Added line number and SMILES string to error message

solves bug 3390
bioclipse · Oct 29, 2012 · 678a875 · 678a875
1 parent 7528311
commit 678a875
Showing 1 changed file with 4 additions and 1 deletion.
diff --git a/plugins/net.bioclipse.cdk.business/src/net/bioclipse/cdk/business/CDKManager.java b/plugins/net.bioclipse.cdk.business/src/net/bioclipse/cdk/business/CDKManager.java
@@ -1245,8 +1245,10 @@ public IteratingBioclipseSMILESReader( IFile file,
 
         private ICDKMolecule getNext() {
             ICDKMolecule mol = null;
+            String errorLine = null;
             try {
                 String line = reader.readLine();
+                errorLine = line;
                 if ( line == null ) { return null; }
                 if (separator != null) {
                     String[] cols = line.split( separator );
@@ -1260,7 +1262,8 @@ private ICDKMolecule getNext() {
                 }
             }
             catch (BioclipseException e) {
-                throw new RuntimeException(e.getMessage(), e);
+                throw new RuntimeException("Error reading SMILES on line "+
+                		(readLines+2)+": \""+errorLine+"\" "+e.getMessage(), e);
             } 
             catch ( IOException e ) {
                 LogUtils.debugTrace( logger, e );