From: Ben Soares <b.soares@dundee.ac.uk>
Date: Thu, 6 Jun 2024 19:08:18 +0000 (+0100)
Subject: JAL-4420 Added some more filename extensions
X-Git-Tag: Release_2_11_4_0~25^2~4
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=98ac89f0dd7993401aea5adbbd124bb970a98ad9;p=jalview.git

JAL-4420 Added some more filename extensions
---

diff --git a/src/jalview/util/ArgParserUtils.java b/src/jalview/util/ArgParserUtils.java
index 20230b2..a71b462 100644
--- a/src/jalview/util/ArgParserUtils.java
+++ b/src/jalview/util/ArgParserUtils.java
@@ -99,8 +99,7 @@ public class ArgParserUtils
     if (addArgs)
     {
       // now we go through the saved associated files and add them back in to
-      // the
-      // right places with the appropriate argument
+      // the right places with the appropriate argument
       for (String filename : baseInfoMap.keySet())
       {
         BaseInfo bi = baseInfoMap.get(filename);
@@ -146,9 +145,9 @@ public class ArgParserUtils
     }
 
     annotationsExtensions = new HashSet<>();
-    for (String ext : Cache
-            .getDefault("ARGPREPROCESSORANNOTATIONSEXTENSIONS",
-                    "annotation,annotations")
+    for (String ext : Cache.getDefault(
+            "ARGPREPROCESSORANNOTATIONSEXTENSIONS",
+            "annotation,annotations,jvannotation,jvannotations,gff,gff2,gff3")
             .split(","))
     {
       annotationsExtensions.add(ext);
@@ -156,7 +155,7 @@ public class ArgParserUtils
 
     featuresExtensions = new HashSet<>();
     for (String ext : Cache.getDefault("ARGPREPROCESSORFEATURESEXTENSIONS",
-            "feature,features").split(","))
+            "feature,features,jvfeature,jvfeatures").split(","))
     {
       featuresExtensions.add(ext);
     }