upgrade to python 3.9

It's no longer slow to install the package with the latest python
version (3.12) after upgrading the package to python 3.9.

This upgrade also enables the use of quartodoc to generate the API doc.

Author: zargot

docs/manual/install.qmd

@@ -11,7 +11,7 @@ distribution. `python` and `pip` is used below, but they may also be called
 
 ## System dependencies
 
-- Python >= 3.8 (see @sec-python)
+- Python >= 3.9 (see @sec-python)
 - SQLite 3 (see @sec-sqlite)
 
 ## Package
@@ -40,12 +40,12 @@ section.
     cd odm-sharing
     ```
 
-2. if python != 3.8, then install pyenv and setup repo to run python 3.8
+2. if python != 3.9, then install pyenv and setup repo to run python 3.9
 
     ```bash
     sudo apt-get install pyenv
-    pyenv install 3.8
-    pyenv local 3.8
+    pyenv install 3.9
+    pyenv local 3.9
     ```
 
 3. create a virtual env for the repo, using the selected python version
@@ -71,7 +71,7 @@ section.
     source .env/bin/activate
     ```
 
-6. verify that python now has the correct version (3.8)
+6. verify that python now has the correct version (3.9)
 
     ```bash
     python --version

docs/manual/python.qmd

@@ -1,19 +1,10 @@
 # Python {#sec-python}
 
-The recommended version for most users is 3.11.9. A higher version will work
-fine, but cause a very long installation time for packages (like this one)
-which is based on Python 3.8.
-
 ## Install
 
 ### Windows & macOS
 
-The main download page can be found [here](https://www.python.org/downloads/).
-
-Direct download links for version 3.11.9:
-
-- [Windows](https://www.python.org/ftp/python/3.11.9/python-3.11.9-amd64.exe)
-- [macOS](https://www.python.org/ftp/python/3.11.9/python-3.11.9-macos11.pkg)
+Python can be downloaded from [here](https://www.python.org/downloads/).
 
 ### Linux
 

pyproject.toml

@@ -7,7 +7,7 @@ authors = [
 description = "PHES-ODM Sharing Library"
 readme = "README.md"
 license = { file="LICENSE" }
-requires-python = ">=3.8"
+requires-python = ">=3.9"
 classifiers = [
     "Programming Language :: Python :: 3",
     "Operating System :: OS Independent",

requirements-dev.txt

@@ -1,3 +1,3 @@
-pandas-stubs==2.0.3.230814
+pandas-stubs==2.2.2.240603
 sqlalchemy-stubs==0.4
 types-tabulate==0.9.0.20240106

requirements.txt

@@ -1,7 +1,7 @@
-SQLAlchemy==2.0.29
-numpy==1.24.4
-openpyxl==3.1.2
-pandas==2.0.3
+SQLAlchemy==2.0.31
+numpy==2.0.0
+openpyxl==3.1.4
+pandas==2.2.2
 pyfunctional==1.5.0
 tabulate==0.9.0
 typer==0.12.3