update the RDF writer to be compatible with latest changes of Biocypher.

biocypher/_core.py

@@ -287,7 +287,7 @@ def write_nodes(
             tnodes = nodes
         # write node files
         return self._writer.write_nodes(
-            tnodes, batch_size=batch_size, force=force
+            tnodes, batch_size=batch_size
         )
 
     def write_edges(self, edges, batch_size: int = int(1e6)) -> bool:

biocypher/write/_batch_writer.py

@@ -117,6 +117,7 @@ def __init__(
         db_password: str = None,
         db_host: str = None,
         db_port: str = None,
+        rdf_format: str = None
     ):
         """
 
@@ -202,6 +203,7 @@ class contains all methods expected by a bach writer instance, some of
         self.db_password = db_password
         self.db_host = db_host or "localhost"
         self.db_port = db_port
+        self.rdf_format = rdf_format
 
         self.delim, self.escaped_delim = self._process_delimiter(delimiter)
         self.adelim, self.escaped_adelim = self._process_delimiter(

biocypher/write/_write.py

@@ -18,6 +18,7 @@
 from biocypher.write.graph._arangodb import _ArangoDBBatchWriter
 from biocypher.write.relational._sqlite import _SQLiteBatchWriter
 from biocypher.write.relational._postgresql import _PostgreSQLBatchWriter
+from biocypher.write.relational._rdf import _RDFwriter
 
 logger.debug(f"Loading module {__name__}.")
 
@@ -43,6 +44,8 @@
     "ArangoDB": _ArangoDBBatchWriter,
     "sqlite": _SQLiteBatchWriter,
     "sqlite3": _SQLiteBatchWriter,
+    "rdf": _RDFwriter,
+    "RDF": _RDFwriter,
 }
 
 
@@ -102,4 +105,5 @@ def get_writer(
             db_user=dbms_config.get("user"),  # psql
             db_password=dbms_config.get("password"),  # psql
             db_port=dbms_config.get("port"),  # psql
+            rdf_format= dbms_config.get("rdf_format")
         )