Merge branch 'nfdi4cat:main' into main

.github/workflows/ci-pr.yml

@@ -59,7 +59,7 @@ jobs:
           python -m pip install --upgrade pip setuptools wheel
 
           # install tagged version
-          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.1
+          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.2
           # python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@main
 
           # install custom pylode 2.x  (adds sorted collections,

.github/workflows/merge.yml

@@ -53,7 +53,7 @@ jobs:
           python -m pip install --upgrade pip setuptools wheel
 
           # install tagged version
-          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.1
+          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.2
           # python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@main
 
           # install custom pylode 2.x

.github/workflows/publish.yml

@@ -53,7 +53,7 @@ jobs:
           python -m pip install --upgrade pip setuptools wheel
 
           # install tagged version
-          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.1
+          python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@v0.8.2
           # python -m pip install git+https://github.com/nfdi4cat/voc4cat-tool.git@main
 
           # install custom pylode 2.x

idranges.toml

@@ -54,13 +54,13 @@ ror_id = ""
 
 [vocabs.biocatalysis_demo]
 id_length = 7
-permanent_iri_part = "https://example.org/voc4cat_biocatalysis/"
+permanent_iri_part = "https://w3id.org/nfdi4cat/voc4cat_biocat"
 
 [vocabs.biocatalysis_demo.checks]
 allow_delete = false
 
 [vocabs.biocatalysis_demo.prefix_map]
-v4c-bc = "https://example.org/voc4cat_biocatalysis/"
+v4c-bc = "https://w3id.org/nfdi4cat/voc4cat_biocat"
 
 [[vocabs.biocatalysis_demo.id_range]]
 first_id = 1

test_xlsx_locally.bat

@@ -0,0 +1,23 @@
+@echo off
+rem This script runs the key steps from the gh-action pipeline locally
+rem which may help to spot problems before submitting an exlsx file
+rem in a pull request. Using this script is completely optional.
+rem Make sure you have voc4cat-tool installed (https://pypi.org/project/voc4cat/)
+
+rem check inbox file names
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log --ci-pre inbox-excel-vocabs/ vocabularies
+
+rem check xlsx file(s). If the check fails, write annotated file to outbox.
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log --outdir outbox inbox-excel-vocabs/
+
+rem convert file(s) from xlsx in inbox to turtle in outbox
+voc4cat convert --config idranges.toml --logfile outbox/voc4cat.log --outdir outbox inbox-excel-vocabs/
+
+rem post-convert checks of all ttl file(s) in outbox
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log outbox/
+
+rem build HTML documentation
+voc4cat docs --logfile outbox/voc4cat.log --force outbox/
+
+rem Split vocabulary and merge into vocabulary dir (in PR branch)
+voc4cat transform --split --inplace --logfile outbox/voc4cat.log --outdir outbox_new_voc outbox/

test_xlsx_locally.sh

@@ -0,0 +1,22 @@
+# This script runs the key steps from the gh-action pipeline locally
+# which may help to spot problems before submitting an exlsx file
+# in a pull request. Using this script is completely optional.
+# Make sure you have voc4cat-tool installed (https://pypi.org/project/voc4cat/)
+
+# check inbox file names
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log --ci-pre inbox-excel-vocabs/ vocabularies
+
+# check xlsx file(s). If the check fails, write annotated file to outbox.
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log --outdir outbox inbox-excel-vocabs/
+
+# convert file(s) from xlsx in inbox to turtle in outbox
+voc4cat convert --config idranges.toml --logfile outbox/voc4cat.log --outdir outbox inbox-excel-vocabs/
+
+# post-convert checks of all ttl file(s) in outbox
+voc4cat check --config idranges.toml --logfile outbox/voc4cat.log outbox/
+
+# build HTML documentation
+voc4cat docs --logfile outbox/voc4cat.log --force outbox/
+
+# Split vocabulary and merge into vocabulary dir (in PR branch)
+voc4cat transform --split --inplace --logfile outbox/voc4cat.log --outdir outbox_new_voc outbox/