X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FFileParse.java;h=1f51d8c8ad1a0c3cf93628793bab09c40f56b79c;hb=faf491e024f9835435f5dd6c20a033250dd9297d;hp=2ff0d2715ca92907704efb0107d61295b728a2ac;hpb=ecd82724000bd2465be8600d785133c97ea5af40;p=jalview.git

diff --git a/src/jalview/io/FileParse.java b/src/jalview/io/FileParse.java
index 2ff0d27..1f51d8c 100755
--- a/src/jalview/io/FileParse.java
+++ b/src/jalview/io/FileParse.java
@@ -41,7 +41,7 @@ import jalview.api.AlignExportSettingsI;
 import jalview.api.AlignViewportI;
 import jalview.api.AlignmentViewPanel;
 import jalview.api.FeatureSettingsModelI;
-import jalview.bin.Cache;
+import jalview.bin.Console;
 import jalview.util.MessageManager;
 import jalview.util.Platform;
 
@@ -225,12 +225,12 @@ public class FileParse
   {
     if (!input.markSupported())
     {
-      Cache.log.error(
+      Console.error(
               "FileParse.izGzipStream: input stream must support mark/reset");
       return false;
     }
     input.mark(4);
-    
+
     // get first 2 bytes or return false
     byte[] bytes = new byte[2];
     int read = input.read(bytes);
@@ -239,7 +239,7 @@ public class FileParse
     {
       return false;
     }
-    
+
     int header = (bytes[0] & 0xff) | ((bytes[1] << 8) & 0xff00);
     return (GZIPInputStream.GZIP_MAGIC == header);
   }
@@ -344,7 +344,7 @@ public class FileParse
     String encoding = _conn.getContentEncoding();
     String contentType = _conn.getContentType();
     boolean isgzipped = "application/x-gzip".equalsIgnoreCase(contentType)
-            || "gzip".equals(encoding);
+            || contentType.endsWith("gzip") || "gzip".equals(encoding);
     Exception e = null;
     InputStream inputStream = _conn.getInputStream();
     if (isgzipped)
@@ -380,7 +380,7 @@ public class FileParse
     if (sfpos > -1 && sfpos < fileStr.length() - 1)
     {
       suffix = fileStr.substring(sfpos + 1);
-      // System.err.println("DEBUG: Found Suffix:"+suffix);
+      // jalview.bin.Console.errPrintln("DEBUG: Found Suffix:"+suffix);
       return fileStr.substring(0, sfpos);
     }
     return null;
@@ -634,7 +634,7 @@ public class FileParse
   {
     if (bytesRead >= READAHEAD_LIMIT)
     {
-      System.err.println(String.format(
+      jalview.bin.Console.errPrintln(String.format(
               "File reset error: read %d bytes but reset limit is %d",
               bytesRead, READAHEAD_LIMIT));
     }