collapse annotation helper types (#406)

Collapses the three intermediate annotation types into a single Alignment struct.
10XGenomics · Apr 17, 2024 · d8eeecc · d8eeecc
1 parent 548f871
commit d8eeecc
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Showing 3 changed files with 186 additions and 237 deletions.
diff --git a/enclone_args/src/read_json.rs b/enclone_args/src/read_json.rs
@@ -142,8 +142,7 @@ fn process_json_annotation(
     // Reannotate.
     if reannotate || ctl.gen_opt.reprod {
         let x = DnaString::from_dna_string(&ann.sequence);
-        let mut ann1 = Vec::<Annotation>::new();
-        annotate_seq(&x, refdata, &mut ann1, true, false, true);
+        let mut ann1 = annotate_seq(&x, refdata, true, false, true);
 
         // If there are multiple V segment alignments, possibly reduce to just one.