def process_run_annotations(self, run):
"""``process_run_annotations`` hook implementation."""
from renku.core.models.cwl.annotation import Annotation
return [
Annotation(id='_:annotation',
source='Dummy ProcessRun Hook',
body='dummy ProcessRun hook body')
]
def cmdline_tool_annotations(self, tool):
"""``cmdline_tool_annotations`` hook implementation."""
from renku.core.models.cwl.annotation import Annotation
return [
Annotation(id='_:annotation',
source='Dummy Cmdline Hook',
body='dummy cmdline hook body')
]
def process_run_annotations(self, run):
"""``process_run_annotations`` hook implementation."""
from renku.core.models.cwl.annotation import Annotation
return [
Annotation(id="_:annotation",
source="Dummy ProcessRun Hook",
body="dummy ProcessRun hook body")
]
def cmdline_tool_annotations(self, tool):
"""``cmdline_tool_annotations`` hook implementation."""
from renku.core.models.cwl.annotation import Annotation
return [
Annotation(id="_:annotation",
source="Dummy Cmdline Hook",
body="dummy cmdline hook body")
]
def process_run_annotations(run):
"""``process_run_annotations`` hook implementation."""
mls = MLS(run)
for p in run.paths:
if p.startswith(str(mls.renku_mls_path)):
path = Path(p)
annotation_id = "{activity}/annotations/mls/{id}".format(
activity=run._id, id=path.parts[-2])
return [
Annotation(id=annotation_id,
source="MLS plugin",
body=mls.load_model(path))
]
return []
def process_run_annotations(run):
"""``process_run_annotations`` hook implementation."""
aqs = AQS(run)
#os.remove(os.path.join(aqs.renku_aqs_path, "site.py"))
path = pathlib.Path("../sitecustomize.py")
if path.exists():
path.unlink()
annotations = []
print("process_run_annotations")
if os.path.exists(aqs.renku_aqs_path):
for p in aqs.renku_aqs_path.iterdir():
if p.match("*json"):
print(f"found json annotation: {p}")
print(open(p).read())
elif p.match("*jsonld"):
print(
f"found jsonLD annotation: {p}\n",
json.dumps(json.load(p.open()), sort_keys=True, indent=4))
# this will make annotations according to https://odahub.io/ontology/
aqs_annotation = aqs.load_model(p)
model_id = aqs_annotation["@id"]
annotation_id = "{activity}/annotations/aqs/{id}".format(
activity=run._id, id=model_id)
p.unlink()
annotations.append(
Annotation(id=annotation_id,
source="AQS plugin",
body=aqs_annotation))
else:
print("nothing to process in process_run_annotations")
return annotations