v2.0.0 (#54)

- [x] introduce new simplified mapping file schema
- [x] introduce qudt and csvw for table annotation
- [x] introduce pydantic into the package
- [x] make method graph optional
- [x] introduce new standard method graph using provo
- [x] general package maintainance
- [x] refactor modules
- [x] add utility to read qudt-mapping from unit-symbols
- [x] add utility to generate subgraph for quantity description using qudt
- [x] support json files as input for mapping files
- [x] drop unneeded intermediate file outputs
- [x] update excel parser with new parsing logic
- [x] add json parser
- [x] add TBox mode for writing ontology classes
- [x] update documentation

.github/workflows/ci.yml

@@ -27,7 +27,7 @@ jobs:
         strategy:
             fail-fast: false
             matrix:
-                python-version: ['3.8', '3.9', '3.10']
+                python-version: ['3.9', '3.10', '3.11', '3.12']
 
         steps:
 

.pre-commit-config.yaml

@@ -34,7 +34,7 @@ repos:
       rev: 6.0.0
       hooks:
           - id: flake8
-            args: [--count, --show-source, --statistics, '--ignore', 'E501,E203,W503']
+            args: [--count, --show-source, --statistics, '--ignore', 'E501,E203,W503,E201,E202,E221,E222,E231,E241,E271,E272,E702,E713']
             # additional_dependencies: [flake8-bugbear==21.3.1, pep8-naming]
             log_file: flake8.log
 

README.md

@@ -1,9 +1,12 @@
 # data2rdf
 
-A pipeline for generating data representation in RDF out of raw data given in ASCII, CSV or EXCEL format.
+A pipeline for generating data representation in RDF out of raw data given in ASCII, CSV, JSON or EXCEL format.
 
 https://data2rdf.readthedocs.io/en/latest/
 
+<!-- Pytest Coverage Comment:Begin -->
+<!-- Pytest Coverage Comment:End -->
+
 # Installation
 
 ## Install for using the package
@@ -23,24 +26,19 @@ cd data2rdf
 pip install -e .
 ```
 
-## Windows specific
+# Unit tests
 
-In windows it might be necessary to install curses manually. This can be done with:
+Before running the unit tests, please install the needed packages:
 
+```{bash}
+pip install data2rdf[tests]
 ```
-pip install windows-curses
-```
-
-## Debug a Chowlk XML File
 
-In some cases when the syntax of the draw.io file is not correct (e.g.: missing label on arrow, bracket in class file) chowlk crashes. The only (pretty annoying but working) way to find the wrong syntax is to execute chowlk with the command line for that file and inclemently remove elements from the draw.io diagram. This way you can find the wrong syntax by process of elimination.
+Afterwards, run the unittest with:
 
-# Version Updates
-
-* Chowlk is installed via pip through the dependencies
-* Running csv and excel pipeline
-* Abox pipeline CLI
-* Unnittest for csv and excel pipeline and abox pipeline
+```{bash}
+pytest
+```
 
 # Building the docs locally
 ### HTML

data2rdf/__init__.py

@@ -0,0 +1,22 @@
+"""Data2RDF"""
+
+from .config import Config
+from .parsers import Parser
+from .pipelines import Data2RDF
+
+from .models import (  # isort:skip
+    ABoxBaseMapping,
+    BasicConceptMapping,
+    PropertyGraph,
+    QuantityGraph,
+)
+
+__all__ = [
+    "Data2RDF",
+    "Config",
+    "QuantityGraph",
+    "PropertyGraph",
+    "ABoxBaseMapping",
+    "BasicConceptMapping",
+    "Parser",
+]