Changeset 553

Timestamp:

12/04/11 13:10:11 (6 months ago)

Author:

martijn

Message:

Improve qc: check that ids match expected pattern

Location:

trunk/org.bridgedb.tools.qc

Files:

• lib (added)
• lib/google-collect-snapshot-20080820.jar (added)
• src/org/bridgedb/tools/qc/BridgeQC.java (modified) (4 diffs)
• src/org/bridgedb/tools/qc/PatternChecker.java (added)

trunk/org.bridgedb.tools.qc/src/org/bridgedb/tools/qc/BridgeQC.java

@@ -9 +9 @@
 import org.bridgedb.DataSource;
 import org.bridgedb.IDMapperException;
+import org.bridgedb.bio.BioDataSource;
 import org.bridgedb.rdb.SimpleGdb;
 import org.bridgedb.rdb.SimpleGdbFactory;
@@ -98 +99 @@
         {
                 Connection con = oldGdb.getConnection();
-                //TODO
+                //TODO ... do something to compare cross-link consistency ...
         }
 
@@ -105 +106 @@
                 long oldSize = oldDb.length();
                 long newSize = newDb.length();
-                System.out.printf ("INFO: new size is %d Mb (changed %+3.1f%%)", newSize / 1000000, 
+                System.out.printf ("INFO: new size is %d Mb (changed %+3.1f%%)\n", newSize / 1000000, 
                                 (double)(newSize - oldSize) / (double)oldSize * 100);
         }
@@ -158 +159 @@
                 BridgeQC main = new BridgeQC (new File(args[0]), new File(args[1]));
                 main.run();
+                
+                BioDataSource.init();
+                PatternChecker checker = new PatternChecker();
+                checker.run(new File(args[0]));
         }