diff --git a/.github/workflows/deploy-docs.yaml b/.github/workflows/deploy-docs.yaml index 8472d24..6535692 100644 --- a/.github/workflows/deploy-docs.yaml +++ b/.github/workflows/deploy-docs.yaml @@ -27,6 +27,10 @@ jobs: uses: actions/setup-python@v5 with: python-version: ${{ matrix.python-version }} + - name: Install Pandoc + run: | + sudo apt-get update + sudo apt-get install -y pandoc - name: Run poetry image uses: abatilo/actions-poetry@v3.0.0 with: @@ -34,6 +38,15 @@ jobs: - name: Install dependencies run: | poetry install --with dev + - name: Remove existing nb directory + run: | + if [ -d "docs/source/nb" ]; then + rm -rf docs/source/nb + fi + - name: Copy Notebook to docs + run: | + mkdir -p docs/source/nb + cp -r nb/. docs/source/nb/ - name: Build docs run: | cd docs diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml index bff6c2d..e4f891c 100644 --- a/.pre-commit-config.yaml +++ b/.pre-commit-config.yaml @@ -28,22 +28,6 @@ repos: files: ^\.github/workflows/ types: [yaml] args: ["--schemafile", "https://json.schemastore.org/github-workflow"] - - repo: https://github.com/thclark/pre-commit-sphinx - rev: 0.0.1 - hooks: - - id: build-docs - name: "Check if documentation compiles" - args: - [ - "--cache-dir", - "docs/build/doctrees", - "--html-dir", - "docs/build/html", - "--source-dir", - "docs/source", - ] - language_version: python3 - additional_dependencies: [myst-parser] - repo: https://github.com/Lucas-C/pre-commit-hooks-safety rev: v1.3.3 hooks: diff --git a/README.md b/README.md index 4dd2921..23cb89e 100644 --- a/README.md +++ b/README.md @@ -195,7 +195,7 @@ To learn more about `poetry`, see [Dependency Management With Python Poetry](htt ### Documentation process -Documentation can also be built locally by running +Documentation can also be built locally by ensuring that [pandoc is installed](https://pandoc.org/installing.html), e.g. via `conda install pandoc`, and then running ```bash cd docs && make clean && make html diff --git a/docs/source/conf.py b/docs/source/conf.py index dfe871b..0e79291 100644 --- a/docs/source/conf.py +++ b/docs/source/conf.py @@ -28,6 +28,7 @@ # https://www.sphinx-doc.org/en/master/usage/configuration.html#general-configuration extensions = [ + "nbsphinx", "myst_parser", "sphinx.ext.autodoc", "sphinx.ext.autosummary", # used to generate overview tables @@ -36,6 +37,7 @@ templates_path = ["_templates"] exclude_patterns = [] +nbsphinx_execute = "never" # -- Options for HTML output ------------------------------------------------- diff --git a/docs/source/index.rst b/docs/source/index.rst index 1843a88..98f121f 100644 --- a/docs/source/index.rst +++ b/docs/source/index.rst @@ -22,6 +22,17 @@ pystatis contribute license +.. toctree:: + :maxdepth: 2 + :caption: Notebooks + + nb/00_setup + nb/01_table + nb/02_geo_visualization_int_students_germany + nb/03_find + nb/04_jobs + nb/05_presentation + .. toctree:: :maxdepth: 2 :caption: Modules diff --git a/nb/00_Setup.ipynb b/nb/00_setup.ipynb similarity index 99% rename from nb/00_Setup.ipynb rename to nb/00_setup.ipynb index f9e7e32..ce59a2f 100644 --- a/nb/00_Setup.ipynb +++ b/nb/00_setup.ipynb @@ -155,7 +155,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.6" + "version": "3.11.9" } }, "nbformat": 4, diff --git a/nb/01_table.ipynb b/nb/01_table.ipynb index 0074fe1..716bc5f 100644 --- a/nb/01_table.ipynb +++ b/nb/01_table.ipynb @@ -21,7 +21,7 @@ "id": "8e14f4db", "metadata": {}, "source": [ - "# The `Table` class\n", + "# The `Table` Class\n", "\n", "The `Table` class in `pystatis` is the main interface for users to interact with the different databases and download the data/tables in form of `pandas` `DataFrames`." ] @@ -2388,7 +2388,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.12.4" + "version": "3.11.9" }, "vscode": { "interpreter": { diff --git a/nb/02_Geo_visualization_example.ipynb b/nb/02_geo_visualization_int_students_germany.ipynb similarity index 99% rename from nb/02_Geo_visualization_example.ipynb rename to nb/02_geo_visualization_int_students_germany.ipynb index 43bd9ef..466ae62 100644 --- a/nb/02_Geo_visualization_example.ipynb +++ b/nb/02_geo_visualization_int_students_germany.ipynb @@ -4,11 +4,14 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "# Geo-Visualization Example Notebook\n", + "Geovisualization of Data on the Map of Germany\n", + "==============================================\n", "\n", "Welcome to the `Geo-Visualization Example` notebook! This notebook is designed to guide you through the process of visualizing geographical data from the Regionalstatistik database using Python and pystatis as API wrapper.\n", "\n", - "## Libraries Overview\n", + "Libraries Overview\n", + "------------------\n", + "\n", "In this notebook, we will require the following additional libraries:\n", "\n", "- GeoPandas: An open-source project that makes working with geospatial data in python easier. It extends the datatypes used by pandas to allow spatial operations on geometric types. GeoPandas enables us to work with geospatial data in Python similarly to how we work with pandas for regular data.\n", @@ -35,7 +38,8 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "#### Import Required Libraries" + "### Import Required Libraries\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -56,7 +60,8 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "## Visualization on the Level of Bundesländer\n", + "Visualization on the Level of Bundesländer\n", + "------------------------------------------\n", "\n", "In this first example, we will visualize the ratio of international students among students on the level of the Bundesländer. We will use the table with code `21311-01-01-4` from the Regionalstatistik API for the student data and `12411-01-01-4` for the population data. You can find the data by either search on the website or use the `Find` class which we also provide in `pystatis` to skim through the available data.\n", "\n", @@ -245,7 +250,13 @@ "metadata": {}, "source": [ "### Load Regionalstatistik Data\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "To now fill the map with our tables of interest, we need to query the data from the Regionalstatistik API. We will use our the `pystatis` library - more specifically the `Table` class - to query the data." ] }, @@ -293,7 +304,13 @@ "metadata": {}, "source": [ "### Process Students Data\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "To determine the ratio of international students among students per year and region we need to first filter the data for the relevant columns. We will then merge the two tables and calculate the ratio of international students among students." ] }, @@ -436,10 +453,21 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "The ratio is now calculated and grouped by `Kreise and kreisfreie Städte` (districts and urban districts) as well as further parameters and can be visualized on the map of Germany. The missing data for `Aachen, Kreis` will be discussed later.\n", - "\n", + "The ratio is now calculated and grouped by `Kreise and kreisfreie Städte` (districts and urban districts) as well as further parameters and can be visualized on the map of Germany. The missing data for `Aachen, Kreis` will be discussed later." + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "### Plot the Development of International Student Ratio for All Bundesländer\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "Before we do this, we will first convert the grouped data into a DataFrame and re-sort the data by year to have a look at the time development for individual Bundesländer first. Lastly, we merge the DataFrame with international student ratios with the geopandas DataFrame to visualize the data on the map." ] }, @@ -648,7 +676,13 @@ "metadata": {}, "source": [ "### Plot the Development of International Student Ratio on the Map of Germany\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "As mentioned before, we merge the DataFrame now with international student ratios with the geopandas DataFrame to visualize the data on the map of Germany." ] }, @@ -725,7 +759,8 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "## Visualization on the Level of Landkreise\n", + "Visualization on the Level of Landkreise\n", + "----------------------------------------\n", "\n", "In