diff --git a/.copier-answers.yml b/.copier-answers.yml
index 22f1dc7..527ce96 100644
--- a/.copier-answers.yml
+++ b/.copier-answers.yml
@@ -1,12 +1,14 @@
 # Changes here will be overwritten by Copier
-# DO NOT MANUALLY MODIFY THIS FILE
+# !!!!! DO NOT MANUALLY MODIFY THIS FILE !!!!!
 _commit: latest
-_src_path: https://github.com/calliope-project/data-module-template
+_src_path: https://github.com/modelblocks-org/data-module-template
 author_email: s.pfenninger@tudelft.nl
 author_family_name: Pfenninger-Lee
 author_given_name: Stefan
-github_org: calliope-project
+github_org: modelblocks-org
 license: Apache-2.0
-module_description: ''
+module_description: This module performs geospatial analyses to determine the available
+    land area for specific technologies, on a by-pixel basis and aggregated to given
+    geographic boundaries.
 module_long_name: Area potentials
 module_short_name: module_area_potentials
diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md
index cd94c32..1b66ddc 100644
--- a/.github/ISSUE_TEMPLATE/bug_report.md
+++ b/.github/ISSUE_TEMPLATE/bug_report.md
@@ -24,7 +24,7 @@ A clear and concise description of what you expected to happen.
 If applicable, add screenshots to help explain your problem.
 
 **Desktop (please complete the following information):**
- - OS: [e.g. Linux Fedora 41, Windows 10...]
+ - OS: [e.g. Linux Fedora 43, Windows 11...]
  - Version [e.g. v0.1.1]
 
 **Additional context**
diff --git a/.github/ISSUE_TEMPLATE/config.yaml b/.github/ISSUE_TEMPLATE/config.yaml
new file mode 100644
index 0000000..28da94d
--- /dev/null
+++ b/.github/ISSUE_TEMPLATE/config.yaml
@@ -0,0 +1,5 @@
+blank_issues_enabled: false
+contact_links:
+  - name: General information
+    url: https://www.modelblocks.org/
+    about: Please consult our website for general information on the Modelblocks methodology.
diff --git a/.github/pull_request_template.md b/.github/pull_request_template.md
index 9610b97..400a69f 100644
--- a/.github/pull_request_template.md
+++ b/.github/pull_request_template.md
@@ -8,6 +8,11 @@ Fixes #
 
 ## Reviewer checklist
 
-* [ ] `INTERFACE.yaml` is up-to-date with all relevant user resources and results.
-* [ ] The integration example is up-to-date with a minimal use-case of the module.
-* [ ] Module documentation is up-to-date.
+* [ ] There are no `pip` dependencies in the module's environment files (`workflow/envs/`).
+* [ ] All rules use `pathvars` (e.g., `<results>`) in their inputs and outputs.
+* [ ] The integration test-suite is successful, including:
+    * [ ] `pre-commit.ci` tests pass.
+    * [ ] tests pass for all relevant OS configurations (linux, osx, windows).
+* [ ] Module documentation is up-to-date, including:
+    * [ ] `INTERFACE.yaml` mentions all relevant `pathvars` and `wildcards`.
+    * [ ] `README.md` describes how to use the module and has the necessary citations.
diff --git a/.github/workflows/check-version.yml b/.github/workflows/check-version.yml
index 8e57b32..7bde778 100644
--- a/.github/workflows/check-version.yml
+++ b/.github/workflows/check-version.yml
@@ -1,9 +1,13 @@
 # Check for changes in the upstream template. If changes are found, an issue is created
 name: Template check.
 on:
+  workflow_dispatch:
   schedule:
     - cron: '0 0 1 * *' # Runs at 00:00 UTC on the 1st day of every month
 
 jobs:
   copier-update:
-    uses: calliope-project/data-module-template/.github/workflows/template-check-version.yml@latest
+    permissions:
+      contents: read
+      issues: write
+    uses: modelblocks-org/data-module-template/.github/workflows/template-check-version.yml@latest
diff --git a/.github/workflows/pr-ci.yml b/.github/workflows/pr-ci.yml
index a216bf5..0e17ea4 100644
--- a/.github/workflows/pr-ci.yml
+++ b/.github/workflows/pr-ci.yml
@@ -1,9 +1,41 @@
-name: CI
+# !!!!! DO NOT MODIFY UNLESS ABSOLUTELY NECESSARY !!!!!
+# This workflow helps standardise integration tests across data modules
+name: Pull Request CI tests for Modelblocks data modules
 on:
   pull_request:
     branches:
       - "main"
-
 jobs:
-  ci-tests:
-    uses: calliope-project/data-module-template/.github/workflows/template-pr-ci.yml@latest
+  build:
+    name: Build
+    runs-on: ${{ matrix.os }}
+    strategy:
+      fail-fast: false
+      matrix:
+        os: [ubuntu-latest, windows-latest, macos-latest]
+        python-version: ["3.12"]
+    steps:
+      - uses: actions/checkout@v4
+      - name: Setup pixi
+        uses: prefix-dev/setup-pixi@v0.8.3
+      - name: Run integration tests
+        id: tests
+        run: pixi run test-integration
+        continue-on-error: true
+      - name: Run snakemake linting
+        id: linting
+        run: |
+          pixi run snakemake --lint --snakefile workflow/Snakefile
+          pixi run snakemake --lint --snakefile tests/integration/Snakefile
+        continue-on-error: true
+      - name: Save integration logs
+        if: ${{ always() }}
+        uses: actions/upload-artifact@v4
+        with:
+          name: integration-test-logs-${{ matrix.os }}
+          path: tests/integration/resources/module/logs
+          if-no-files-found: ignore
+          retention-days: 30
+      - name: Fail if integration or linting failed
+        if: ${{ steps.tests.outcome == 'failure' || steps.linting.outcome == 'failure' }}
+        run: exit 1
diff --git a/.github/workflows/release.yml b/.github/workflows/release.yml
index 32ab6f2..7e25226 100644
--- a/.github/workflows/release.yml
+++ b/.github/workflows/release.yml
@@ -6,4 +6,6 @@ on:
 
 jobs:
   release-workflow:
-    uses: calliope-project/data-module-template/.github/workflows/template-release.yml@latest
+    permissions:
+      contents: write
+    uses: modelblocks-org/data-module-template/.github/workflows/template-release.yml@latest
diff --git a/.pre-commit-config.yaml b/.pre-commit-config.yaml
index c29fc99..6483ee3 100644
--- a/.pre-commit-config.yaml
+++ b/.pre-commit-config.yaml
@@ -12,6 +12,7 @@ repos:
       # Repo quality
       - id: check-added-large-files
         args: [--enforce-all]
+        exclude: ^pixi\.lock$
       - id: forbid-submodules
       - id: check-case-conflict
       - id: check-illegal-windows-names
@@ -32,7 +33,7 @@ repos:
 
   # Snakemake file formatting
   - repo: https://github.com/snakemake/snakefmt
-    rev: v0.10.2
+    rev: v0.11.4
     hooks:
       - id: snakefmt
 
