Merge pull request #77 from nfdi-de/#63-rename-to-chem-dcat-ap

#63 rename dcat-4C-ap / dcat_4c_ap to chem-dcat-ap/chem_dcat_ap everywhere

Author: StroemPhi

.copier-answers.yml

@@ -9,9 +9,7 @@ gh_action_docs_preview: true
 gh_action_pypi: true
 github_org: StroemPhi
 license: MIT
-project_description: This is an extension of the DCAT Application Profile in LinkML.
-    It is intended to be used by NFDI4Chem & NFDI4Cat as a core that can further be
-    extended in profiles to provide domain specific metadata for a dataset.
-project_name: dcat-4C-ap
-project_slug: dcat_4c_ap
+project_description: This is an extension of the DCAT Application Profile in LinkML. It is intended to be used by NFDI4Chem & NFDI4Cat as a core that can further be extended in profiles to provide domain specific metadata for a dataset.
+project_name: chem-dcat-ap
+project_slug: chem_dcat_ap
 

README.md

@@ -24,10 +24,10 @@ https://nfdi-de.github.io/chem-dcat-ap
 * [examples/](examples/) - example data and code
 * [project/](project/) - project files (do not edit these)
 * [src/](src/) - source files (edit these)
-  * [dcat_4c_ap](src/dcat_4c_ap)
-    * [schema](src/dcat_4c_ap/schema) -- LinkML schema
+  * [chem_dcat_ap](src/chem_dcat_ap)
+    * [schema](src/chem_dcat_ap/schema) -- LinkML schema
       (edit this)
-    * [datamodel](src/dcat_4c_ap/datamodel) -- generated
+    * [datamodel](src/chem_dcat_ap/datamodel) -- generated
       Python datamodel
 * [tests/](tests/) - Python tests
 
@@ -77,52 +77,52 @@ Validate and test all: `just test`
 Validate a single example dataset using LinkML's validator framework:
   * Validate domain agnostic DCAT-AP extension conform example
     ````commandline
-    uv run linkml validate tests/data/valid/AnalysisDataset-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -C AnalysisDataset
+    uv run linkml validate tests/data/valid/AnalysisDataset-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -C AnalysisDataset
     ````
   * Validate a NMR spectroscopy-specific DCAT-AP extension conform example
     ````commandline
-    uv run linkml validate tests/data/valid/NMRAnalysisDataset-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -C NMRAnalysisDataset
+    uv run linkml validate tests/data/valid/NMRAnalysisDataset-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -C NMRAnalysisDataset
     ````
   * Validate a ChemicalReaction specific DCAT-AP extension conform example
     ````commandline
-    uv run linkml validate tests/data/valid/ChemicalReaction-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -C ChemicalReaction
+    uv run linkml validate tests/data/valid/ChemicalReaction-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -C ChemicalReaction
     ````
   * Validate a SubstanceSample specific DCAT-AP extension conform example
     ````commandline
-    uv run linkml validate tests/data/valid/SubstanceSample-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -C SubstanceSample
+    uv run linkml validate tests/data/valid/SubstanceSample-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -C SubstanceSample
     ````
   * Validate a MaterialSample specific DCAT-AP extension conform example
     ````commandline
-    uv run linkml validate tests/data/valid/MaterialSample-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -C MaterialSample
+    uv run linkml validate tests/data/valid/MaterialSample-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -C MaterialSample
     ````
 
 To convert the test datasets of each DCAT-AP profile into a TTL graph run:
   * Convert domain agnostic DCAT-AP extension conform example of an analysis
     ````commandline
-    uv run linkml-convert -t ttl tests/data/valid/AnalysisDataset-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C AnalysisDataset
+    uv run linkml-convert -t ttl tests/data/valid/AnalysisDataset-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C AnalysisDataset
     ````
   * Convert a NMR spectroscopy-specific DCAT-AP extension conform example
     ````commandline
-    uv run linkml-convert -t ttl tests/data/valid/NMRAnalysisDataset-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C NMRAnalysisDataset
+    uv run linkml-convert -t ttl tests/data/valid/NMRAnalysisDataset-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C NMRAnalysisDataset
     ````
   * Convert domain agnostic DCAT-AP extension conform example of a MaterialSample
     ````commandline
-    uv run linkml-convert -t ttl tests/data/valid/MaterialSample-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C MaterialSample
+    uv run linkml-convert -t ttl tests/data/valid/MaterialSample-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C MaterialSample
     ````
   * Convert domain agnostic DCAT-AP extension conform example of a SubstanceSample
     ````commandline
-    uv run linkml-convert -t ttl tests/data/valid/SubstanceSample-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C SubstanceSample
+    uv run linkml-convert -t ttl tests/data/valid/SubstanceSample-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C SubstanceSample
     ````
   * Convert domain agnostic DCAT-AP extension conform example of a ChemicalReaction
     ````commandline
-    uv run linkml-convert -t ttl tests/data/valid/ChemicalReaction-001.yaml -s src/dcat_4c_ap/schema/dcat_4c_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C ChemicalReaction
+    uv run linkml-convert -t ttl tests/data/valid/ChemicalReaction-001.yaml -s src/chem_dcat_ap/schema/chem_dcat_ap.yaml -P "_base=https://search.nfdi4chem.de/dataset/" -C ChemicalReaction
     ````
 ### Build GitHub pages docs locally
     ````commandline
     uv run mkdocs serve
     ````
     ````commandline
-    rm -rf docs/elements/*.md && uv run gen-doc  -d docs/elements src/dcat_4c_ap/schema/dcat_4c_ap.yaml
+    rm -rf docs/elements/*.md && uv run gen-doc  -d docs/elements src/chem_dcat_ap/schema/chem_dcat_ap.yaml
     ````
 
 ## Credits

config.public.mk

@@ -6,10 +6,10 @@
 
 # Note:
 # - just works fine with quoted variables of dot-env files like this one
-LINKML_SCHEMA_NAME="dcat_4c_ap"
+LINKML_SCHEMA_NAME="chem_dcat_ap"
 LINKML_SCHEMA_AUTHOR="Philip Strömert <philip.stroemert@tib.eu>"
 LINKML_SCHEMA_DESCRIPTION="This is an extension of the DCAT Application Profile in LinkML. It is intended to be used by NFDI4Chem & NFDI4Cat as a core that can further be extended in profiles to provide domain specific metadata for a dataset."
-LINKML_SCHEMA_SOURCE_DIR="src/dcat_4c_ap/schema"
+LINKML_SCHEMA_SOURCE_DIR="src/chem_dcat_ap/schema"
 
 ###### linkml generator variables, used by justfile
 

docs/about.md

@@ -1,3 +1,3 @@
-# dcat-4C-ap
+# ChemDCAT-AP
 
 This is an extension of the DCAT Application Profile in LinkML. It is intended to be used by NFDI4Chem & NFDI4Cat as a core that can further be extended in profiles to provide domain specific metadata for a dataset.

docs/index.md

@@ -1,8 +1,8 @@
-# DCAT-4C-AP
+# ChemDCAT-AP
 
 This is an extension of the DCAT Application Profile in LinkML. It is intended to be used by NFDI4Chem & NFDI4Cat as a core that can further be extended in profiles to provide domain specific metadata for a dataset.
 
-URI: https://nfdi-de.github.io/chem-dcat-ap/dcat_4c_ap.yaml
+URI: https://w3id.org/nfdi-de/dcat-ap-plus/chemistry/
 
 - Auto-generated [schema documentation](elements/index.md)
 - License: MIT