this second example, we will visualize the ratio of international students among students on the level of individual Landkreise. For this, we additionally need to load the map of Germany which outlines the individual Landkreise." ] @@ -846,7 +881,13 @@ "metadata": {}, "source": [ "### Process Students Data\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "Now we can re-determine the ratio of international students among students per year and region. We will first look again at specific regions to see the time development of the ratio of international students among students before we then merge the DataFrame with the geopandas DataFrame to visualize the data on the map." ] }, @@ -1021,7 +1062,8 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "### Plot the Development of International Student Ratio for Köln and Aachen" + "### Plot the Development of International Student Ratio for Köln and Aachen\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -1252,7 +1294,13 @@ "Having looked at the time development of the ratio of international students among students for specific regions shows a continues increase in the ratio of international students among students - in different strengths. However, it also shows that for example for `Aachen, Kreis`, there is no data available for all years in question.\n", "\n", "### Investigating Missing Data and the Data Quality Parameter\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "A more detailed investigation of the `quality` parameter of the data would be necessary to potentially determine the reason for the missing data. While this is in principle supported by the API via `quality=\"on\"`, regionalstatistik is the only of the three GENESIS databases to not actively support this. As a workaround, the website can be used to determine potential quality parameters of the data.\n", "\n", "Looking at the data on the [website](https://www.regionalstatistik.de/genesis/online?operation=ergebnistabelleUmfang&levelindex=3&levelid=1719518083070&downloadname=21311-01-01-4#abreadcrumb) reveals that there are indeed no values for `Aachen, Kreis` (more specifically, \"-\" means \"nichts vorhanden\"), while the data for `Aachen, kreisfreie Stadt` is unknown or to be kept secret (\".\" means \"Zahlenwert unbekannt oder geheimzuhalten\").\n", @@ -1260,7 +1308,13 @@ "(Explanation of legend [here](https://www.regionalstatistik.de/genesis/online?operation=ergebnistabelleQualitaet&language=de&levelindex=3&levelid=1719518083070#abreadcrumb))\n", "\n", "### Plot the Development of International Student Ratio on the Map of Germany With Finer Granularity\n", - "\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "metadata": {}, + "source": [ "As before we merge the DataFrame with international student ratios with the geopandas DataFrame to visualize the data on the map of Germany. However, this time we will visualize the data on the level of individual Landkreise." ] }, @@ -1379,7 +1433,7 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython3", - "version": "3.11.6" + "version": "3.11.9" } }, "nbformat": 4, diff --git a/nb/03_find.ipynb b/nb/03_find.ipynb index 8014c75..263a2a4 100644 --- a/nb/03_find.ipynb +++ b/nb/03_find.ipynb @@ -4,7 +4,8 @@ "cell_type": "markdown", "metadata": {}, "source": [ - "# Finding the right tables\n", + "Finding the Right Tables\n", + "========================\n", "\n", "Suppose you want to search for interesting tables about a certain project. `pystatis` offers the `Find` class to search for any piece of information with GENESIS. Behind the scene it's using the `find` endpoint." ] diff --git a/nb/04_jobs.ipynb b/nb/04_jobs.ipynb index a4753b9..8453e87 100644 --- a/nb/04_jobs.ipynb +++ b/nb/04_jobs.ipynb @@ -8,7 +8,8 @@ } }, "source": [ - "# Jobs\n", + "Jobs: Loading Large Tables\n", + "==========================\n", "\n", "Some tables from the database are quite large and the API provides them in a different way:\n", "1. The standard request is rejected with code 98\n", diff --git a/nb/05_presentation.ipynb b/nb/05_presentation.ipynb index eba6bd8..366596a 100644 --- a/nb/05_presentation.ipynb +++ b/nb/05_presentation.ipynb @@ -12,6 +12,15 @@ "import pystatis" ] }, + { + "cell_type": "markdown", + "id": "151ca2e5", + "metadata": {}, + "source": [ + "`pystatis` Presentation for Data Journalists\n", + "============================================" + ] + }, { "cell_type": "code", "execution_count": 2, @@ -27,18 +36,33 @@ "id": "baa7eec1", "metadata": {}, "source": [ - "# CorrelAid\n", + "CorrelAid\n", + "---------\n", "\n", "https://www.correlaid.org/en/about/\n", "\n", - "## Our Mission\n", - "\n", + "### Our Mission\n", + "~~~~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "id": "e85b575c", + "metadata": {}, + "source": [ "CorrelAid is a **non-profit community of data science enthusiasts** who want to change the world using data science. We dedicate our work to the humans, initiatives and organizations that strive to make the world a better place.\n", "\n", "We value open knowledge management and transparency in our work wherever possible while complying with GDPR regulations and following strong principles of data ethics.\n", "\n", - "## Our Work\n", - "\n", + "### Our Work\n", + "~~~~~~~~~~~~" + ] + }, + { + "cell_type": "markdown", + "id": "33bc0783", + "metadata": {}, + "source": [ "Our work is based on three pillars:\n", "\n", "1. **Using data**: We enable data analysts and scientists to apply their knowledge for the common good and social organizations to increase their impact on society by **conducting pro-bono data for good (Data4Good) projects** and providing consulting on data topics.\n", @@ -51,7 +75,8 @@ "id": "ce8ea466", "metadata": {}, "source": [ - "# Pystatis presentation\n", + "`pystatis`\n", + "----------\n", "\n", "`pystatis` is a small Python library to conveniently wrap the different GENESIS web services (APIs) in a centralized and user-friendly manner.\n", "\n", @@ -63,9 +88,8 @@ "id": "9d462d61", "metadata": {}, "source": [ - "## Setup\n", - "\n", - "We won't cover the initial only-once setup here because the user has to enter their credentials for the supported databases (GENESIS, Regionalstatistik, Zensus). But there is a dedicated notebook [Setup](./00_Setup.ipynb) with examples and explanations." + "### Setup\n", + "~~~~~~~~~" ] }, { @@ -73,15 +97,13 @@ "id": "d25940a8", "metadata": {}, "source": [ - "## Main Use Cases" - ] - }, - { - "cell_type": "markdown", - "id": "b243c8ca", - "metadata": {}, - "source": [ - "### Find" + "We won't cover the initial only-once setup here because the user has to enter their credentials for the supported databases (GENESIS, Regionalstatistik, Zensus). But there is a dedicated notebook [Setup](./00_Setup.ipynb) with examples and explanations.\n", + "\n", + "Main Use Cases\n", + "--------------\n", + "\n", + "### Find\n", + "~~~~~~~~" ] }, { @@ -167,12 +189,6 @@ "If interested in specific object, can run `results.tables`, `results.statistics`, or `results.variables` directly." ] }, - { - "cell_type": "markdown", - "id": "1bb42680", - "metadata": {}, - "source": [] - }, { "cell_type": "code", "execution_count": 4, @@ -327,7 +343,7 @@ "id": "dcc60b06", "metadata": {}, "source": [ - "To then check that the object has the relevant data, we can preview the columns using the `.meta_data()` method." + "To then check that the object has the relevant data, we can preview the columns using the `.get_metadata()` method." ] }, { @@ -375,15 +391,10 @@ "source": [ "The `pystatis.Find` is a useful search tool to browse the database by any keyword. It is quicker than downloading a table and does not need the EVAS number to run.\n", "\n", - "Use this to identify the tables of interest and to look up their EVAS as to use in the further analysis with a `pystatis.Table` method." - ] - }, - { - "cell_type": "markdown", - "id": "b938a32b", - "metadata": {}, - "source": [ - "### Table" + "Use this to identify the tables of interest and to look up their EVAS as to use in the further analysis with a `pystatis.Table` method.