@@ -44,4 +45,4 @@ repos:
         files: .*\.(py|smk|md)$|^Snakefile$
 
 ci:  # https://pre-commit.ci/
-  autoupdate_schedule: monthly
+  autoupdate_schedule: quarterly
diff --git a/CITATION.cff b/CITATION.cff
index eac3d5f..3c5ebb2 100644
--- a/CITATION.cff
+++ b/CITATION.cff
@@ -3,7 +3,7 @@
 # https://citation-file-format.github.io/
 cff-version: 1.2.0
 message: If you use this software or data produced by it, please cite it using the metadata from this file.
-title: "clio - module_area_potentials: Area potentials"
+title: "Modelblocks - module_area_potentials: Area potentials"
 repository: "https://github.com/calliope-project/module_area_potentials"
 license: Apache-2.0
 authors:
diff --git a/INTERFACE.yaml b/INTERFACE.yaml
index cdae1e1..126006b 100644
--- a/INTERFACE.yaml
+++ b/INTERFACE.yaml
@@ -1,16 +1,29 @@
 # Module Input-Output structure for automated doc. generation
-resources:
-  user:
-    "shapes/{shape}.parquet": "Region geometries in parquet format. These should conform to the schema defined in https://github.com/calliope-project/module_geo_boundaries/blob/main/workflow/internal/shape.schema.yaml"
-    "wdpa.gdb": "WDPA protected areas database from https://www.protectedplanet.net/ in GeoDB format (choose 'File Geodatabase' when downloading)."
-results:
-    "{shape}/{subunit}/area_potential_{tech}.tif": "Area potential GeoTIFF raster for the specified technology and subunit."
-    "{shape}/{subunit}/area_potential_{tech}.png": "Area potential GeoTIFF raster for the specified technology and subunit."
-    "{shape}/area_potential_{tech}.tif": "Area potential GeoTIFF raster for the specified technology across all subunits."
-    "{shape}/area_potential_{tech}.png": "Area potential PNG for the specified technology across all subunits."
-    "{shape}/area_potential_report.csv": "CSV summary report of area potential for all techs, across all subunits."
-    "{shape}/area_potential_report.html": "HTML summary report of area potential for all techs, across all subunits."
+pathvars:
+  snakemake_defaults:
+    logs:
+      default: "<logs>"
+      description: location of rule log files.
+    resources:
+      default: "<resources>"
+      description: "location of module resource files."
+    results:
+      default: "<results>"
+      description: "location of module results."
+  user_resources:
+    shapes:
+      default: "<resources>/user/shapes/{shape}.parquet"
+      description: >
+        Region geometries in parquet format.
+        These should conform to the schema defined in https://github.com/calliope-project/module_geo_boundaries/blob/main/workflow/internal/shape.schema.yaml.
+    wdpa:
+      default: "<resources>/user/wdpa.gdb"
+      description: >
+        WDPA protected areas database from https://www.protectedplanet.net/ in GeoDB format (choose 'File Geodatabase' when downloading).
+  results:
+    area_potential:
+      default: "<results>/{shape}/area_potential_{tech}.tif"
+      description: "Area potential GeoTIFF raster for the specified technology across all subunits."
 wildcards:
   shape: "Name of the shape to be processed, e.g., 'world', 'europe', 'MEX'."
-  subunit: "Name of a subunit from within the shape, e.g 'IRL' for Ireland within 'europe'."
   tech: "Name of the technology, e.g., 'pv_rooftop' or 'wind_offshore'. Available technologies are defined in the module configuration."
diff --git a/LICENSE b/LICENSE
index 01d12ec..3946dd7 100644
--- a/LICENSE
+++ b/LICENSE
@@ -186,7 +186,7 @@
       same "printed page" as the copyright notice for easier
       identification within third-party archives.
 
-   Copyright 2025 AUTHORS
+   Copyright 2026 AUTHORS
 
    Licensed under the Apache License, Version 2.0 (the "License");
    you may not use this file except in compliance with the License.
diff --git a/README.md b/README.md
index ab60938..002d7e4 100644
--- a/README.md
+++ b/README.md
@@ -1,21 +1,108 @@
 # Area potentials
 
+This module performs geospatial analyses to determine the available land area for specific technologies, on a by-pixel basis and aggregated to given geographic boundaries.
 
+<!-- Place an attractive image of module outputs here -->
+<p align="center">
+  <img src="./figures/area_potential_wind_onshore.png" width="70%">
+</p>
 
-A modular `snakemake` workflow built for [`clio`](https://clio.readthedocs.io/) data modules.
+## About
+<!-- Please do not modify this templated section -->
 
-## Using this module
+This is a modular `snakemake` workflow created as part of the [Modelblocks project](https://www.modelblocks.org/). It can be imported directly into any `snakemake` workflow.
 
-This module can be imported directly into any `snakemake` workflow.
-Please consult the integration example in `tests/integration/Snakefile` for more information.
+For more information, please consult the Modelblocks [documentation](https://modelblocks.readthedocs.io/en/latest/),
+the [integration example](./tests/integration/Snakefile),
+and the `snakemake` [documentation](https://snakemake.readthedocs.io/en/stable/snakefiles/modularization.html).
+
+## Overview
+<!-- Please describe the processing stages of this module here -->
+
+Data processing steps:
+
+<p align="center">
+  <img src="./figures/rulegraph.png" width="66%">
+</p>
+
+
+* Geospatial input data (vector and raster) are acquired. This is automatic for most data, but the following data need to be manually supplied:
+  * Geographic boundaries in the parquet format
+  * WDPA protected areas database from https://www.protectedplanet.net/ in GeoDB format (choose 'File Geodatabase' when downloading).
+* For the extent of the provided boundaries, the input data are reprojected and rasterised to the resolution of the land cover data (GlobCover), and merged into a single dataset for further processing.
+* Based on the supplied configuration, the land-use analysis is done for each defined technology.
+* Results can be reported on a per-geography and per-technology basis, as pixel surface area values (TIFF files), images for reporting purposes (PNG files), and also as a summary report with per-region capacities (CSV and HTML files)
+
+See below for the [data sources](#references).
+
+## Configuration
+<!-- Please describe how to configure this module below -->
+
+Please consult the configuration [README](./config/README.md) and the [configuration example](./config/config.yaml) for a general overview on the configuration options of this module.
+
+In the configuration, you can define any number of `techs`, and for each of them, specify the `initial_area`, `continuous_layers`, and `binary_layers`.
+
+By example, here is a `pv_rooftop` tech. We use the `settlement_area`, which is the settlement area in m² in each pixel, as the initial area from which the further analysis proceeds. In `continuous_layers`, we use the `settlement_share`, which is the share (0-1) of area covered by settlement, and exclude pixels with less than 0.01 settlement share while assuming that of those pixels not excluded by that, 0.8 (80%) of the settled area can be used for rooftop PV. Finally, in the `binary_layers`, we include all land use types except `NOT_SUITABLE` (since the main selection is done via the settlement_share). This means that, for example, `FOREST` pixels with a `settlement_area` > 0 can be included.
+
+```yaml
+pv_rooftop:
+  initial_area: settlement_area
+  continuous_layers:
+    settlement_share:
+      min: 0.01
+      max: 1
+      share: 0.8
+  binary_layers:
+    regions_maritime: 0
+    regions_land: 1
+    protected: 0
+    landcover_FARM: 1
+    landcover_FOREST: 1
+    landcover_URBAN: 1
+    landcover_OTHER: 1
+    landcover_NOT_SUITABLE: 0
+    landcover_WATER: 0
+```
+
+Here is a `wind_offshore` example. We start with the `pixel_area`, the total surface area in m² for each pixel. We include pixels with a slope up to and including 20 degrees, and exclude pixels with a settlement share above 0.01. Furthermore, we include only land areas (`regions_land: 1` and `regions_maritime: 0`) and completely exclude some areas like protected areas or urban areas (`protected: 0`, `landcover_URBAN: 0`), while including only a fraction of other areas (e.g. if a pixel is considered farmland, only 20% of its surface is available: `landcover_FARM: 0.2`).
+
+```yaml
+wind_onshore:
+  initial_area: pixel_area
+  continuous_layers:
+    slope:
+    min: 0
+    max: 20
+    settlement_share:
+    min: 0
+    max: 0.01
+  binary_layers:
+    regions_maritime: 0
+    regions_land: 1
+    protected: 0
+    landcover_FARM: 0.2
+    landcover_FOREST: 0.05
+    landcover_URBAN: 0
+    landcover_OTHER: 0.3
+    landcover_NOT_SUITABLE: 0
+    landcover_WATER: 0
+
+```
+
+
+## Input / output structure
+<!-- Please describe input / output file placement below -->
+
+Please consult the [interface file](./INTERFACE.yaml) for more information.
 
 ## Development
+<!-- Please do not modify this templated section -->
 
 We use [`pixi`](https://pixi.sh/) as our package manager for development.
-Once installed, run the following to clone this repo and install all dependencies.
+Once installed, run the following to clone this repository and install all dependencies.
 
 ```shell
-git clone git@github.com:calliope-project/module_area_potentials.git
+git clone git@github.com:modelblocks-org/module_area_potentials.git
 cd module_area_potentials
 pixi install --all
 ```
@@ -26,12 +113,6 @@ For testing, simply run:
 pixi run test-integration
 ```
 
-To view the documentation locally, use:
-
-```shell
-pixi run serve-docs
-```
-
 To test a minimal example of a workflow using this module:
 
 ```shell
@@ -39,3 +120,19 @@ pixi shell    # activate this project's environment
 cd tests/integration/  # navigate to the integration example
 snakemake --use-conda --cores 2  # run the workflow!
 ```
+
+## References
+<!-- Please provide thorough referencing below -->
+
+This module is based on the following research and datasets:
+
+* [GEDTM30](https://github.com/openlandmap/GEDTM30) for slope
+    * License: Creative Commons Attribution 4.0 International
+* [GlobCover land cover data](https://due.esrin.esa.int/page_globcover.php)
+    * License: "You may use the GlobCover land cover map for educational and/or scientific purposes, without any fee on the condition that you credit ESA and the Université Catholique de Louvain as the source of the GlobCover products."
+* [GEBCO (General Bathymetric Chart of the Oceans)](https://www.gebco.net/data-products/gridded-bathymetry-data) 15 arc-second data
+    * License: "The GEBCO Grid is placed in the public domain and may be used free of charge. [...] Users must: Acknowledge the source of The GEBCO Grid. A suitable form of attribution is given in the documentation that accompanies The GEBCO Grid."
+* [GHSL (Global Human Settlement Layer)](https://human-settlement.emergency.copernicus.eu/download.php) built-up surface data (R2023, GHS-BUILT-S, 100m resolution)
+    * License: "The GHSL has been produced by the EC JRC as open and free data. Reuse is authorised, provided the source is acknowledged."
+* [WDPA (World Database on Protected Areas)](https://www.protectedplanet.net/)
+    * License: Non-commercial allowed. Citation: "UNEP-WCMC and IUCN (2025), Protected Planet: The World Database on Protected Areas (WDPA) and World Database on Other Effective Area-based Conservation Measures (WD-OECM) [Online], June 2025, Cambridge, UK: UNEP-WCMC and IUCN. Available at: www.protectedplanet.net."
diff --git a/config/README.md b/config/README.md
index 2bd88fa..720820c 100644
--- a/config/README.md
+++ b/config/README.md
@@ -1,9 +1,8 @@
-# Configuration
+We recommend consulting the following before using this module:
+- `config/config.yaml`: a generic example configuration of this module.
+- `workflow/internal/config.schema.yaml`: a schematic overview of all the configuration options of this module.
+- `INTERFACE.yaml`: lists module input and output files, and their default locations.
+- `tests/integration/Snakefile`: an example of how to call this module from another workflow.
 
-This workflow is part of the [clio project](https://clio.readthedocs.io/en/latest/).
-Please consult our documentation for more details.
-Other useful resources are:
-
-- `INTERFACE.yaml`: user input files (placed in `resources/user`) and module output files (placed in `results`).
-- `workflow/internal/config.schema.yaml`: general configuration options.
-- `tests/integration/`: a simple example of how to use this module.
+This data module is part of the [Modelblocks](https://www.modelblocks.org/) project.
+Please consult the [Modelblocks documentation](https://modelblocks.readthedocs.io/) for more details.
diff --git a/docs/index.md b/docs/index.md
deleted file mode 100644
index 37a580f..0000000
--- a/docs/index.md
+++ /dev/null
@@ -1,82 +0,0 @@
-# Area potentials
-
-This module performs geospatial analyses to determine the available land area for specific technologies, on a by-pixel basis and aggregated to given geographic boundaries (e.g. generated by [module_geo_boundaries](https://github.com/calliope-project/module_geo_boundaries).
-
-## Overview
-
-The analysis in this module is structured as follows:
-
-* Geospatial input data (vector and raster) are acquired. This is automatic for most data, but the following data need to be manually supplied:
-  * Geographic boundaries in the parquet format
-  * WDPA protected areas database from https://www.protectedplanet.net/ in GeoDB format (choose 'File Geodatabase' when downloading).
-* For the extent of the provided boundaries, the input data are reprojected and rasterised to the resolution of the land cover data (GlobCover), and merged into a single dataset for further processing.
-* Based on the supplied configuration, the land-use analysis is done for each defined technology.
-* Results can be reported on a per-geography and per-technology basis, as pixel surface area values (TIFF files), images for reporting purposes (PNG files), and also as a summary report with per-region capacities (CSV and HTML files)
-
-See below for the [data sources](#data-sources).
-
-## Configuration
-
-Configure the analysis in the `config.yaml` file. Examples are visible in `config/config.yaml` and `tests/integration/test_config.yaml`.
-
-In the configuration, you can define any number of `techs`, and for each of them, specify the `initial_area`, `continuous_layers`, and `binary_layers`.
-
-By example, here is a `pv_rooftop` tech. We use the `settlement_area`, which is the settlement area in m² in each pixel, as the initial area from which the further analysis proceeds. In `continuous_layers`, we use the `settlement_share`, which is the share (0-1) of area covered by settlement, and exclude pixels with less than 0.01 settlement share while assuming that of those pixels not excluded by that, 0.8 (80%) of the settled area can be used for rooftop PV. Finally, in the `binary_layers`, we include all land use types except `NOT_SUITABLE` (since the main selection is done via the settlement_share). This means that, for example, `FOREST` pixels with a `settlement_area` > 0 can be included.
-
-```yaml
-pv_rooftop:
-  initial_area: settlement_area
-  continuous_layers:
-    settlement_share:
-      min: 0.01
-      max: 1
-      share: 0.8
-  binary_layers:
-    regions_maritime: 0
-    regions_land: 1
-    protected: 0
-    landcover_FARM: 1
-    landcover_FOREST: 1
-    landcover_URBAN: 1
-    landcover_OTHER: 1
-    landcover_NOT_SUITABLE: 0
-    landcover_WATER: 0
-```
-
-Here is a `wind_offshore` example. We start with the `pixel_area`, the total surface area in m² for each pixel. We include pixels with a slope up to and including 20 degrees, and exclude pixels with a settlement share above 0.01. Furthermore, we include only land areas (`regions_land: 1` and `regions_maritime: 0`) and completely exclude some areas like protected areas or urban areas (`protected: 0`, `landcover_URBAN: 0`), while including only a fraction of other areas (e.g. if a pixel is considered farmland, only 20% of its surface is available: `landcover_FARM: 0.2`).
-
-```yaml
-wind_onshore:
-  initial_area: pixel_area
-  continuous_layers:
-    slope:
-    min: 0
-    max: 20
-    settlement_share:
-    min: 0
-    max: 0.01
-  binary_layers:
-    regions_maritime: 0
-    regions_land: 1
-    protected: 0
-    landcover_FARM: 0.2
-    landcover_FOREST: 0.05
-    landcover_URBAN: 0
-    landcover_OTHER: 0.3
-    landcover_NOT_SUITABLE: 0
-    landcover_WATER: 0
-
-```
-
-## Data sources
-
-* [GEDTM30](https://github.com/openlandmap/GEDTM30) for slope
-    * License: Creative Commons Attribution 4.0 International
-* [GlobCover land cover data](https://due.esrin.esa.int/page_globcover.php)
-    * License: "You may use the GlobCover land cover map for educational and/or scientific purposes, without any fee on the condition that you credit ESA and the Université Catholique de Louvain as the source of the GlobCover products."
-* [GEBCO (General Bathymetric Chart of the Oceans)](https://www.gebco.net/data-products/gridded-bathymetry-data) 15 arc-second data
-    * License: "The GEBCO Grid is placed in the public domain and may be used free of charge. [...] Users must: Acknowledge the source of The GEBCO Grid. A suitable form of attribution is given in the documentation that accompanies The GEBCO Grid."
-* [GHSL (Global Human Settlement Layer)](https://human-settlement.emergency.copernicus.eu/download.php) built-up surface data (R2023, GHS-BUILT-S, 100m resolution)
-    * License: "The GHSL has been produced by the EC JRC as open and free data. Reuse is authorised, provided the source is acknowledged."
-* [WDPA (World Database on Protected Areas)](https://www.protectedplanet.net/)
-    * License: Non-commercial allowed. Citation: "UNEP-WCMC and IUCN (2025), Protected Planet: The World Database on Protected Areas (WDPA) and World Database on Other Effective Area-based Conservation Measures (WD-OECM) [Online], June 2025, Cambridge, UK: UNEP-WCMC and IUCN. Available at: www.protectedplanet.net."
diff --git a/figures/area_potential_wind_onshore.png b/figures/area_potential_wind_onshore.png
new file mode 100644
index 0000000..898439e
Binary files /dev/null and b/figures/area_potential_wind_onshore.png differ
diff --git a/figures/rulegraph.png b/figures/rulegraph.png
new file mode 100644
index 0000000..94174a0
Binary files /dev/null and b/figures/rulegraph.png differ
diff --git a/mypy.ini b/mypy.ini
index c7b2d53..6769a42 100644
--- a/mypy.ini
+++ b/mypy.ini
@@ -1,3 +1,4 @@
 [mypy]
 disable_error_code = import-untyped
 exclude = (^|/)\.(snakemake|pixi)(/|$)
+exclude_gitignore = True
diff --git a/pixi.lock b/pixi.lock
index 019195f..9dcef13 100644
--- a/pixi.lock
+++ b/pixi.lock
@@ -4,6 +4,8 @@ environments:
     channels:
     - url: https://conda.anaconda.org/conda-forge/
     - url: https://conda.anaconda.org/bioconda/
+    options:
+      pypi-prerelease-mode: if-necessary-or-explicit
     packages:
       linux-64:
       - conda: https://conda.anaconda.org/conda-forge/linux-64/_libgcc_mutex-0.1-conda_forge.tar.bz2
@@ -19,7 +21,7 @@ environments:
       - conda: https://conda.anaconda.org/conda-forge/linux-64/at-spi2-core-2.40.3-h0630a04_0.tar.bz2
       - conda: https://conda.anaconda.org/conda-forge/linux-64/atk-1.0-2.38.0-h04ea711_2.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/attrs-25.3.0-pyh71513ae_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/linux-64/black-24.10.0-py312h7900ff3_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/black-26.3.1-pyh866005b_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/boltons-25.0.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/brotli-python-1.1.0-py312h2ec8cdc_3.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/bzip2-1.0.8-h4bc722e_7.conda
@@ -30,7 +32,7 @@ environments:
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-      - conda: https://conda.anaconda.org/conda-forge/noarch/clio-tools-2025.03.03-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/clio-tools-2026.03.30-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/coin-or-cbc-2.10.12-h00e76a6_2.conda
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       - conda: https://conda.anaconda.org/conda-forge/linux-64/coin-or-clp-1.17.10-h8a7a1e7_1.conda
@@ -72,6 +74,7 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/linux-64/graphviz-13.1.0-hcae58fd_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/linux-64/greenlet-3.5.0-py312h8285ef7_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/gtk3-3.24.43-h0c6a113_5.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/gts-0.7.6-h977cf35_4.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/h2-4.2.0-pyhd8ed1ab_0.conda
@@ -197,7 +200,8 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/noarch/python-tzdata-2025.2-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/python_abi-3.12-7_cp312.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/pytz-2025.2-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/linux-64/pytokens-0.4.1-py312h5253ce2_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/pytz-2026.1.post1-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/pyyaml-6.0.2-py312h178313f_2.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/pyzmq-27.0.0-py312hbf22597_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/readline-8.2-h8c095d6_2.conda
@@ -205,7 +209,6 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/linux-64/reproc-cpp-14.2.5.post0-h5888daf_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/requests-2.32.4-pyhd8ed1ab_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/reretry-0.11.8-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/rpds-py-0.26.0-py312h680f630_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/ruamel.yaml-0.18.14-py312h66e93f0_0.conda
       - conda: https://conda.anaconda.org/conda-forge/linux-64/ruamel.yaml.clib-0.2.8-py312h66e93f0_1.conda
@@ -215,15 +218,19 @@ environments:
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-      - conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-0.11.0-pyhdfd78af_0.tar.bz2
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-1.1.0-pyhdfd78af_0.conda
       - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-common-1.20.1-pyhdfd78af_0.tar.bz2
       - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-executor-plugins-9.3.7-pyhdfd78af_0.tar.bz2
       - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-logger-plugins-1.2.3-pyhdfd78af_0.tar.bz2
-      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-report-plugins-1.1.0-pyhdfd78af_0.tar.bz2
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-      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-minimal-9.8.0-pyhdfd78af_0.tar.bz2
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-report-plugins-1.3.0-pyhd4c3c12_0.conda
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-scheduler-plugins-2.0.2-pyhd4c3c12_0.conda
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-storage-plugins-4.4.1-pyh84498cf_0.conda
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-minimal-9.19.0-pyhdfd78af_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/linux-64/sqlalchemy-2.0.49-py312h5253ce2_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/sqlmodel-0.0.37-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/stack_data-0.6.3-pyhd8ed1ab_1.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/tabulate-0.9.0-pyhd8ed1ab_2.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/tenacity-9.1.4-pyhcf101f3_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/throttler-1.2.2-pyhd8ed1ab_0.conda
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@@ -276,7 +283,7 @@ environments:
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-      - conda: https://conda.anaconda.org/conda-forge/osx-arm64/black-24.10.0-py312h81bd7bf_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/black-26.3.1-pyh866005b_0.conda
       - conda: https://conda.anaconda.org/conda-forge/noarch/boltons-25.0.0-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-arm64/brotli-python-1.1.0-py312hd8f9ff3_3.conda
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@@ -287,7 +294,7 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/noarch/click-8.2.1-pyh707e725_0.conda
-      - conda: https://conda.anaconda.org/conda-forge/noarch/clio-tools-2025.03.03-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/clio-tools-2026.03.30-pyhd8ed1ab_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-arm64/coin-or-cbc-2.10.12-h8ec3750_2.conda
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       - conda: https://conda.anaconda.org/conda-forge/osx-arm64/coin-or-clp-1.17.10-h73553b4_1.conda
@@ -328,6 +335,7 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/osx-arm64/graphviz-13.1.0-haeab78c_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-arm64/greenlet-3.5.0-py312h6510ced_0.conda
       - conda: https://conda.anaconda.org/conda-forge/osx-arm64/gtk3-3.24.43-h07173f4_5.conda
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@@ -442,7 +450,8 @@ environments:
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       - conda: https://conda.anaconda.org/conda-forge/noarch/python-tzdata-2025.2-pyhd8ed1ab_0.conda
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-      - conda: https://conda.anaconda.org/conda-forge/noarch/pytz-2025.2-pyhd8ed1ab_0.conda
+      - conda: https://conda.anaconda.org/conda-forge/osx-arm64/pytokens-0.4.1-py312hb3ab3e3_1.conda
