add error checking for unaccounted genome builds

Throw a customized IllegalArgumentException when a genome name not included in the reference `util.GenomeSizeReference` class is given. Add Exception handling to GUI repective tool scripts and GUI window_interface classes

Author: owlang

src/scripts/Peak_Analysis/RandomCoordinate.java

@@ -30,7 +30,7 @@ public RandomCoordinate(String gen, int sites, int size, boolean bed, File out)
 		else { EXTENSION = ".gff"; }
 	}
 
-	public void execute() throws IOException {
+	public void execute() throws IOException, IllegalArgumentException {
 	    GenomeSizeReference coord = new GenomeSizeReference(GENOME);
 	    if(!coord.isSmaller(windowSize)) {
 	    	System.err.println("Window size is too large for selected genome!!!\n");

src/scripts/Peak_Analysis/TileGenome.java

@@ -24,7 +24,7 @@ public TileGenome(String gen, int size, boolean bed, File out) {
 		else { EXTENSION = ".gff"; }
 	}
 
-	public void execute() throws IOException {
+	public void execute() throws IOException, IllegalArgumentException {
 	    GenomeSizeReference coord = new GenomeSizeReference(GENOME);
 
 	    String fileName = GENOME + "_" + windowSize + "bp" + EXTENSION;

src/util/GenomeSizeReference.java

@@ -23,7 +23,7 @@ public GenomeSizeReference(String build) {
 		setGenome(build);
 	}
 
-	public void setGenome(String build) {
+	public void setGenome(String build) throws IllegalArgumentException {
 		if (build.equals("sacCer3")) {
 			initialize_sacCer3();
 		} else if(build.equals("sacCer3_cegr")) {
@@ -35,7 +35,7 @@ public void setGenome(String build) {
 		} else if(build.equals("mm10")) {
 			initialize_mm10();
 		} else {
-			System.err.println("Non-existent genome build!\n");
+			throw new IllegalArgumentException(" (!)Invalid genomeName selected(" + build + "), please select from one of the provided genomes: sacCer3_cegr, hg19, hg19_contigs, and mm10\n");
 		}
 	}
 

src/window_interface/Peak_Analysis/RandomCoordinateWindow.java

@@ -74,6 +74,8 @@ public Void doInBackground() throws IOException, InterruptedException {
 	        		}
 	        	} catch(NumberFormatException nfe){
 					JOptionPane.showMessageDialog(null, "Invalid Input in Fields!!!");
+			} catch (IllegalArgumentException iae) {
+				JOptionPane.showMessageDialog(null, iae.getMessage());
 			}
 	        	return null;
         }

src/window_interface/Peak_Analysis/TileGenomeWindow.java

@@ -69,6 +69,8 @@ public Void doInBackground() throws IOException, InterruptedException {
 	        		}
 	        	} catch(NumberFormatException nfe){
 					JOptionPane.showMessageDialog(null, "Invalid Input in Fields!!!");
+			} catch (IllegalArgumentException iae) {
+				JOptionPane.showMessageDialog(null, iae.getMessage());
 			}
 	        	return null;
         }