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Author: Fxe

modelseedpy/core/msbuilder.py

@@ -287,7 +287,13 @@ def build_gpr(cpx_gene_role):
 
 class MSBuilder:
     def __init__(
-        self, genome, template=None, name=None, ontology_term="RAST", index="0", template_core=None,
+        self,
+        genome,
+        template=None,
+        name=None,
+        ontology_term="RAST",
+        index="0",
+        template_core=None,
     ):
         """
 

modelseedpy/core/msgenome.py

@@ -47,7 +47,7 @@ def to_fasta(features: Iterable[MSFeature], filename, line_size=80, fn_header=No
                 fh.write(h)
                 _seq = feature.seq
                 lines = [
-                    _seq[i: i + line_size] + "\n"
+                    _seq[i : i + line_size] + "\n"
                     for i in range(0, len(_seq), line_size)
                 ]
                 for line in lines:

modelseedpy/core/rast_client.py

@@ -100,7 +100,8 @@ def annotate_protein_sequence(self, protein_id: str, protein_seq: str):
     def annotate_protein_batch(self, protein_batch: dict):
         protein_annotations = {}
         features = [
-            {"id": _id, "protein_translation": seq} for _id, seq in protein_batch.items()
+            {"id": _id, "protein_translation": seq}
+            for _id, seq in protein_batch.items()
         ]
         params = [{"features": features}, {"stages": self.stages}]
         result = self.rpc_client.call("GenomeAnnotation.run_pipeline", params)