+      - conda: https://conda.anaconda.org/conda-forge/noarch/pytz-2026.1.post1-pyhcf101f3_0.conda
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@@ -450,7 +459,6 @@ environments:
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@@ -460,15 +468,19 @@ environments:
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-      - conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-0.11.0-pyhdfd78af_0.tar.bz2
+      - conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-1.1.0-pyhdfd78af_0.conda
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+      - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-report-plugins-1.3.0-pyhd4c3c12_0.conda
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@@ -502,7 +514,7 @@ environments:
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+- conda: https://conda.anaconda.org/conda-forge/noarch/pytz-2026.1.post1-pyhcf101f3_0.conda
+  sha256: d35c15c861d5635db1ba847a2e0e7de4c01994999602db1f82e41b5935a9578a
+  md5: f8a489f43a1342219a3a4d69cecc6b25
+  depends:
+  - python >=3.10
+  - python
+  license: MIT
+  license_family: MIT
+  size: 201725
+  timestamp: 1773679724369
 - conda: https://conda.anaconda.org/conda-forge/win-64/pywin32-307-py312h275cf98_3.conda
   sha256: 68f8781b83942b91dbc0df883f9edfd1a54a1e645ae2a97c48203ff6c2919de3
   md5: 1747fbbdece8ab4358b584698b19c44d
@@ -7240,18 +6308,6 @@ packages:
   - pkg:pypi/pyyaml?source=hash-mapping
   size: 181734
   timestamp: 1737455207230
-- conda: https://conda.anaconda.org/conda-forge/noarch/pyyaml-env-tag-1.1-pyhd8ed1ab_0.conda
-  sha256: 69ab63bd45587406ae911811fc4d4c1bf972d643fa57a009de7c01ac978c4edd
-  md5: e8e53c4150a1bba3b160eacf9d53a51b
-  depends:
-  - python >=3.9
-  - pyyaml
-  license: MIT
-  license_family: MIT
-  purls:
-  - pkg:pypi/pyyaml-env-tag?source=hash-mapping
-  size: 11137
-  timestamp: 1747237061448
 - conda: https://conda.anaconda.org/conda-forge/linux-64/pyzmq-27.0.0-py312hbf22597_0.conda
   sha256: 8564a7beb906476813a59a81a814d00e8f9697c155488dbc59a5c6e950d5f276
   md5: 4b9a9cda3292668831cf47257ade22a6
@@ -7427,17 +6483,6 @@ packages:
   - pkg:pypi/requests?source=hash-mapping
   size: 59407
   timestamp: 1749498221996
-- conda: https://conda.anaconda.org/conda-forge/noarch/reretry-0.11.8-pyhd8ed1ab_1.conda
-  sha256: f010d25e0ab452c0339a42807c84316bf30c5b8602b9d74d566abf1956d23269
-  md5: b965b0dfdb3c89966a6a25060f73aa67
-  depends:
-  - python >=3.9
-  license: Apache-2.0
-  license_family: APACHE
-  purls:
-  - pkg:pypi/reretry?source=hash-mapping
-  size: 12563
-  timestamp: 1735477549872
 - conda: https://conda.anaconda.org/conda-forge/linux-64/rpds-py-0.26.0-py312h680f630_0.conda
   sha256: bb051358e7550fd8ef9129def61907ad03853604f5e641108b1dbe2ce93247cc
   md5: 5b251d4dd547d8b5970152bae2cc1600
@@ -7703,20 +6748,18 @@ packages:
   - pkg:pypi/smmap?source=hash-mapping
   size: 26051
   timestamp: 1739781801801
-- conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-0.11.0-pyhdfd78af_0.tar.bz2
-  sha256: 3607605dc8efc796e28d69f201ff9dcc1a532a542d5af05609c2eef74125cbcf
-  md5: dbc8bc755a58632c456845df597453d9
+- conda: https://conda.anaconda.org/bioconda/noarch/snakefmt-1.1.0-pyhdfd78af_0.conda
+  sha256: 11c6ea3fbc6ece521909b776e8697170cab3db5bfb1b7462149ddd582a795cc2
+  md5: 54827e3a344bdd2aacd328bcb25049a0
   depends:
-  - black >=24.3,<25.0
-  - click >=8.0.0,<9.0.0
-  - python >=3.8
-  - toml >=0.10.2,<0.11.0
+  - black >=26.3.1,<27.0
+  - click >=8.2.0,<9.0
+  - pathspec
+  - python >=3.11,<4.0
   license: MIT
   license_family: MIT
-  purls:
-  - pkg:pypi/snakefmt?source=hash-mapping
-  size: 31992
-  timestamp: 1742569930064
+  size: 42088
+  timestamp: 1776658509848
 - conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-common-1.20.1-pyhdfd78af_0.tar.bz2
   sha256: c1694d7fdad7aa33ef4311ae74c769373cf8acf1e63a03cf9c63c3b30afe2998
   md5: cc586d7251b88847e03f44ef0dca5f40
@@ -7756,35 +6799,41 @@ packages:
   - pkg:pypi/snakemake-interface-logger-plugins?source=hash-mapping
   size: 12539
   timestamp: 1742472457005
-- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-report-plugins-1.1.0-pyhdfd78af_0.tar.bz2
-  sha256: 1d110a5c54b9f46824bb03f80c09cdc5045d6c27c0166662d5f4e8a7c07d3535
-  md5: 3a7dd19cd530b27b59aed6cb606a7987
+- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-report-plugins-1.3.0-pyhd4c3c12_0.conda
+  sha256: 7b7be41b59f2d904acb014ee182561610c930bef5f607742011ee23befe73831
+  md5: e6fd8cfb23b294da699e395dbc968d11
   depends:
   - python >=3.11.0,<4.0.0
   - snakemake-interface-common >=1.16.0,<2.0.0
   license: MIT
-  purls:
-  - pkg:pypi/snakemake-interface-report-plugins?source=hash-mapping
-  size: 13269
-  timestamp: 1728055589409
-- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-storage-plugins-4.2.1-pyhdfd78af_0.tar.bz2
-  sha256: 759127ee57236f6cfff795c497d56fd758a0aaae9cf54b6e6a100bb600816695
-  md5: de5d573c67176a5b1756987f9a8a595e
+  size: 14490
+  timestamp: 1761910544502
+- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-scheduler-plugins-2.0.2-pyhd4c3c12_0.conda
+  sha256: d5234883768d5876707df6897151a100581293336a599195ead32894bea4fa2f
+  md5: 1500fccf5e46c7f91d14925449ff3632
+  depends:
+  - python >=3.11.0,<4.0.0
+  - snakemake-interface-common >=1.20.1,<2.0.0
+  license: MIT
+  size: 16446
+  timestamp: 1760984180933
+- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-interface-storage-plugins-4.4.1-pyh84498cf_0.conda
+  sha256: 695a2c5c2bc417df0e440943f7637953f9e8c6e887c59432947d7e14ae1ffdac
+  md5: 8e6d2ea30aec2f8eabd03cac524f1f33
   depends:
+  - humanfriendly >=10.0,<11
   - python >=3.11.0,<4.0.0
-  - reretry >=0.11.8,<0.12.0
   - snakemake-interface-common >=1.12.0,<2.0.0
+  - tenacity >=9.1.4,<10.0
   - throttler >=1.2.2,<2.0.0
   - wrapt >=1.15.0,<2.0.0
   license: MIT
   license_family: MIT
-  purls:
-  - pkg:pypi/snakemake-interface-storage-plugins?source=hash-mapping
-  size: 19926
-  timestamp: 1742480267140
-- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-minimal-9.8.0-pyhdfd78af_0.tar.bz2
-  sha256: a64f6810a1ffba386835ba53d49c78ae557839a604b00159e4cf6274d8cea6fc
-  md5: 588f915c84e7b3ed7bc7534254099493
+  size: 22783
+  timestamp: 1773699846635
+- conda: https://conda.anaconda.org/bioconda/noarch/snakemake-minimal-9.19.0-pyhdfd78af_1.conda
+  sha256: b5cba268cbd4f24b2148c620238f5abb62e2fff0905dee46aa7ba5be253005aa
+  md5: 92bbae1d9004d6f1f0adbb21e4e090d9
   depends:
   - appdirs
   - conda-inject >=1.3.1,<2.0
@@ -7798,34 +6847,85 @@ packages:
   - jinja2 >=3.0,<4.0
   - jsonschema
   - nbformat
-  - packaging >=24.0,<26.0
+  - packaging >=24.0
   - psutil
-  - pulp >=2.3.1,<3.1
-  - python >=3.11,<3.13
+  - pulp >=2.3.1,<3.4
+  - python >=3.11,<3.14
   - pyyaml
+  - referencing
   - requests >=2.8.1,<3.0
-  - reretry
   - smart_open >=4.0,<8.0
   - snakemake-interface-common >=1.20.1,<2.0
   - snakemake-interface-executor-plugins >=9.3.2,<10.0
-  - snakemake-interface-logger-plugins >=1.1.0,<2.0.0
-  - snakemake-interface-report-plugins >=1.1.0,<2.0.0
-  - snakemake-interface-storage-plugins >=4.1.0,<5.0
+  - snakemake-interface-logger-plugins >=1.1.0,<3.0.0
+  - snakemake-interface-report-plugins >=1.2.0,<2.0.0
+  - snakemake-interface-scheduler-plugins >=2.0.0,<3.0.0
+  - snakemake-interface-storage-plugins >=4.3.2,<5.0
+  - sqlmodel >=0.0.37,<0.0.38
   - tabulate
+  - tenacity >=9.1.4,<10.0
   - throttler
   - wrapt
   - yte >=1.5.5,<2.0
   license: MIT
   license_family: MIT
-  purls:
-  - pkg:pypi/snakemake?source=hash-mapping
-  size: 877774
-  timestamp: 1752146131114
-- pypi: https://files.pythonhosted.org/packages/e7/9c/0e6afc12c269578be5c0c1c9f4b49a8d32770a080260c333ac04cc1c832d/soupsieve-2.7-py3-none-any.whl
-  name: soupsieve
-  version: '2.7'
-  sha256: 6e60cc5c1ffaf1cebcc12e8188320b72071e922c2e897f737cadce79ad5d30c4
-  requires_python: '>=3.8'
+  size: 883595
+  timestamp: 1776340921956
