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| author | Peter Amstutz | 2020-04-20 12:55:18 -0400 |
|---|---|---|
| committer | Peter Amstutz | 2020-04-20 12:55:18 -0400 |
| commit | d781e42c9adac07253cb928ae66e9b7314710267 (patch) | |
| tree | 4718165cbc069169eaff98080c61c5f07763ffc1 /workflows/pangenome-generate/merge-metadata.py | |
| parent | 1219eaf496c899f3043b90e30eb956f0f363bfb3 (diff) | |
| download | bh20-seq-resource-d781e42c9adac07253cb928ae66e9b7314710267.tar.gz bh20-seq-resource-d781e42c9adac07253cb928ae66e9b7314710267.tar.lz bh20-seq-resource-d781e42c9adac07253cb928ae66e9b7314710267.zip | |
Move workflows into main repo
Arvados-DCO-1.1-Signed-off-by: Peter Amstutz <peter.amstutz@curii.com>
Diffstat (limited to 'workflows/pangenome-generate/merge-metadata.py')
| -rw-r--r-- | workflows/pangenome-generate/merge-metadata.py | 17 |
1 files changed, 17 insertions, 0 deletions
diff --git a/workflows/pangenome-generate/merge-metadata.py b/workflows/pangenome-generate/merge-metadata.py new file mode 100644 index 0000000..64275b1 --- /dev/null +++ b/workflows/pangenome-generate/merge-metadata.py @@ -0,0 +1,17 @@ +import schema_salad.schema +import schema_salad.jsonld_context + +metadataSchema = '$(inputs.metadataSchema.path)' +metadata = $(inputs.metadata) +subjects = $(inputs.subjects) + +(document_loader, + avsc_names, + schema_metadata, + metaschema_loader) = schema_salad.schema.load_schema(metadataSchema) + +for i, m in enumerate(metadata): + doc, metadata = schema_salad.schema.load_and_validate(document_loader, avsc_names, m["path"], True) + doc["id"] = subjects[i] + g = schema_salad.jsonld_context.makerdf(subjects[i], doc, document_loader.ctx) + print(g.serialize(format="ntriples").decode("utf-8")) |