRT): An initialized VIIRS data connection object
+                                      (can be VNP43NRT, VNP43IA4, or VNP43MA3).
+
+    Raises:
+        DownloadFailed: If an HLS download fails.
+        AuxiliaryLatency: If HLS data for a given tile/date is not available (latency issue).
+    """
+    logger.info(
+        f"Retrieving HLS sources for tile {cl.place(tile)} from {cl.time(HLS_start_date)} to {cl.time(HLS_end_date)}"
+    )
+    # Iterate through each day in the HLS date range to retrieve Sentinel and Landsat data
+    for processing_date in [
+        get_date(dt) for dt in rrule(DAILY, dtstart=HLS_start_date, until=HLS_end_date)
+    ]:
+        try:
+            logger.info(
+                f"Retrieving HLS Sentinel at tile {cl.place(tile)} on date {cl.time(processing_date)}"
+            )
+            # Attempt to download HLS Sentinel data
+            HLS_connection.sentinel(tile=tile, date_UTC=processing_date)
+            logger.info(
+                f"Retrieving HLS Landsat at tile {cl.place(tile)} on date {cl.time(processing_date)}"
+            )
+            # Attempt to download HLS Landsat data
+            HLS_connection.landsat(tile=tile, date_UTC=processing_date)
+        except HLSDownloadFailed as e:
+            logger.exception(e)
+            raise AuxiliaryDownloadFailed(e)
+        except (
+            HLSTileNotAvailable,
+            HLSSentinelNotAvailable,
+            HLSLandsatNotAvailable,
+        ) as e:
+            # Log warnings for data not being available, but continue processing
+            logger.warning(e)
+        except Exception as e:
+            # Catch other unexpected exceptions during HLS retrieval
+            logger.warning("Exception raised while retrieving HLS tiles")
+            logger.exception(e)
+            continue  # Continue to the next date even if one HLS retrieval fails
+
+    logger.info(
+        f"Retrieving VIIRS sources for tile {cl.place(tile)} from {cl.time(VIIRS_start_date)} to {cl.time(VIIRS_end_date)}"
+    )
+    # Prefetch VNP09GA data for the specified VIIRS date range and geometry
+    VIIRS_connection.prefetch_VNP09GA(
+        start_date=VIIRS_start_date,
+        end_date=VIIRS_end_date,
+        geometry=geometry,
+    )

ECOv003_L2T_STARS/runconfig.py

@@ -0,0 +1,70 @@
+import logging
+from os.path import exists
+
+import untangle
+
+from ECOv003_exit_codes import *
+
+logger = logging.getLogger(__name__)
+
+__author__ = 'Gregory Halverson'
+
+
+def parse_scalar(scalar):
+    return scalar.cdata
+
+
+def parse_vector(vector):
+    data = [
+        element.cdata
+        for element
+        in vector.children
+    ]
+
+    return data
+
+
+def parse_group(group):
+    result = {}
+
+    if hasattr(group, 'scalar'):
+        for element in group.scalar:
+            result[element['name']] = parse_scalar(element)
+
+    if hasattr(group, 'vector'):
+        for element in group.vector:
+            result[element['name']] = parse_vector(element)
+
+    if hasattr(group, 'group'):
+        for element in group.group:
+            result[element['name']] = parse_group(element)
+
+    return result
+
+
+def parse_runconfig(text: str) -> dict:
+    tree = untangle.parse(text)
+    config = parse_group(tree.input)
+
+    return config
+
+
+def read_runconfig(filename: str) -> dict:
+    if not exists(filename):
+        raise UnableToOpenRunConfig(f"run-config file does not exist: {filename}")
+
+    try:
+        tree = untangle.parse(filename)
+        config = parse_group(tree.input)
+    except ECOSTRESSExitCodeException as e:
+        raise e
+    except Exception as e:
+        logger.exception(e)
+        raise UnableToParseRunConfig(f"unable to parse run-config file: {filename}")
+
+    return config
+
+
+class ECOSTRESSRunConfig:
+    def read_runconfig(self, filename: str) -> dict:
+        return read_runconfig(filename)

