Changeset 6454

Timestamp:

May 8, 2014, 4:06:43 PM (8 years ago)

Author:

Nicklas Nordborg

Message:

Fixes #1804: Files with .bam/.sam extensions should be associated to 'Aligned sequence data'

File:

• trunk/src/core/net/sf/basedb/core/Install.java (modified) (2 diffs)

trunk/src/core/net/sf/basedb/core/Install.java

@@ -627 +627 @@
       createMimeType("text/plain", "Biorobotics TAM format", "tam", printMapType, true);
       createMimeType("text/plain", "Molecularware MWBR format", "mvbr", printMapType, true);
-      createMimeType("text/plain", "Sequence Alignment/Map", "sam", null, true);
-      createMimeType("application/octet-stream", "Binary Sequence Alignment/Map", "bam", null, false);
+      createMimeType("text/plain", "Sequence Alignment/Map", "sam", alignedType, true);
+      createMimeType("application/octet-stream", "Binary Sequence Alignment/Map", "bam", alignedType, false);
       createMimeType("text/plain", "Gene transfer format", "gtf", null, true);
       createMimeType("text/plain", "FPKM tracking file", "fpkm_tracking", rawDataType, true);
@@ -1090 +1090 @@
       {
         log.info("createMimeType: EXISTS [extension="+extension+"; name="+name+"]");
+        if (fileType != null && mimeType.getFileType() == null)
+        {
+          mimeType.setFileType(fileType);
+        }
         HibernateUtil.commit(tx);
       }