+- conda: https://conda.anaconda.org/conda-forge/linux-64/sqlalchemy-2.0.49-py312h5253ce2_0.conda
+  sha256: ab3445a03e1fe99093cac00a4f923c25e1f438cc7f7b64d254b7e4f06e52693e
+  md5: 0662f9f9ffb7ae91f2c095c77f18b9a5
+  depends:
+  - python
+  - greenlet !=0.4.17
+  - typing-extensions >=4.6.0
+  - libgcc >=14
+  - __glibc >=2.17,<3.0.a0
+  - python_abi 3.12.* *_cp312
+  license: MIT
+  license_family: MIT
+  size: 3707065
+  timestamp: 1775241332871
+- conda: https://conda.anaconda.org/conda-forge/osx-arm64/sqlalchemy-2.0.49-py312hb3ab3e3_0.conda
+  sha256: a430d00ddc75f25f112951fb4b6e6eefe5880bd9c3d3b110e8069743b6d288b0
+  md5: 93ab49fc903f4ea6ea94817ee4058ff7
+  depends:
+  - python
+  - greenlet !=0.4.17
+  - typing-extensions >=4.6.0
+  - __osx >=11.0
+  - python 3.12.* *_cpython
+  - python_abi 3.12.* *_cp312
+  license: MIT
+  license_family: MIT
+  size: 3697021
+  timestamp: 1775241400922
+- conda: https://conda.anaconda.org/conda-forge/win-64/sqlalchemy-2.0.49-py312he5662c2_0.conda
+  sha256: ee7289c97b4892fac2752d71fc773603210bf3b671c886499c7dbacad9b4c08a
+  md5: d42e4d5316b68fc70bdf09e5fccf3eb0
+  depends:
+  - python
+  - greenlet !=0.4.17
+  - typing-extensions >=4.6.0
+  - vc >=14.3,<15
+  - vc14_runtime >=14.44.35208
+  - ucrt >=10.0.20348.0
+  - python_abi 3.12.* *_cp312
+  license: MIT
+  license_family: MIT
+  size: 3665426
+  timestamp: 1775241406935
+- conda: https://conda.anaconda.org/conda-forge/noarch/sqlmodel-0.0.37-pyhcf101f3_0.conda
+  sha256: 9cbf4805021fd817fde2654ccc1a1bd0352647614819a28381e81098efe4da20
+  md5: 00e6147bef9a85139099c9861c3b976b
+  depends:
+  - python >=3.10
+  - sqlalchemy >=2.0.14,<2.1.0
+  - pydantic >=2.11.0
+  - python
+  license: MIT
+  license_family: MIT
+  size: 30854
+  timestamp: 1771872849343
 - conda: https://conda.anaconda.org/conda-forge/noarch/stack_data-0.6.3-pyhd8ed1ab_1.conda
   sha256: 570da295d421661af487f1595045760526964f41471021056e993e73089e9c41
   md5: b1b505328da7a6b246787df4b5a49fbc
@@ -7864,6 +6964,16 @@ packages:
   purls: []
   size: 151460
   timestamp: 1732982860332
+- conda: https://conda.anaconda.org/conda-forge/noarch/tenacity-9.1.4-pyhcf101f3_0.conda
+  sha256: 32e75900d6a094ffe4290a8c9f1fa15744d9da8ff617aba4acaa0f057a065c34
+  md5: 043f0599dc8aa023369deacdb5ac24eb
+  depends:
+  - python >=3.10
+  - python
+  license: Apache-2.0
+  license_family: APACHE
+  size: 31404
+  timestamp: 1770510172846
 - conda: https://conda.anaconda.org/conda-forge/noarch/throttler-1.2.2-pyhd8ed1ab_0.conda
   sha256: cdd2067b03db7ed7a958de74edc1a4f8c4ae6d0aa1a61b5b70b89de5013f0f78
   md5: 6fc48bef3b400c82abaee323a9d4e290
@@ -8137,47 +7247,6 @@ packages:
   purls: []
   size: 17888
   timestamp: 1750371463202
-- conda: https://conda.anaconda.org/conda-forge/linux-64/watchdog-6.0.0-py312h7900ff3_0.conda
-  sha256: 2436c4736b8135801f6bfcd09c7283f2d700a66a90ebd14b666b996e33ef8c9a
-  md5: 687b37d1325f228429409465e811c0bc
-  depends:
-  - python >=3.12,<3.13.0a0
-  - python_abi 3.12.* *_cp312
-  - pyyaml >=3.10
-  license: Apache-2.0
-  license_family: APACHE
-  purls:
-  - pkg:pypi/watchdog?source=hash-mapping
-  size: 140940
-  timestamp: 1730493008472
-- conda: https://conda.anaconda.org/conda-forge/osx-arm64/watchdog-6.0.0-py312hea69d52_0.conda
-  sha256: f6c2eb941ffc25fc4fc637c71a5465678ed20e57b53698020a50dca86c584f04
-  md5: ce2a02fd5a911d4eb963af9a84c00d2c
-  depends:
-  - __osx >=11.0
-  - python >=3.12,<3.13.0a0
-  - python >=3.12,<3.13.0a0 *_cpython
-  - python_abi 3.12.* *_cp312
-  - pyyaml >=3.10
-  license: Apache-2.0
-  license_family: APACHE
-  purls:
-  - pkg:pypi/watchdog?source=hash-mapping
-  size: 149164
-  timestamp: 1730493202256
-- conda: https://conda.anaconda.org/conda-forge/win-64/watchdog-6.0.0-py312h2e8e312_0.conda
-  sha256: d273308e2e936ab1963d958ecd342c77b0aa5a39d334aa4126c886e8dfd9e802
-  md5: 3b401a2d5ecf5da721aa89ffa003cd76
-  depends:
-  - python >=3.12,<3.13.0a0
-  - python_abi 3.12.* *_cp312
-  - pyyaml >=3.10
-  license: Apache-2.0
-  license_family: APACHE
-  purls:
-  - pkg:pypi/watchdog?source=hash-mapping
-  size: 165888
-  timestamp: 1730493286260
 - conda: https://conda.anaconda.org/conda-forge/linux-64/wayland-1.24.0-h3e06ad9_0.conda
   sha256: ba673427dcd480cfa9bbc262fd04a9b1ad2ed59a159bd8f7e750d4c52282f34c
   md5: 0f2ca7906bf166247d1d760c3422cb8a
diff --git a/pixi.toml b/pixi.toml
index 8639a0f..765dd42 100644
--- a/pixi.toml
+++ b/pixi.toml
@@ -1,15 +1,15 @@
-[project]
+[workspace]
 name = "module_area_potentials"
 authors = ["See AUTHORS file"]
-description = ""
+description = "This module performs geospatial analyses to determine the available land area for specific technologies, on a by-pixel basis and aggregated to given geographic boundaries."
 license = "Apache-2.0"
 readme = "README.md"
 channels = ["conda-forge", "bioconda"]
 platforms = ["win-64", "linux-64", "osx-arm64"]
-homepage = "https://clio.readthedocs.io/"
+homepage = "https://www.modelblocks.org/"
 
 [dependencies]
-clio-tools = ">=2025.03.03"
+clio-tools = ">=2026.03.30"
 conda = ">=25.0.0"
 ipdb = ">=0.13.13"
 ipykernel = ">=6.29.5"
@@ -18,8 +18,9 @@ mypy = ">=1.15.0"
 pytest = ">=8.3.5"
 python = ">=3.12"
 ruff = ">=0.9.9"
-snakefmt = ">=0.10.2"
-snakemake-minimal = ">=8.29.0"
+snakefmt = ">=0.11.4"
+snakemake-minimal = ">=9.19.0"
+pytz = ">=2026.1.post1"
 
 [tasks]
-test-integration = {cmd = "pytest tests/clio_test.py"}
+test-integration = {cmd = "pytest tests/integration_test.py"}
diff --git a/tests/integration/Snakefile b/tests/integration/Snakefile
index 61e6a94..9d66eb5 100644
--- a/tests/integration/Snakefile
+++ b/tests/integration/Snakefile
@@ -6,9 +6,9 @@ rule download_netherlands_shapes:
     message:
         "Download and unzip the Netherlands shapes."
     output:
-        "results/integration_test/resources/user/shapes/NLD.parquet",
+        "resources/inputs/shapes/NLD.parquet",
     log:
-        "results/integration_test/logs/download_netherlands_shapes.log",
+        "logs/download_netherlands_shapes.log",
     conda:
         "../../workflow/envs/shell.yaml"
     shell:
@@ -21,9 +21,9 @@ rule download_netherlands_protected_areas:
     message:
         "Download a dummy drop-in dataset for Netherlands protected areas (not based on WDPA)."
     output:
-        "results/integration_test/resources/user/wdpa.gdb.zip",
+        "resources/inputs/wdpa.gdb.zip",
     log:
-        "results/integration_test/logs/download_netherlands_protected_areas.log",
+        "logs/download_netherlands_protected_areas.log",
     conda:
         "../../workflow/envs/shell.yaml"
     shell:
@@ -39,27 +39,36 @@ rule unzip_netherlands_protected_areas:
         script=workflow.source_path("../../workflow/scripts/unzip_like.py"),
         zipfile=rules.download_netherlands_protected_areas.output,
     output:
-        directory("results/integration_test/resources/user/wdpa.gdb"),
+        directory("resources/inputs/wdpa.gdb"),
     log:
-        "results/integration_test/logs/unzip_netherlands_protected_areas.log",
+        "logs/unzip_netherlands_protected_areas.log",
     conda:
         "../../workflow/envs/shell.yaml"
     shell:
         """
-        python {input.script:q} {input.zipfile:q} -t "results/integration_test/resources/user/" 2> {log:q}
+        python {input.script:q} {input.zipfile:q} -t "resources/inputs/" 2> {log:q}
         """
 
 
 # Import the module and configure it.
 # `snakefile:` specifies the module. It can use file paths and special github(...) / gitlab(...) markers
-# `prefix:` re-routes all input/output paths of the module, helping to avoid file conflicts.
+# `config`: specifies the module configuration.
+# `pathvars:` helps you re-wire where the module places files.
 module module_area_potentials:
     snakefile:
         "../../workflow/Snakefile"
     config:
         config["module_area_potentials"]
-    prefix:
-        "results/integration_test/"
+    pathvars:
+        # Redirect specific user resources (inputs)
+        shapes="resources/inputs/shapes/{shape}.parquet",
+        wdpa="resources/inputs/wdpa.gdb",
+        # Redirect specific module results (outputs)
+        area_potential="results/outputs/{shape}/area_potential_{tech}.tif",
+        # Redirect module intermediate files
+        logs="resources/module/logs",
+        resources="resources/module/resources",
+        results="resources/module/results",
 
 
 # rename all module rules with a prefix, to avoid naming conflicts.
@@ -72,6 +81,5 @@ rule all:
         "Run the module for the Netherlands shapes."
     default_target: True
     input:
-        "results/integration_test/resources/user/shapes/NLD.parquet",
-        "results/integration_test/resources/user/wdpa.gdb",
-        "results/integration_test/results/NLD/area_potential_report.html",
+        # The report file requires all area potential output files
+        "resources/module/results/NLD/area_potential_report.html",
diff --git a/tests/clio_test.py b/tests/integration_test.py
similarity index 78%
rename from tests/clio_test.py
rename to tests/integration_test.py
index d810e92..009e87f 100644
--- a/tests/clio_test.py
+++ b/tests/integration_test.py
@@ -1,7 +1,7 @@
-"""Set of standard clio tests.
+"""Set of standard Modelblocks tests.
 
-DO NOT MANUALLY MODIFY THIS FILE!
-It should be updated through our templating functions.
+PLEASE ENSURE THIS SET OF MINIMAL TESTS WORKS BEFORE PUBLISHING YOUR MODULE.
+Contents may be updated in future template updates.
 """
 
 import subprocess
@@ -25,15 +25,18 @@ def test_interface_file(module_path):
 @pytest.mark.parametrize(
     "file",
     [
-        "CITATION.cff",
         "AUTHORS",
+        "CITATION.cff",
         "INTERFACE.yaml",
         "LICENSE",
+        "README.md",
+        "config/config.yaml",
+        "workflow/internal/config.schema.yaml",
         "tests/integration/Snakefile",
     ],
 )
 def test_standard_file_existance(module_path, file):
-    """Check that a minimal set of files used for clio automatic docs are present."""
+    """Check that a minimal set of files used for documentation are present."""
     assert Path(module_path / file).exists()
 
 
diff --git a/workflow/Snakefile b/workflow/Snakefile
index e69459b..90ac733 100644
--- a/workflow/Snakefile
+++ b/workflow/Snakefile
@@ -2,7 +2,18 @@ import yaml
 
 from snakemake.utils import min_version, validate
 
-min_version("8.10")
+min_version("9.19")
+
+
+# !!!!! IMPORTANT !!!!!
+# Define pathvars for all user resource files and result files
+# This allows users to re-wire how the module is used in their workflow with ease.
+pathvars:
+    # User resources
+    shapes="<resources>/user/shapes/{shape}.parquet",
+    wdpa="<resources>/user/wdpa.gdb",
+    # Module results
+    area_potential="<results>/{shape}/area_potential_{tech}.tif",
 
 
 # Load the example configuration. This will be overridden by users.
@@ -41,7 +52,7 @@ rule all:
     output:
         "INVALID",
     log:
-        stderr="logs/all.stderr",
+        stderr="<logs>/all.stderr",
     conda:
         "envs/shell.yaml"
     shell:
diff --git a/workflow/envs/default.yaml b/workflow/envs/default.yaml
index d1cdc61..83c6a67 100644
--- a/workflow/envs/default.yaml
+++ b/workflow/envs/default.yaml
@@ -23,3 +23,4 @@ dependencies:
   - utm=0.7.0
   - glom=24.11.0
   - dask=2025.7.0
+  - numpy=2.3.5
diff --git a/workflow/rules/automatic.smk b/workflow/rules/automatic.smk
index 76b2337..bdb6890 100644
--- a/workflow/rules/automatic.smk
+++ b/workflow/rules/automatic.smk
@@ -12,11 +12,12 @@ if config.get("tiny_files", False):
         params:
             cog_url=internal["resources"]["automatic"]["slope"],
         input:
-            vector="resources/user/shapes/{shape}.parquet",
+            vector="<shapes>",
         output:
-            path="resources/automatic/cutout/{shape}/slope.tif",
+            path="<resources>/automatic/cutout/{shape}/slope.tif",
         log:
-            "logs/{shape}/clip_slope.log",
+            "<logs>/{shape}/clip_slope.log",
+        localrule: True
         wrapper:
             "v7.2.0/geo/rasterio/clip-geotiff"
 
@@ -26,11 +27,12 @@ if config.get("tiny_files", False):
         params:
             cog_url=internal["resources"]["automatic"]["bathymetry"],
         input:
-            vector="resources/user/shapes/{shape}.parquet",
+            vector="<shapes>",
         output:
-            path="resources/automatic/cutout/{shape}/bathymetry.tif",
+            path="<resources>/automatic/cutout/{shape}/bathymetry.tif",
         log:
-            "logs/{shape}/clip_bathymetry.log",
+            "<logs>/{shape}/clip_bathymetry.log",
+        localrule: True
         wrapper:
             "v7.2.0/geo/rasterio/clip-geotiff"
 
@@ -46,11 +48,12 @@ else:
         params:
             url=internal["resources"]["automatic"]["slope"],
         output:
-            path="resources/automatic/global/slope.tif",
+            path="<resources>/automatic/global/slope.tif",
         log:
-            "logs/download_slope.log",
+            "<logs>/download_slope.log",
         conda:
             "../envs/shell.yaml"
+        localrule: True
         shell:
             """
             curl -sSLo {output:q} {params.url:q}
@@ -62,11 +65,12 @@ else:
         params:
             url=internal["resources"]["automatic"]["bathymetry"],
         output:
-            path="resources/automatic/global/bathymetry.tif",
+            path="<resources>/automatic/global/bathymetry.tif",
         log:
-            "logs/download_bathymetry.log",
+            "<logs>/download_bathymetry.log",
         conda:
             "../envs/shell.yaml"
+        localrule: True
         shell:
             """
             curl -sSLo {output:q} {params.url:q}
@@ -77,12 +81,12 @@ else:
             "Cut slope data to the bounds of the input shapefile."
         input:
             script=workflow.source_path("../scripts/clip_raster.py"),
-            shapes="resources/user/shapes/{shape}.parquet",
+            shapes="<shapes>",
             slope=rules.download_slope.output,
         output:
-            "resources/automatic/cutout/{shape}/slope.tif",
+            "<resources>/automatic/cutout/{shape}/slope.tif",
         log:
-            "logs/{shape}/clip_slope.log",
+            "<logs>/{shape}/clip_slope.log",
         conda:
             "../envs/default.yaml"
         shell:
@@ -95,12 +99,12 @@ else:
             "Cut bathymetry data to the bounds of the input shapefile."
         input:
             script=workflow.source_path("../scripts/clip_raster.py"),
-            shapes="resources/user/shapes/{shape}.parquet",
+            shapes="<shapes>",
             bathymetry=rules.download_bathymetry.output,
         output:
-            "resources/automatic/cutout/{shape}/bathymetry.tif",
+            "<resources>/automatic/cutout/{shape}/bathymetry.tif",
         log:
-            "logs/{shape}/clip_bathymetry.log",
+            "<logs>/{shape}/clip_bathymetry.log",
         conda:
             "../envs/default.yaml"
         shell:
@@ -120,11 +124,12 @@ rule download_globcover:
     params:
         url=internal["resources"]["automatic"]["globcover"],
     output:
-        "resources/automatic/global/globcover.zip",
+        "<resources>/automatic/global/globcover.zip",
     log:
-        "logs/download_globcover.log",
+        "<logs>/download_globcover.log",
     conda:
         "../envs/shell.yaml"
+    localrule: True
     shell:
         """
         curl -sSLo {output:q} {params.url:q}
@@ -140,9 +145,9 @@ rule unzip_globcover:
         script=workflow.source_path("../scripts/unzip_like.py"),
         zipfile=rules.download_globcover.output,
     output:
-        "resources/automatic/global/globcover-landcover.tif",
+        "<resources>/automatic/global/globcover-landcover.tif",
     log:
-        "logs/unzip_globcover.log",