ECOv003_L2T_STARS/timer/__init__.py

@@ -0,0 +1 @@
+from .timer import *

ECOv003_L2T_STARS/timer/timer.py

@@ -0,0 +1,77 @@
+"""
+This is a minimalistic performance timer.
+"""
+import time
+
+__author__ = "Gregory Halverson"
+
+DEFAULT_FORMAT = "0.2f"
+
+class Timer(object):
+    """
+    This is a minimalistic performance timer.
+    """
+
+    def __init__(self):
+        self._start_time = None
+        self._end_time = None
+        self.start()
+
+    def __enter__(self, *args, **kwargs):
+        self.start()
+        return self
+
+    def __exit__(self, *args, **kwargs):
+        self.end()
+
+    def __repr__(self):
+        # print("Timer.__repr__")
+        return self.__format__(format_string=DEFAULT_FORMAT)
+
+    def __str__(self):
+        # print("Timer.__str__")
+        return self.__repr__()
+
+    def __format__(self, format_string=DEFAULT_FORMAT):
+        if format_string is None or format_string == "":
+            format_string = DEFAULT_FORMAT
+
+        return format(self.duration, format_string)
+
+    @property
+    def now(self):
+        # return datetime.now()
+        return time.perf_counter()
+
+    def start(self):
+        self._start_time = self.now
+
+        return self.start_time
+
+    @property
+    def start_time(self):
+        return self._start_time
+
+    def end(self):
+        self._end_time = self.now
+
+        return self.end_time
+
+    @property
+    def end_time(self):
+        return self._end_time
+
+    @property
+    def duration(self):
+        if self.start_time is None:
+            raise Exception("timer never started")
+
+        if self.end_time is None:
+            end_time = self.now
+        else:
+            end_time = self.end_time
+
+        duration = end_time - self.start_time
+
+        return duration
+

ECOv003_L2T_STARS/version.py

@@ -0,0 +1,8 @@
+from os.path import join, abspath, dirname
+
+# Read the version from a version.txt file located in the same directory as this script.
+with open(join(abspath(dirname(__file__)), "version.txt")) as f:
+    version = f.read().strip()  # .strip() to remove any leading/trailing whitespace
+
+__version__ = version
+__author__ = "Gregory H. Halverson, Evan Davis"

ECOv003_L2T_STARS/version.txt

@@ -0,0 +1 @@
+1.1.0

{ECOv003_L2T_STARS-1.0.0.dist-info → ecov003_l2t_stars-1.1.0.dist-info}/METADATA

@@ -1,49 +1,43 @@
-Metadata-Version: 2.1
+Metadata-Version: 2.4
 Name: ECOv003_L2T_STARS
-Version: 1.0.0
+Version: 1.1.0
 Summary: ECOSTRESS Collection 3 JPL STARS Data Fusion Product Generating Executable (PGE)
 Author-email: "Gregory H. Halverson" <gregory.h.halverson@jpl.nasa.gov>
 Project-URL: Homepage, https://github.com/ECOSTRESS-Collection-3/ECOv003-L2T-STARS
 Classifier: Programming Language :: Python :: 3
 Classifier: Operating System :: OS Independent
-Requires-Python: >=3.11
+Requires-Python: >=3.10
 Description-Content-Type: text/markdown
 License-File: LICENSE
 Requires-Dist: colored-logging
+Requires-Dist: ECOv002-CMR>=1.0.4
 Requires-Dist: ECOv002-granules
-Requires-Dist: ECOv002-CMR
-Requires-Dist: pandas
-Requires-Dist: pillow
-Requires-Dist: geopandas
-Requires-Dist: geos5fp
-Requires-Dist: harmonized-landsat-sentinel>=1.1.0
+Requires-Dist: ECOv003-granules
+Requires-Dist: ECOv003-exit-codes>=1.1.0
+Requires-Dist: GEOS5FP
 Requires-Dist: h5py
+Requires-Dist: harmonized-landsat-sentinel>=1.1.0
 Requires-Dist: matplotlib
 Requires-Dist: modland
-Requires-Dist: msgpack
-Requires-Dist: msgpack-numpy
-Requires-Dist: netCDF4
 Requires-Dist: numpy
-Requires-Dist: pyproj
-Requires-Dist: rasterio
-Requires-Dist: shapely
-Requires-Dist: scikit-image
-Requires-Dist: affine
-Requires-Dist: astropy
+Requires-Dist: pandas
 Requires-Dist: pycksum
-Requires-Dist: pykdtree
-Requires-Dist: pyresample
+Requires-Dist: pytictoc
 Requires-Dist: rasters
-Requires-Dist: scikit-learn
+Requires-Dist: scikit-image
 Requires-Dist: scipy
 Requires-Dist: sentinel-tiles
-Requires-Dist: six
-Requires-Dist: tensorflow
+Requires-Dist: shapely
 Requires-Dist: untangle
 Requires-Dist: xmltodict
 Provides-Extra: dev
+Requires-Dist: build; extra == "dev"
 Requires-Dist: pytest>=6.0; extra == "dev"
 Requires-Dist: pytest-cov; extra == "dev"
+Requires-Dist: jupyter; extra == "dev"
+Requires-Dist: pytest; extra == "dev"
+Requires-Dist: twine; extra == "dev"
+Dynamic: license-file
 
