From: Jim Procter <j.procter@dundee.ac.uk>
Date: Fri, 28 Oct 2022 14:49:34 +0000 (+0100)
Subject: JAL-4086 commented out attempt to create measurement lines between aligned residues... 
X-Git-Tag: Release_2_11_4_0~520^2~1
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=e08144b41bce8e324a9cfad1b4d54960c594e71e;p=jalview.git

JAL-4086 commented out attempt to create measurement lines between aligned residues in different chains
---

diff --git a/src/jalview/ext/jmol/JalviewJmolBinding.java b/src/jalview/ext/jmol/JalviewJmolBinding.java
index 9436209..21a19ae 100644
--- a/src/jalview/ext/jmol/JalviewJmolBinding.java
+++ b/src/jalview/ext/jmol/JalviewJmolBinding.java
@@ -278,7 +278,31 @@ public abstract class JalviewJmolBinding extends AAStructureBindingModel
         highlightAtom(atom.getAtomIndex(), atom.getPdbResNum(),
                 atom.getChain(), atom.getPdbFile(), useScriptWait);
       }
+      // Highlight distances between atoms with a 'measure' command - not yet
+      // working
+      // if (atoms.size() >= 2)
+      // {
+      // StringBuilder sb = new StringBuilder();
+      // for (int a = 0; a < atoms.size(); a++)
+      // {
+      // AtomSpec speca = atoms.get(a);
+      // String a_model = getModelIdForFile(speca.getPdbFile());
+      // for (int b = a + 1; b < atoms.size(); b++)
+      // {
+      // AtomSpec specb = atoms.get(b);
+      // String b_model = getModelIdForFile(speca.getPdbFile());
+      // sb.append("measure ALL (" + speca.getAtomIndex() + " and */"
+      // + a_model + ") (" + specb.getAtomIndex() + " and */"
+      // + b_model + ");");
+      // }
+      // }
+      // jmolHistory(false, useScriptWait);
+      // jmolScript(sb.toString(), useScriptWait);
+      // jmolHistory(true, useScriptWait);
+      // }
+
     }
+
   }
 
   // jmol/ssm only