From: Jim Procter <jprocter@issues.jalview.org>
Date: Tue, 13 Feb 2018 15:33:16 +0000 (+0000)
Subject: JAL-2781 JAL-2780 include sequence start number when computing position in PDB sequen... 
X-Git-Tag: Release_2_10_4~68^2~4
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=d97bf67918528e7c2e1601a537d78eda2fbd2a5d;p=jalview.git

JAL-2781 JAL-2780 include sequence start number when computing position in PDB sequence when mapping from PDB to PDB
---

diff --git a/src/jalview/ws/sifts/SiftsClient.java b/src/jalview/ws/sifts/SiftsClient.java
index 3899f04..c9c4618 100644
--- a/src/jalview/ws/sifts/SiftsClient.java
+++ b/src/jalview/ws/sifts/SiftsClient.java
@@ -676,11 +676,7 @@ public class SiftsClient implements SiftsClientI
           // if the sequence has a primary reference to the PDB, then we are
           // dealing with a sequence extracted directly from the PDB. In that
           // case, numbering is PDBe - non-observed residues
-          currSeqIndex = pdbeIndex;
-        }
-        if (currSeqIndex == UNASSIGNED)
-        {
-          continue;
+          currSeqIndex = seq.getStart() - 1 + pdbeIndex;
         }
         if (!isObserved)
         {