Merge pull request #3354 from mashehu/fix-ro-crate-in-bump-version

Fix ro crate in bump version

Author: mirpedrol

nf_core/pipelines/bump_version.py

@@ -128,8 +128,9 @@ def bump_pipeline_version(pipeline_obj: Pipeline, new_version: str) -> None:
         yaml_key=["template", "version"],
     )
 
-    # update rocrate
-    ROCrate(pipeline_obj.wf_path).update_rocrate()
+    # update rocrate if ro-crate is present
+    if Path(pipeline_obj.wf_path, "ro-crate-metadata.json").exists():
+        ROCrate(pipeline_obj.wf_path).update_rocrate()
 
 
 def bump_nextflow_version(pipeline_obj: Pipeline, new_version: str) -> None:

nf_core/utils.py

@@ -1083,7 +1083,7 @@ def get_repo_releases_branches(pipeline, wfs):
             raise AssertionError(f"Not able to find pipeline '{pipeline}'")
 
     # Get branch information from github api - should be no need to check if the repo exists again
-    branch_response = gh_api.safe_get(f"https://api.github.com/repos/{pipeline}/branches")
+    branch_response = gh_api.safe_get(f"https://api.github.com/repos/{pipeline}/branches?per_page=100")
     for branch in branch_response.json():
         if (
             branch["name"] != "TEMPLATE"