\n", + "\n", + "### Table\n", + "~~~~~~~~~" ] }, { @@ -2210,26 +2221,16 @@ "id": "19ef667d", "metadata": {}, "source": [ - "## Advanced features\n", + "Advanced Features\n", + "-----------------\n", "\n", "- Caching\n", "- Handling background jobs\n", - "- Cubes" - ] - }, - { - "cell_type": "markdown", - "id": "3cfb1907", - "metadata": {}, - "source": [ - "## Geo-visualization" - ] - }, - { - "cell_type": "markdown", - "id": "5fb9cf31", - "metadata": {}, - "source": [ + "- Cubes\n", + "\n", + "Geo-Visualization\n", + "-----------------\n", + "\n", "Case study: international students in Germany\n", "- time evolution\n", "- regional differences (at the level of federal states)" @@ -2263,7 +2264,8 @@ "id": "0a0c49e2", "metadata": {}, "source": [ - "### load data from Regionalstatistik" + "### Load Data from Regionalstatistik\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -2300,7 +2302,8 @@ "id": "4de03a89", "metadata": {}, "source": [ - "### set proper column types" + "### Set Proper Column Types\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -2378,7 +2381,8 @@ "id": "62097373", "metadata": {}, "source": [ - "### Dataframe" + "### Inspect Dataframe\n", + "~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -2600,7 +2604,8 @@ "id": "2785f6e4", "metadata": {}, "source": [ - "### determine ratio of international students per year and region" + "### Determine Ratio of International Students per Year and Region\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -2868,7 +2873,8 @@ "id": "ddb17d52", "metadata": {}, "source": [ - "## plot time evolution" + "### Plot Evoluation of International Students over Time\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -2927,7 +2933,8 @@ "id": "c816c0df", "metadata": {}, "source": [ - "### load shape file" + "### Load Shape File for the Map of Germany\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -3045,7 +3052,8 @@ "id": "fce92e3e", "metadata": {}, "source": [ - "### merge with geodataframe and plot" + "### Merge `GeoDataFrame` with Data and Visualize on the Map\n", + "~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~" ] }, { @@ -3153,14 +3161,9 @@ "id": "7d7fffc9", "metadata": {}, "source": [ - "## Outlook" - ] - }, - { - "cell_type": "markdown", - "id": "7a119d0e", - "metadata": {}, - "source": [ + "Outlook\n", + "-------\n", + "\n", "- `quality=on` -> handle the different quality identifiers\n", "- `Find` to work across all databases -> search for and find results over all supported databases with a single query\n", "- `LLM`? -> ideation: provide some kind of interface that allows to talk with GENESIS via a LLM like ChatGPT" diff --git a/poetry.lock b/poetry.lock index 7d143ef..3dc7e0d 100644 --- a/poetry.lock +++ b/poetry.lock @@ -13,13 +13,13 @@ files = [ [[package]] name = "anyio" -version = "4.4.0" +version = "4.6.2.post1" description = "High level compatibility layer for multiple asynchronous event loop implementations" optional = false -python-versions = ">=3.8" +python-versions = ">=3.9" files = [ - {file = "anyio-4.4.0-py3-none-any.whl", hash = "sha256:c1b2d8f46a8a812513012e1107cb0e68c17159a7a594208005a57dc776e1bdc7"}, - {file = "anyio-4.4.0.tar.gz", hash = "sha256:5aadc6a1bbb7cdb0bede386cac5e2940f5e2ff3aa20277e991cf028e0585ce94"}, + {file = "anyio-4.6.2.post1-py3-none-any.whl", hash = "sha256:6d170c36fba3bdd840c73d3868c1e777e33676a69c3a72cf0a0d5d6d8009b61d"}, + {file = "anyio-4.6.2.post1.tar.gz", hash = "sha256:4c8bc31ccdb51c7f7bd251f51c609e038d63e34219b44aa86e47576389880b4c"}, ] [package.dependencies] @@ -29,9 +29,9 @@ sniffio = ">=1.1" typing-extensions = {version = ">=4.1", markers = "python_version < \"3.11\""} [package.extras] -doc = ["Sphinx (>=7)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"] -test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "uvloop (>=0.17)"] -trio = ["trio (>=0.23)"] +doc = ["Sphinx (>=7.4,<8.0)", "packaging", "sphinx-autodoc-typehints (>=1.2.0)", "sphinx-rtd-theme"] +test = ["anyio[trio]", "coverage[toml] (>=7)", "exceptiongroup (>=1.2.0)", "hypothesis (>=4.0)", "psutil (>=5.9)", "pytest (>=7.0)", "pytest-mock (>=3.6.1)", "trustme", "truststore (>=0.9.1)", "uvloop (>=0.21.0b1)"] +trio = ["trio (>=0.26.1)"] [[package]] name = "appnope" @@ -122,13 +122,13 @@ test = ["dateparser (==1.*)", "pre-commit", "pytest", 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