When linting, add quay.io when we think it is a biocontainer

nf-core · Apr 26, 2023 · 472b4f1 · 472b4f1
1 parent 650858e
commit 472b4f1
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/nf_core/modules/lint/main_nf.py b/nf_core/modules/lint/main_nf.py
@@ -307,6 +307,9 @@ def check_process_section(self, lines, fix_version, progress_bar):
             else:
                 self.failed.append(("docker_tag", "Unable to parse docker tag", self.main_nf))
                 docker_tag = None
+            if l.startswith("biocontainers/"):
+                # When we think it is a biocontainer, assume we are querying quay.io/biocontainers and insert quay.io as prefix
+                l = "quay.io/" + l
             url = urlparse(l.split("'")[0])
             # lint double quotes
             if l.count('"') > 2: