Changeset 560

Timestamp:

Jan 29, 2008, 2:53:47 PM (15 years ago)

Author:

Nicklas Nordborg

Message:

References #91: Import Illumina scandata files as raw data

A skeleton that installs and compiles.

Location:

trunk/net/sf/basedb/illumina/src/net/sf/basedb/illumina

Files:

• Illumina.java (modified) (2 diffs)
• plugins/ScanDataImporter.java (added)

trunk/net/sf/basedb/illumina/src/net/sf/basedb/illumina/Illumina.java

@@ -24 +24 @@
 */
 package net.sf.basedb.illumina;
+
+import net.sf.basedb.core.RawDataType;
+import net.sf.basedb.core.RawDataTypes;
 
 
@@ -52 +55 @@
   /**
     The ID for the main Illumina platform item. Use
-    <code>Platform.getByExternalId(dc, Illumina.PLATFORM)<code>
+    <code>Platform.getByExternalId(dc, Illumina.PLATFORM_ID)<code>
     to load this item.
   */
-  public static final String PLATFORM = "illumina";
+  public static final String PLATFORM_ID = "illumina";
   
+  /**
+    The ID of the raw data type used to hold scandata raw data.
+    Use {@link #getScanDataType()} to get the raw data type object.
+  */
+  public static final String SCANDATA_ID = "illumina_scandata";
   
   /**
     The ID for the BGX {@link DataFileType}. Use
-    <code>DataFileType.getByExternalId(dc, Illumina.BGX_FILE)</code>
+    <code>DataFileType.getByExternalId(dc, Illumina.BGX_FILE_ID)</code>
     to load this item.
   */
-  public static final String BGX_FILE = "illumina.bgx";
+  public static final String BGX_FILE_ID = "illumina.bgx";
   
-  
+  /**
+    Get the {@link RawDataType} representing the scandata
+    raw data type.
+    @return A raw data type (null if this type is not present)
+  */
+  public static final RawDataType getScanDataType()
+  {
+    return RawDataTypes.getRawDataType(SCANDATA_ID);
+  }