ecoscape-utilities 0.0.31__tar.gz → 0.0.33__tar.gz

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/LICENSE.md

@@ -1,4 +1,4 @@
-Copyright 2023, Anonymous Authors.  
+Copyright 2023, The Regents of the University of California. 
 
 Redistribution and use in source and binary forms, with or without modification, 
 are permitted provided that the following conditions are met:

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/PKG-INFO

@@ -1,7 +1,10 @@
 Metadata-Version: 2.4
 Name: ecoscape-utilities
-Version: 0.0.31
+Version: 0.0.33
 Summary: A collection of EcoScape utilities.
+Author-email: Luca de Alfaro <luca@ucsc.edu>, Coen Adler <ctadler@ucsc.edu>, Artie Nazarov <anazarov@ucsc.edu>, Natalia Ocampo-Peñuela <nocampop@ucsc.edu>, Jasmine Tai <cjtai@ucsc.edu>, Natalie Valett <nvalett@ucsc.edu>
+Project-URL: Homepage, https://github.com/ecoscape-earth/ecoscape-utilities
+Project-URL: Bug Tracker, https://github.com/ecoscape-earth/ecoscape-utilities/issues
 Classifier: Programming Language :: Python :: 3
 Classifier: License :: OSI Approved :: BSD License
 Classifier: Operating System :: OS Independent
@@ -22,3 +25,12 @@ These are not packages distributed with pip.  To install on Colab, simply do:
 
     !pip install git+https://github.com/ecoscape-earth/ecoscape-utilities.git
 
+## Authors
+
+* Luca de Alfaro (luca@ucsc.edu)
+* Natalia Ocampo-Peñuela (nocampop@ucsc.edu)
+* Coen Adler (ctadler@ucsc.edu)
+* Artie Nazarov (anazarov@ucsc.edu)
+* Natalie Valett (nvalett@ucsc.edu)
+* Jasmine Tai (cjtai@ucsc.edu)
+

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/README.md

@@ -6,3 +6,12 @@ These are not packages distributed with pip.  To install on Colab, simply do:
 
     !pip install git+https://github.com/ecoscape-earth/ecoscape-utilities.git
 
+## Authors
+
+* Luca de Alfaro (luca@ucsc.edu)
+* Natalia Ocampo-Peñuela (nocampop@ucsc.edu)
+* Coen Adler (ctadler@ucsc.edu)
+* Artie Nazarov (anazarov@ucsc.edu)
+* Natalie Valett (nvalett@ucsc.edu)
+* Jasmine Tai (cjtai@ucsc.edu)
+

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/ecoscape_utilities/ebird_db.py

@@ -486,42 +486,12 @@ A module for common functionality in the validaiton process using ebird data
 """
 class Validation(object):
 
-    def __init__(self, obs_fn, geotiff_fn):
+    def __init__(self, obs_fn):
         """
         Generates a class for validation.
-        It first tries to read the cached version of obs_fn for the specified geotiff_fn.
-        If the cached version is not found, it is created.
-        The cached version contains pre-translated coordinates to pixel values.
         :param obs_fn: Observations filename.
-        :param geotiff_fn: name of a geotiff (habitat is preferred) used
-            for translating coordinates to pixel coordinates.
         """
         self.obs_fn = obs_fn
-        self.geotiff_fn = geotiff_fn
-        h = hashlib.sha1(obs_fn.encode('utf-8'))
-        h.update(geotiff_fn.encode('utf-8'))
-        cached_fn = obs_fn + "." + h.hexdigest() + ".csv"
-        if not os.path.exists(cached_fn):
-            self._create_cached_observations(cached_fn)
-        self.observations = pd.read_csv(cached_fn)
-
-
-    def _create_cached_observations(self, cached_fn):
-        """Creates a cached version of the observations that also contains
-        pixel coordinates."""
-        geotiff = GeoTiff.from_file(self.geotiff_fn)
-        def f(row):
-            square = row["Square"]
-            if (isinstance(square, str)):
-                coords = format_coords(square)
-            else:
-                coords = square
-            lat, lng = coords
-            pix_x, pix_y = transform_coords(geotiff, coords)
-            return lat, lng, pix_x, pix_y
-        df = pd.read_csv(self.obs_fn)
-        df["lat"], df["lng"], df["pix_x"], df["pix_y"] = zip(*df.apply(f, axis=1))
-        df.to_csv(cached_fn)
 
