From f6d1305378fa256a42caf7d284b13d5a084bc471 Mon Sep 17 00:00:00 2001
From: James Procter <j.procter@dundee.ac.uk>
Date: Mon, 30 Oct 2023 11:24:22 +0000
Subject: [PATCH] Handle feature settings files loaded via drag and drop or
 import

---
 src/jalview/gui/AlignFrame.java |   26 +++++++++++++++++++-------
 1 file changed, 19 insertions(+), 7 deletions(-)

diff --git a/src/jalview/gui/AlignFrame.java b/src/jalview/gui/AlignFrame.java
index ac8ffb9..958ebcc 100644
--- a/src/jalview/gui/AlignFrame.java
+++ b/src/jalview/gui/AlignFrame.java
@@ -4818,7 +4818,7 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
              * Object[] { String,SequenceI}
              */
             ArrayList<Object[]> filesmatched = new ArrayList<>();
-            ArrayList<Object> filesnotmatched = new ArrayList<>();
+            ArrayList<Object[]> filesnotmatched = new ArrayList<>();
             for (int i = 0; i < files.size(); i++)
             {
               // BH 2018
@@ -4864,9 +4864,9 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
                   }
                   mtch = idm.findAllIdMatches(pdbfn);
                 }
+                FileFormatI type=null;
                 if (mtch != null)
                 {
-                  FileFormatI type;
                   try
                   {
                     type = new IdentifyFile().identify(file, protocol);
@@ -4882,7 +4882,7 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
                 }
                 // File wasn't named like one of the sequences or wasn't a PDB
                 // file.
-                filesnotmatched.add(file);
+                filesnotmatched.add(new Object[] { file, protocol, type});
               }
             }
             int assocfiles = 0;
@@ -4936,7 +4936,7 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
                  */
                 for (Object[] o : filesmatched)
                 {
-                  filesnotmatched.add(o[0]);
+                  filesnotmatched.add(new Object[] { o[0], o[1]});
                 }
               }
             }
@@ -4958,9 +4958,9 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
               {
                 return;
               }
-              for (Object fn : filesnotmatched)
+              for (Object[] fn : filesnotmatched)
               {
-                loadJalviewDataFile(fn, null, null, null);
+                loadJalviewDataFile(fn[0], (DataSourceType) fn[1], (FileFormatI)fn[2], null);
               }
 
             }
@@ -5056,7 +5056,19 @@ public class AlignFrame extends GAlignFrame implements DropTargetListener,
           {
             format = new IdentifyFile().identify(file, sourceType);
           }
-          if (FileFormat.ScoreMatrix == format)
+          if (FileFormat.FeatureSettings == format)
+          {
+            if (featureSettings != null)
+            {
+              featureSettings.load(file, sourceType);
+            }
+            else
+            {
+              FeatureSettings.loadFeatureSettingsFile(getFeatureRenderer(),
+                      fileObject, sourceType);
+            }
+          }
+          else if (FileFormat.ScoreMatrix == format)
           {
             ScoreMatrixFile sm = new ScoreMatrixFile(
                     new FileParse(file, sourceType));
-- 
1.7.10.2