 # ECOSTRESS Collection 3 Level 2 STARS Vegetation Index & Albedo
 
@@ -242,6 +236,19 @@ Import this package with the name `ECOv003_L2T_STARS` with underscores:
 import ECOv003_L2T_STARS
 ```
 
+### Command Line Usage
+
+#### Command-Line Entry-Point for the `ECOv003-L2T-STARS` Product Generating Executable
+
+```bash
+ECOv003-L2T-STARS <runconfig> [--date YYYY-MM-DD] [--spinup-days DAYS] [--target-resolution METERS] [--ndvi-resolution METERS] [--albedo-resolution METERS] [--use-vnp43nrt | --no-vnp43nrt] [--calibrate-fine] [--sources-only] [--no-remove-input-staging] [--no-remove-prior] [--no-remove-posterior] [--threads COUNT] [--num-workers COUNT] [--version]
+```
+
+#### Command-Line Entry-Point for the `ECOv003-DL` Product Generating Executable
+
+```
+ECOv003_DL <runconfig_filename> [--tiles TILE_ID [TILE_ID ...]] [--version]
+```
 
 ## References
 

ecov003_l2t_stars-1.1.0.dist-info/RECORD

@@ -0,0 +1,73 @@
+ECOv003_L2T_STARS/ECOv003_DL.py,sha256=mqdyc6bx6i7ApbwWIvzdGKNrKAUepKjI2haiokLSS0U,24590
+ECOv003_L2T_STARS/ECOv003_DL.xml,sha256=MwzGr_CjcBboWJ5L7GZMtf36yubrsVmUkOnuiFdH2To,2032
+ECOv003_L2T_STARS/ECOv003_L2T_STARS.py,sha256=fiOAJZPvlk6gz8R57krzTsySWGnxbvssoaC7xfSNCqE,5521
+ECOv003_L2T_STARS/ECOv003_L2T_STARS.xml,sha256=a6FZF_FhcmlMT9nedNJaDARtQJI8I_qXhf7ScFphVyU,2084
+ECOv003_L2T_STARS/L2TSTARSConfig.py,sha256=nn4EzKvWYYMgJQPuJHFZoWtVUrP-PF3IY_e7I0BYT8E,8756
+ECOv003_L2T_STARS/L2T_STARS.py,sha256=zlOCPP2Gs9FmgXqEzvhCqWh6KPi_3LbnVNjz_TMRrxw,24429
+ECOv003_L2T_STARS/Manifest.toml,sha256=k6dzN8jpePGBIPqTkKFsYDv5ezV3DgO4ChHss_cI524,84043
+ECOv003_L2T_STARS/Project.toml,sha256=Ywo_YsreqwgpbuNP3NWMsXw3VY2m8NTUrBwKCyBUbuM,657
+ECOv003_L2T_STARS/__init__.py,sha256=C-Ut4I9wJrxVgLjpktu50trMuQNd73wS_gPJNxhp9UM,104
+ECOv003_L2T_STARS/calibrate_fine_to_coarse.py,sha256=2YQHo0hO5EuvGt6TOF_1WypiqNDAR5gjvs0cYe9F_vQ,2345
+ECOv003_L2T_STARS/constants.py,sha256=5-cxFiiq_zDKIvkK8Bi2iVVzST-15ytdu4QAvlLz_OY,1996
+ECOv003_L2T_STARS/generate_L2T_STARS_runconfig.py,sha256=vaNooGrq3pahcabd8LIHzoncJe3Eh0L1mJeaQRC2Kwg,11122
+ECOv003_L2T_STARS/generate_NDVI_coarse_directory.py,sha256=i1pFHFyMuj2e6aQ2wTgrF2-rAQXWe8LE2mbCRksj3c8,590
+ECOv003_L2T_STARS/generate_NDVI_coarse_image.py,sha256=9XBBV1FFqjxkEFnr61xr9R2tnHQAlx2XN9KzLN8RApc,1215
+ECOv003_L2T_STARS/generate_NDVI_fine_directory.py,sha256=rCYfGd_X1fLYsOfl9LtfS3E57FLDa-a_8G46ToQFM2U,531
+ECOv003_L2T_STARS/generate_NDVI_fine_image.py,sha256=V-v2slDYEYf1scJCvxb3tZ6IvdpJTHuDPg6l_gNaoQI,911
+ECOv003_L2T_STARS/generate_STARS_inputs.py,sha256=aNau4pPDYzfgYfkFUpOVO5oJ0kqnqXm8wIS7QTpQ0JQ,10580
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+ECOv003_L2T_STARS/generate_albedo_fine_directory.py,sha256=0PaoccD0ktwzoUUMEd3zDWAP4Ed6nfyLRMUGaqHDrCA,554
