From: James Procter <j.procter@dundee.ac.uk>
Date: Thu, 11 Jan 2024 15:30:35 +0000 (+0000)
Subject: JAL-3466 higher ‘crummy alignment’ threshold when deciding to create an identity... 
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=ac2ed85d81f322445555e01b67f758a77f2ede74;p=jalview.git

JAL-3466 higher ‘crummy alignment’ threshold when deciding to create an identity mapping for PDB with exact length match to a sequence in the alignment
---

diff --git a/src/jalview/structure/StructureSelectionManager.java b/src/jalview/structure/StructureSelectionManager.java
index 6761cc3..9906582 100644
--- a/src/jalview/structure/StructureSelectionManager.java
+++ b/src/jalview/structure/StructureSelectionManager.java
@@ -673,7 +673,7 @@ public class StructureSelectionManager
         // Not doing SIFTS, or SIFTS failed for some reason.
         
         // first check if we should use an identity mapping
-        if (idLengthChain != null && maxAlignseq.getS2Coverage() < 0.5)
+        if (idLengthChain != null && maxAlignseq.getS2Coverage() < 0.75)
         {
           Console.info(
                   "Assuming 3Dsi identity mapping between structure and sequence");