From e5c6af77202c042ed3dfc88c3a0319efb4f8a8c0 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Sun, 27 Aug 2017 14:25:01 +0100 Subject: [PATCH] JAL-2693 TODO comments --- src/jalview/structure/StructureSelectionManager.java | 4 +++- src/jalview/structures/models/AAStructureBindingModel.java | 2 ++ 2 files changed, 5 insertions(+), 1 deletion(-) diff --git a/src/jalview/structure/StructureSelectionManager.java b/src/jalview/structure/StructureSelectionManager.java index fbfa486..b973f45 100644 --- a/src/jalview/structure/StructureSelectionManager.java +++ b/src/jalview/structure/StructureSelectionManager.java @@ -340,7 +340,9 @@ public class StructureSelectionManager * - one or more sequences to be mapped to pdbFile * @param targetChainIds * - optional chain specification for mapping each sequence to pdb - * (may be nill, individual elements may be nill) + * (may be nill, individual elements may be nill) - JBPNote: JAL-2693 + * - this should be List>, empty lists indicate no + * predefined mappings * @param pdbFile * - structure data resource * @param sourceType diff --git a/src/jalview/structures/models/AAStructureBindingModel.java b/src/jalview/structures/models/AAStructureBindingModel.java index a3c4beb..ffd865f 100644 --- a/src/jalview/structures/models/AAStructureBindingModel.java +++ b/src/jalview/structures/models/AAStructureBindingModel.java @@ -162,6 +162,8 @@ public abstract class AAStructureBindingModel * final count of chain mappings discovered */ int chainmaps = 0; + // JBPNote: JAL-2693 - this should be a list of chain mappings per + // [pdbentry][sequence] String[][] newchains = new String[pdbEntry.length][]; int pe = 0; for (PDBEntry pdb : pdbEntry) -- 1.7.10.2