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+ECOv003_L2T_STARS/generate_filename.py,sha256=XppMoRiKBG1Rf-uWu95UCO1klK6uv5GdK9pvg3gDmnk,1359
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+ECOv003_L2T_STARS/generate_output_directory.py,sha256=Dr1zX6ljYzxFgC9XkocYBiF5aMGggHJejtpI9hbLwlM,889
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+ECOv003_L2T_STARS/process_julia_data_fusion.py,sha256=D4zSkihn6EC19009gFD3lXXxiCjsJwTPx0rqE_Wvgyw,5237
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+ECOv003_L2T_STARS/VNP43NRT_jl/src/VNP43NRT.jl,sha256=1sPyRKroycyGhj4vt4_KtrBdBB8As8znGEsMJLixA24,14019
+ECOv003_L2T_STARS/VNP43NRT_jl/src/__init__.py,sha256=47DEQpj8HBSa-_TImW-5JCeuQeRkm5NMpJWZG3hSuFU,0
+ECOv003_L2T_STARS/daterange/__init__.py,sha256=54kYb9tmsm5twxMqjJKeD__5kGkNDz3PppBEfReTfdo,25
+ECOv003_L2T_STARS/daterange/daterange.py,sha256=EHa2Xt9fiJ1gbX7aa_QV_br1rAXjg3pHrLSRasOsOhM,959
+ECOv003_L2T_STARS/timer/__init__.py,sha256=I_MQKp_aamBLUzZv0psEbRgs6GZLOJd4mmJ7bli0Ikc,21
+ECOv003_L2T_STARS/timer/timer.py,sha256=tn5e3NQmsh55Jp9Fstjf-8KJW4F8UIJs-d_ZLooFYE8,1610
+ecov003_l2t_stars-1.1.0.dist-info/licenses/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
+ecov003_l2t_stars-1.1.0.dist-info/METADATA,sha256=kMinO-30nE5AwzcXmQV_fzeQB-PKlujczuIFgrYvxpk,13306
+ecov003_l2t_stars-1.1.0.dist-info/WHEEL,sha256=_zCd3N1l69ArxyTb8rzEoP9TpbYXkqRFSNOD5OuxnTs,91
+ecov003_l2t_stars-1.1.0.dist-info/entry_points.txt,sha256=NuUuom7EwWtbe3ljZ6KxNbSheTFRnHVNT9rd16tuv0E,119
+ecov003_l2t_stars-1.1.0.dist-info/top_level.txt,sha256=lRivA5MjbrabH4sv-LUstMGaLZ865wRQPpz9Kh6-plg,18
+ecov003_l2t_stars-1.1.0.dist-info/RECORD,,

{ECOv003_L2T_STARS-1.0.0.dist-info → ecov003_l2t_stars-1.1.0.dist-info}/WHEEL

@@ -1,5 +1,5 @@
 Wheel-Version: 1.0
-Generator: setuptools (75.4.0)
+Generator: setuptools (80.9.0)
 Root-Is-Purelib: true
 Tag: py3-none-any
 

ecov003_l2t_stars-1.1.0.dist-info/entry_points.txt

@@ -0,0 +1,3 @@
+[console_scripts]
+ECOv003-DL = ECOv003_DL.ECOv003_DL:main
+ECOv003-L2T-STARS = ECOv003_L2T_STARS.ECOv003_L2T_STARS:main

ecov003_l2t_stars-1.1.0.dist-info/top_level.txt

@@ -0,0 +1 @@
+ECOv003_L2T_STARS

ECOv003_L2T_STARS-1.0.0.dist-info/RECORD

@@ -1,5 +0,0 @@
-ECOv003_L2T_STARS-1.0.0.dist-info/LICENSE,sha256=xx0jnfkXJvxRnG63LTGOxlggYnIysveWIZ6H3PNdCrQ,11357
-ECOv003_L2T_STARS-1.0.0.dist-info/METADATA,sha256=CPg_xIBBTlCsj6GPjNKkFwxEw17WhkYk27hzxFB-pT4,12724
-ECOv003_L2T_STARS-1.0.0.dist-info/WHEEL,sha256=a7TGlA-5DaHMRrarXjVbQagU3Man_dCnGIWMJr5kRWo,91
-ECOv003_L2T_STARS-1.0.0.dist-info/top_level.txt,sha256=AbpHGcgLb-kRsJGnwFEktk7uzpZOCcBY74-YBdrKVGs,1
-ECOv003_L2T_STARS-1.0.0.dist-info/RECORD,,

ECOv003_L2T_STARS-1.0.0.dist-info/top_level.txt

@@ -1 +0,0 @@
-