 
     def filter_CA_rectangle(self, observation_ratios, bigsquare=False):
@@ -602,9 +572,10 @@ class Validation(object):
             else:
                 coords = square
             lat, lng = coords
-            coords = transform_coords(repop_tif, coords)
-            repop_tile = repop_tif.get_tile_from_coord(coords, tile_scale=tile_scale)
-            hab_tile = hab.get_tile_from_coord(hab, coords, tile_scale=tile_scale)
+            repop_pix_coords = transform_coords(repop_tif, coords)
+            hab_pix_coords = transform_coords(hab, coords)
+            repop_tile = repop_tif.get_tile_from_coord(repop_pix_coords, tile_scale=tile_scale)
+            hab_tile = hab.get_tile_from_coord(hab_pix_coords, tile_scale=tile_scale)
             if repop_tile is None or hab_tile is None:
                 continue
             x, y = repop_tif.get_pixel_from_coord(coords)
@@ -638,9 +609,15 @@ class Validation(object):
         """
         df = self.observations.copy()
         def f(row):
-            coords = (row["pix_x"], row["pix_y"])
-            repop_tile = repop_tif.get_tile_from_coord(coords, tile_scale=tile_scale)
-            hab_tile = hab_tif.get_tile_from_coord(coords, tile_scale=tile_scale)
+            square = row["Square"]
+            if (isinstance(square, str)):
+                coords = format_coords(square)
+            else:
+                coords = square
+            repop_pix_coords = transform_coords(repop_tif, coords)
+            hab_pix_coords = transform_coords(hab_tif, coords)
+            repop_tile = repop_tif.get_tile_from_coord(repop_pix_coords, tile_scale=tile_scale)
+            hab_tile = hab_tif.get_tile_from_coord(hab_pix_coords, tile_scale=tile_scale)
             if repop_tile is None or hab_tile is None:
                 return pd.NA, pd.NA, pd.NA, pd.NA
             avg_repop = np.average(repop_tile.m)

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/ecoscape_utilities.egg-info/PKG-INFO

@@ -1,7 +1,10 @@
 Metadata-Version: 2.4
 Name: ecoscape-utilities
-Version: 0.0.31
+Version: 0.0.33
 Summary: A collection of EcoScape utilities.
+Author-email: Luca de Alfaro <luca@ucsc.edu>, Coen Adler <ctadler@ucsc.edu>, Artie Nazarov <anazarov@ucsc.edu>, Natalia Ocampo-Peñuela <nocampop@ucsc.edu>, Jasmine Tai <cjtai@ucsc.edu>, Natalie Valett <nvalett@ucsc.edu>
+Project-URL: Homepage, https://github.com/ecoscape-earth/ecoscape-utilities
+Project-URL: Bug Tracker, https://github.com/ecoscape-earth/ecoscape-utilities/issues
 Classifier: Programming Language :: Python :: 3
 Classifier: License :: OSI Approved :: BSD License
 Classifier: Operating System :: OS Independent
@@ -22,3 +25,12 @@ These are not packages distributed with pip.  To install on Colab, simply do:
 
     !pip install git+https://github.com/ecoscape-earth/ecoscape-utilities.git
 
+## Authors
+
+* Luca de Alfaro (luca@ucsc.edu)
+* Natalia Ocampo-Peñuela (nocampop@ucsc.edu)
+* Coen Adler (ctadler@ucsc.edu)
+* Artie Nazarov (anazarov@ucsc.edu)
+* Natalie Valett (nvalett@ucsc.edu)
+* Jasmine Tai (cjtai@ucsc.edu)
+

{ecoscape_utilities-0.0.31 → ecoscape_utilities-0.0.33}/pyproject.toml

@@ -4,8 +4,15 @@ build-backend = "setuptools.build_meta"
 
 [project]
 name = "ecoscape-utilities"
-version = "0.0.31"
-authors = []
+version = "0.0.33"
+authors = [
+  {name="Luca de Alfaro", email="luca@ucsc.edu"},
+  {name="Coen Adler", email="ctadler@ucsc.edu"},
+  {name="Artie Nazarov", email="anazarov@ucsc.edu"},
+  {name="Natalia Ocampo-Peñuela", email="nocampop@ucsc.edu"},
+  {name="Jasmine Tai", email="cjtai@ucsc.edu"},
+  {name="Natalie Valett", email="nvalett@ucsc.edu"}
+]
 description = "A collection of EcoScape utilities."
 readme = "README.md"
 requires-python = ">=3.7"
@@ -21,3 +28,8 @@ dependencies = {file = ["requirements.txt"]}
 
 [tool.setuptools]
 packages = ["ecoscape_utilities"]
+
+
+[project.urls]
+"Homepage" = "https://github.com/ecoscape-earth/ecoscape-utilities"
+"Bug Tracker" = "https://github.com/ecoscape-earth/ecoscape-utilities/issues"