v1.1.4.3 (#825)

## Description This is the commit for the version 1.1.4.3. This fixed a few issues related to the maintenance of the package. The critical changes include - migration to cmdstanpy as PyStan is deprecated - upgrade of dependencies - upgrade unit test to support Python >= 3.9 - related notebook tutorials update ## Type of change - [x] Bug fix - [ ] New feature - [ ] Breaking change - [x] This change requires a documentation update - [ ] Backend change such as github actions, travisCI etc. ## How Has This Been Tested? Passed all existing unit tests should be enough
uber · Jan 10, 2024 · b462441 · b462441
1 parent b96d778
commit b462441
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Showing 40 changed files with 2,465 additions and 2,980 deletions.
diff --git a/.github/workflows/build.yaml b/.github/workflows/build.yaml
@@ -26,7 +26,6 @@ jobs:
             pip install -U pip
             pip install -U setuptools
             pip install -r requirements.txt
-            pip install -r requirements-test.txt
-            python setup.py develop
+            python -m pip install -U --editable ".[dev]"
       - name: Test with pytest
-        run: pytest -vs tests/ --cov orbit/
+        run:  python -m pytest tests/
diff --git a/MANIFEST.in b/MANIFEST.in
@@ -1,18 +1,12 @@
 include LICENSE
 include README.md
+include pyproject.toml
 include *.txt
 include requirements.txt
 include requirements-test.txt
 include orbit/stan/*.stan
 include orbit/stylelib/*.mplstyle
 
-prune orbit/stan_compiled
-prune orbit/stan/dlt
-prune orbit/stan/ets
-prune orbit/stan/ktrlite
-prune orbit/stan/lgt
-prune orbit/stan/*.hpp
-
 recursive-include tests *
 recursive-exclude * __pycache__
 recursive-exclude * *.py[co]

diff --git a/docs/tutorials/backtest.ipynb b/docs/tutorials/backtest.ipynb
diff --git a/docs/tutorials/build_your_own_model.ipynb b/docs/tutorials/build_your_own_model.ipynb
diff --git a/docs/tutorials/decompose_prediction.ipynb b/docs/tutorials/decompose_prediction.ipynb
diff --git a/docs/tutorials/dlt.ipynb b/docs/tutorials/dlt.ipynb
diff --git a/docs/tutorials/ets_lgt_dlt_missing_response.ipynb b/docs/tutorials/ets_lgt_dlt_missing_response.ipynb
diff --git a/docs/tutorials/exploratory_data_analysis.ipynb b/docs/tutorials/exploratory_data_analysis.ipynb
diff --git a/docs/tutorials/ktr1.ipynb b/docs/tutorials/ktr1.ipynb
diff --git a/docs/tutorials/ktr2.ipynb b/docs/tutorials/ktr2.ipynb
diff --git a/docs/tutorials/ktr3.ipynb b/docs/tutorials/ktr3.ipynb
diff --git a/docs/tutorials/ktr4.ipynb b/docs/tutorials/ktr4.ipynb
diff --git a/docs/tutorials/lgt.ipynb b/docs/tutorials/lgt.ipynb
diff --git a/docs/tutorials/model_diagnostics.ipynb b/docs/tutorials/model_diagnostics.ipynb
diff --git a/docs/tutorials/model_estimations_predictions.ipynb b/docs/tutorials/model_estimations_predictions.ipynb
diff --git a/docs/tutorials/other_utilities.ipynb b/docs/tutorials/other_utilities.ipynb
@@ -119,43 +119,43 @@
        "      <th>0</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-01-31</td>\n",
-       "      <td>-0.588512</td>\n",
+       "      <td>1.496830</td>\n",
        "    </tr>\n",
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        "      <td>x0</td>\n",
        "      <td>2020-02-29</td>\n",
-       "      <td>1.547821</td>\n",
+       "      <td>0.737249</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>2</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-03-31</td>\n",
-       "      <td>1.114709</td>\n",
+       "      <td>-1.071827</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>3</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-04-30</td>\n",
-       "      <td>1.410516</td>\n",
+       "      <td>0.277513</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>4</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-05-31</td>\n",
-       "      <td>-0.699229</td>\n",
+       "      <td>-0.768590</td>\n",
        "    </tr>\n",
        "  </tbody>\n",
        "</table>\n",
        "</div>"
       ],
       "text/plain": [
        "  key         dt         x\n",
-       "0  x0 2020-01-31 -0.588512\n",
-       "1  x0 2020-02-29  1.547821\n",
-       "2  x0 2020-03-31  1.114709\n",
-       "3  x0 2020-04-30  1.410516\n",
-       "4  x0 2020-05-31 -0.699229"
+       "0  x0 2020-01-31  1.496830\n",
+       "1  x0 2020-02-29  0.737249\n",
+       "2  x0 2020-03-31 -1.071827\n",
+       "3  x0 2020-04-30  0.277513\n",
+       "4  x0 2020-05-31 -0.768590"
       ]
      },
      "execution_count": 3,
@@ -234,43 +234,43 @@
        "      <th>0</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-01-31</td>\n",
-       "      <td>-0.588512</td>\n",
+       "      <td>1.496830</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>1</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-02-29</td>\n",
-       "      <td>1.547821</td>\n",
+       "      <td>0.737249</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>2</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-03-31</td>\n",
-       "      <td>1.114709</td>\n",
+       "      <td>-1.071827</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>3</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-04-30</td>\n",
-       "      <td>1.410516</td>\n",
+       "      <td>0.277513</td>\n",
        "    </tr>\n",
        "    <tr>\n",
        "      <th>4</th>\n",
        "      <td>x0</td>\n",
        "      <td>2020-05-31</td>\n",
-       "      <td>-0.699229</td>\n",
+       "      <td>-0.768590</td>\n",
        "    </tr>\n",
        "  </tbody>\n",
        "</table>\n",
        "</div>"
       ],
       "text/plain": [
        "  key         dt         x\n",
-       "0  x0 2020-01-31 -0.588512\n",
-       "1  x0 2020-02-29  1.547821\n",
-       "2  x0 2020-03-31  1.114709\n",
-       "3  x0 2020-04-30  1.410516\n",
-       "4  x0 2020-05-31 -0.699229"
+       "0  x0 2020-01-31  1.496830\n",
+       "1  x0 2020-02-29  0.737249\n",
+       "2  x0 2020-03-31 -1.071827\n",
+       "3  x0 2020-04-30  0.277513\n",
+       "4  x0 2020-05-31 -0.768590"
       ]
      },
      "execution_count": 4,
@@ -505,9 +505,9 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "orbit39-cmdstan",
+   "display_name": "orbit39",
    "language": "python",
-   "name": "orbit39-cmdstan"
+   "name": "orbit39"
   },
   "language_info": {
    "codemirror_mode": {
@@ -519,7 +519,7 @@
    "name": "python",
    "nbconvert_exporter": "python",
    "pygments_lexer": "ipython3",
-   "version": "3.9.15"
+   "version": "3.9.18"
   }
  },
  "nbformat": 4,

diff --git a/docs/tutorials/pyro_basic.ipynb b/docs/tutorials/pyro_basic.ipynb
diff --git a/docs/tutorials/quick_start.ipynb b/docs/tutorials/quick_start.ipynb
diff --git a/docs/tutorials/regression_penalty.ipynb b/docs/tutorials/regression_penalty.ipynb
diff --git a/docs/tutorials/regression_prior.ipynb b/docs/tutorials/regression_prior.ipynb
diff --git a/docs/tutorials/residual_diagnostic.ipynb b/docs/tutorials/residual_diagnostic.ipynb