Merge branch 'main' into auto-update-10.5281/zenodo.7274275

bioimage-io · Jan 9, 2024 · eb09e0f · eb09e0f
2 parents a0ff072 + c3842b0
commit eb09e0f
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Showing 3 changed files with 13 additions and 6 deletions.
diff --git a/.github/workflows/validate_resources.yaml b/.github/workflows/validate_resources.yaml
@@ -52,7 +52,7 @@ jobs:
           - conda-forge
         create-args: >-  # script dependencies
           bioimageio.core
-          bioimageio.spec
+          bioimageio.spec>=0.4.9.post5
           lxml
           packaging
           typer

diff --git a/collection_rdf_template.yaml b/collection_rdf_template.yaml
@@ -39,7 +39,7 @@ config:
       branch: master
       collection_file_name: manifest.bioimage.io.yaml
     - id: deepimagej
-      repository: fynnbe/models
+      repository: deepimagej/models
       branch: master
       collection_file_name: manifest.bioimage.io.yaml
       test_summaries:
@@ -82,5 +82,8 @@ config:
       repository: stardist/stardist-bioimage-io
       branch: main
       collection_file_name: collection.yaml
-
+    - id: biapy
+      repository: danifranco/BiaPy-bioimage-io
+      branch: main
+      collection_file_name: collection.yaml
 collection: []
diff --git a/scripts/download_documentation.py b/scripts/download_documentation.py
@@ -9,7 +9,8 @@
 
 
 def main(
-    folder: Path = Path(__file__).parent / "../dist",  # nested folders with rdf.yaml files
+    folder: Path = Path(__file__).parent
+    / "../dist",  # nested folders with rdf.yaml files
 ):
     """Download the documentation file for every rdf.yaml found in (subfolders of) folder"""
     if not folder.exists():
@@ -34,9 +35,12 @@ def main(
 
         try:
             resolve_source(
-                doc_uri, output=rdf_path.with_name(f"documentation.{type_ext}"), pbar=partial(tqdm, disable=True)
+                doc_uri,
+                output=rdf_path.with_name(f"documentation.{type_ext}"),
+                pbar=partial(tqdm, disable=True),
             )
-        except ValueError:
+        except Exception as e:
+            warnings.warn(f"failed to resolve doc_ui: {e}")
             _ = rdf_path.with_name("documentation.md").write_text(doc_uri)