+        "<logs>/unzip_globcover.log",
     conda:
         "../envs/shell.yaml"
     shell:
@@ -156,12 +161,12 @@ rule clip_landcover:
         "Cut land cover data to the bounds of the input shapefile."
     input:
         script=workflow.source_path("../scripts/clip_raster.py"),
-        shapes="resources/user/shapes/{shape}.parquet",
+        shapes="<shapes>",
         landcover=rules.unzip_globcover.output,
     output:
-        "resources/automatic/cutout/{shape}/landcover.tif",
+        "<resources>/automatic/cutout/{shape}/landcover.tif",
     log:
-        "logs/{shape}/clip_landcover.log",
+        "<logs>/{shape}/clip_landcover.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -181,11 +186,12 @@ rule download_ghsl:
     params:
         url=internal["resources"]["automatic"]["ghsl"],
     output:
-        "resources/automatic/global/ghsl_built_s.zip",
+        "<resources>/automatic/global/ghsl_built_s.zip",
     log:
-        "logs/download_ghsl.log",
+        "<logs>/download_ghsl.log",
     conda:
         "../envs/shell.yaml"
+    localrule: True
     shell:
         """
         curl -sSLo {output:q} {params.url:q}
@@ -201,9 +207,9 @@ rule unzip_ghsl:
         script=workflow.source_path("../scripts/unzip_like.py"),
         zipfile=rules.download_ghsl.output,
     output:
-        "resources/automatic/global/ghsl_built_s.tif",
+        "<resources>/automatic/global/ghsl_built_s.tif",
     log:
-        "logs/unzip_ghsl.log",
+        "<logs>/unzip_ghsl.log",
     conda:
         "../envs/shell.yaml"
     shell:
@@ -217,12 +223,12 @@ rule clip_settlement:
         "Cut settlement data to the bounds of the input shapefile."
     input:
         script=workflow.source_path("../scripts/clip_raster.py"),
-        shapes="resources/user/shapes/{shape}.parquet",
+        shapes="<shapes>",
         settlement=rules.unzip_ghsl.output,
     output:
-        "resources/automatic/cutout/{shape}/settlement.tif",
+        "<resources>/automatic/cutout/{shape}/settlement.tif",
     log:
-        "logs/{shape}/clip_settlement.log",
+        "<logs>/{shape}/clip_settlement.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -241,13 +247,13 @@ rule rasterise_clip_wdpa:
         "Rasterise and cut WDPA data to the bounds of the input shapefile, using the landcover raster as reference for the rasterisation."
     input:
         script=workflow.source_path("../scripts/clip_and_rasterise_polys.py"),
-        shapes="resources/user/shapes/{shape}.parquet",
+        shapes="<shapes>",
         reference_raster=rules.clip_landcover.output,
-        protected_areas="resources/user/wdpa.gdb",
+        protected_areas="<wdpa>",
     output:
-        "resources/automatic/cutout/{shape}/wdpa.tif",
+        "<resources>/automatic/cutout/{shape}/wdpa.tif",
     log:
-        "logs/{shape}/clip_wdpa.log",
+        "<logs>/{shape}/clip_wdpa.log",
     conda:
         "../envs/default.yaml"
     shell:
diff --git a/workflow/rules/functions.smk b/workflow/rules/functions.smk
index 238da9e..89a7fd0 100644
--- a/workflow/rules/functions.smk
+++ b/workflow/rules/functions.smk
@@ -1,7 +1,7 @@
 def get_subunits(wildcards):
     checkpoint_output = checkpoints.breakup_shape.get(**wildcards).output[0]
     return expand(
-        "results/{{shape}}/{subunit}/area_potential_{{tech}}.tif",
+        "<results>/{{shape}}/{subunit}/area_potential_{{tech}}.tif",
         subunit=glob_wildcards(
             os.path.join(checkpoint_output, "{subunit}.parquet")
         ).subunit,
diff --git a/workflow/rules/process.smk b/workflow/rules/process.smk
index f3b7ce2..64053b1 100644
--- a/workflow/rules/process.smk
+++ b/workflow/rules/process.smk
@@ -5,11 +5,11 @@ checkpoint breakup_shape:
         split_by=config["split_by"],
     input:
         script=workflow.source_path("../scripts/breakup_shape.py"),
-        shapes="resources/user/shapes/{shape}.parquet",
+        shapes="<shapes>",
     output:
-        directory("resources/automatic/shapes/{shape}"),
+        directory("<resources>/automatic/shapes/{shape}"),
     log:
-        "logs/{shape}/breakup_shape.log",
+        "<logs>/{shape}/breakup_shape.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -34,13 +34,13 @@ rule prepare_resampled_inputs:
         bathymetry_path=rules.clip_bathymetry.output,
         protected_area_path=rules.rasterise_clip_wdpa.output,
     output:
-        resampled_input="resources/automatic/resampled_inputs/{shape}/{subunit}.nc",
+        resampled_input="<resources>/automatic/resampled_inputs/{shape}/{subunit}.nc",
         plot=report(
-            "resources/automatic/resampled_inputs/{shape}/{subunit}.png",
+            "<resources>/automatic/resampled_inputs/{shape}/{subunit}.png",
             category="resampled_input",
         ),
     log:
-        "logs/{shape}/{subunit}/prepare_resampled_inputs.log",
+        "<logs>/{shape}/{subunit}/prepare_resampled_inputs.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -67,13 +67,13 @@ rule area_potential:
         shapes=rules.breakup_shape.output,
         resampled_path=rules.prepare_resampled_inputs.output.resampled_input,
     output:
-        area_potential="results/{shape}/{subunit}/area_potential_{tech}.tif",
+        area_potential="<results>/{shape}/{subunit}/area_potential_{tech}.tif",
         plot=report(
-            "results/{shape}/{subunit}/area_potential_{tech}.png",
+            "<results>/{shape}/{subunit}/area_potential_{tech}.png",
             category="area_potential",
         ),
     log:
-        "logs/{shape}/{subunit}/area_potential_{tech}.log",
+        "<logs>/{shape}/{subunit}/area_potential_{tech}.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -88,9 +88,9 @@ rule aggregate_area_potential:
     input:
         get_subunits,
     output:
-        aggregated_area_potential="results/{shape}/area_potential_{tech}.tif",
+        aggregated_area_potential="<area_potential>",
     log:
-        "logs/{shape}/aggregate_area_potential_{tech}.log",
+        "<logs>/{shape}/aggregate_area_potential_{tech}.log",
     conda:
         "../envs/default.yaml"
     shell:
@@ -106,10 +106,11 @@ rule plot_aggregated_area_potential:
         rules.aggregate_area_potential.output.aggregated_area_potential,
     output:
         report(
-            "results/{shape}/area_potential_{tech}.png", category="area_potential_plot"
+            "<results>/{shape}/area_potential_{tech}.png",
+            category="area_potential_plot",
         ),
     log:
-        "logs/{shape}/plot_aggregated_area_potential_{tech}.log",
+        "<logs>/{shape}/plot_aggregated_area_potential_{tech}.log",
     conda:
         "../envs/default.yaml"
     script:
@@ -120,23 +121,24 @@ rule area_potential_report:
     message:
         "Generate an overview report of the area potential for all techs in shapes {wildcards.shape}."
     input:
-        shapes="resources/user/shapes/{shape}.parquet",
+        shapes="<shapes>",
         area_potentials=expand(
-            "results/{{shape}}/area_potential_{tech}.tif",
+            workflow.pathvars.apply("<area_potential>"),
             tech=config["techs"].keys(),
+            allow_missing=True,
         ),
         area_potential_plots=expand(
-            "results/{{shape}}/area_potential_{tech}.png",
+            "<results>/{{shape}}/area_potential_{tech}.png",
             tech=config["techs"].keys(),
         ),
     output:
-        csv="results/{shape}/area_potential_report.csv",
+        csv="<results>/{shape}/area_potential_report.csv",
         html=report(
-            "results/{shape}/area_potential_report.html",
+            "<results>/{shape}/area_potential_report.html",
             category="area_potential_report_table",
         ),
     log:
-        "logs/{shape}/area_potential_report.log",
+        "<logs>/{shape}/area_potential_report.log",
     conda:
         "../envs/default.yaml"
     script: