pin all python versions to 3.11.0

.github/workflows/testmaster.yml

@@ -24,7 +24,7 @@ jobs:
       with:
         activate-environment: pyleo
         environment-file: environment.yml
-        python-version: "3.10"
+        python-version: "3.11.0"
         auto-activate-base: false
 
     - name: Conda list

.travis.yml

@@ -1,6 +1,6 @@
 language: python
 python:
-  - '3.9'
+  - '3.11'
 
 
 before_install:
@@ -15,7 +15,7 @@ before_install:
   - conda info -a
 
 install:
-  - conda create -n pyleoenv python=3.9
+  - conda create -n pyleoenv python=3.11
   - source activate pyleoenv
   - conda install numpy
   - conda install -c conda-forge cartopy

doc_build/conf.py

@@ -104,14 +104,19 @@
 # The full version, including alpha/beta/rc tags.
 release = pyleo.__version__
 
-
+intersphinx_mapping = {'python': ('https://docs.python.org/3', None),
+                       'numpy': ('https://numpy.org/doc/stable', None),
+                       'scipy': ('https://docs.scipy.org/doc/scipy/reference', None),
+                       'pandas': ('https://pandas.pydata.org/pandas-docs/stable', None),
+                       'matplotlib': ('https://matplotlib.org/stable', None)
+                       }
+intersphinx_disabled_reftypes = ["*"]
 
 # The language for content autogenerated by Sphinx. Refer to documentation
 # for a list of supported languages.
 #
 # This is also used if you do content translation via gettext catalogs.
 # Usually you set "language" from the command line for these cases.
-language = None
 
 # There are two options for replacing |today|: either, you set today to some
 # non-false value, then it is used:
@@ -185,7 +190,6 @@
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,
 # so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ['_static']
 
 # Add any extra paths that contain custom files (such as robots.txt or
 # .htaccess) here, relative to this directory. These files are copied

doc_build/rtd_env.yml

@@ -3,14 +3,11 @@ channels:
   - conda-forge
   - defaults
 dependencies:
-  - python=3.11
+  - python=3.11.0
   - ipykernel
   - pip:
+    - pip
     - cartopy
-    - seaborn
-    - matplotlib
-    - numpy
-    - pandas
     - Sphinx<6.0
     - pylint
     - chardet

environment.yml

@@ -3,8 +3,9 @@
 name: pyleo
 channels:
   - default
+  - conda-forge
 dependencies:
-  - python>=3.10
+  - python=3.11.0
   - cartopy
   - numba
   - pyyaml

pyleoclim/utils/causality.py

@@ -115,24 +115,22 @@ def liang_causality(y1, y2, npt=1, signif_test='isospec', nsim=1000,
     Returns
     -------
     res : dict
-
         A dictionary of results including:
-
-            - T21 : float
-                information flow from y2 to y1 (Note: not y1 -> y2!)
-            - tau21 : float
-                the standardized information flow from y2 to y1
-            - Z : float
-                the total information flow from y2 to y1
-            - dH1_star : float
-                dH*/dt (Liang, 2016)
-            - dH1_noise : float
-            - signif_qs : 
-                the quantiles for significance test
-            - T21_noise : list
-                the quantiles of the information flow from noise2 to noise1 for significance testing
-            - tau21_noise : list
-                the quantiles of the standardized information flow from noise2 to noise1 for significance testing
+        - T21 : float
+            information flow from y2 to y1 (Note: not y1 -> y2!)
+        - tau21 : float
+            the standardized information flow from y2 to y1
+        - Z : float
+            the total information flow from y2 to y1
+        - dH1_star : float
+            dH*/dt (Liang, 2016)
+        - dH1_noise : float
+        - signif_qs :
+            the quantiles for significance test
+        - T21_noise : list
+            the quantiles of the information flow from noise2 to noise1 for significance testing
+        - tau21_noise : list
+            the quantiles of the standardized information flow from noise2 to noise1 for significance testing
 
     See also
     --------
@@ -262,18 +260,13 @@ def liang(y1, y2, npt=1):
     Returns
     -------
     res : dict
-
         A dictionary of results including:
 
-            - T21 : float
-                information flow from y2 to y1 (Note: not y1 -> y2!)
-            - tau21 : float
-                the standardized information flow from y2 to y1
-            - Z : float
-                the total information flow from y2 to y1
-            - dH1_star : float
-                dH*/dt (Liang, 2016)
-            - dH1_noise : float
+            - T21 (float): information flow from y2 to y1 (Note: not y1 -> y2!)
+            - tau21 (float): the standardized information flow from y2 to y1
+            - Z (float): the total information flow from y2 to y1
+            - dH1_star (float): dH*/dt (Liang, 2016)
+            - dH1_noise (float)
 
     See also
     --------
@@ -464,9 +457,7 @@ def signif_isospec(y1, y2, method,
     Returns
     -------
     res_dict : dict
-
         A dictionary with the following information:
-
           - T21_noise_qs : list
                         the quantiles of the information flow from noise2 to noise1 for significance testing
           - tau21_noise_qs : list

setup.py

@@ -45,5 +45,5 @@ def read(fname):
         "beautifulsoup4", 
         "scipy", 
     ],
-    python_requires=">=3.9.0"
+    python_requires=">=3.9",
 )