getting Junit test to work on installations that have empty spaces in directory names

andreasprlic · andreasprlic · commit dc5fa4370a42 · 2016-01-25T15:33:02.000-08:00
diff --git a/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastTabularParserTest.java b/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastTabularParserTest.java
@@ -1,23 +1,23 @@
-/*
- *                    BioJava development code
- *
- * This code may be freely distributed and modified under the
- * terms of the GNU Lesser General Public Licence.  This should
- * be distributed with the code.  If you do not have a copy,
- * see:
- *
- *      http://www.gnu.org/copyleft/lesser.html
- *
- * Copyright for this code is held jointly by the individual
- * authors.  These should be listed in @author doc comments.
- *
- * For more information on the BioJava project and its aims,
- * or to join the biojava-l mailing list, visit the home page
- * at:
- *
- *      http://www.biojava.org/
- *
- */
+/*
+ *                    BioJava development code
+ *
+ * This code may be freely distributed and modified under the
+ * terms of the GNU Lesser General Public Licence.  This should
+ * be distributed with the code.  If you do not have a copy,
+ * see:
+ *
+ *      http://www.gnu.org/copyleft/lesser.html
+ *
+ * Copyright for this code is held jointly by the individual
+ * authors.  These should be listed in @author doc comments.
+ *
+ * For more information on the BioJava project and its aims,
+ * or to join the biojava-l mailing list, visit the home page
+ * at:
+ *
+ *      http://www.biojava.org/
+ *
+ */
 package org.biojava.nbio.core.search.io.blast;
 
 import java.io.File;
@@ -86,6 +86,17 @@ public void testSetFile() {
         instance.setFile(f);
     }
 
+
+    protected  File getFileForResource(String resource){
+        URL resourceURL = this.getClass().getResource(resource);
+        String filepath = resourceURL.getFile();
+        filepath = filepath.replaceAll("%20"," ");
+
+        File file = new File(filepath);
+
+        return file;
+    }
+
     /**
      * Test of createObjects method, of class BlastTabularParser.
      */
@@ -97,8 +108,7 @@ public void testCreateObjects() throws Exception {
         Hsp expHsp1hit1res1;
         
         String resource = "/org/biojava/nbio/core/search/io/blast/small-blastreport.blasttxt";
-        URL resourceURL = getClass().getResource(resource);
-        File file = new File(resourceURL.getFile());
+        File file = getFileForResource(resource);
         
         BlastTabularParser instance = new BlastTabularParser();
         instance.setFile(file);
@@ -163,8 +173,8 @@ public void testCreateObjects() throws Exception {
         
         
         String resource2 = "/org/biojava/nbio/core/search/io/blast/testBlastTabularReport.txt";
-        URL resourceURL2 = getClass().getResource(resource2);
-        File file2 = new File(resourceURL2.getFile());
+
+        File file2 = getFileForResource(resource2);
         
         BlastTabularParser instance2 = new BlastTabularParser();
         instance2.setFile(file2);
diff --git a/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastXMLParserTest.java b/biojava-core/src/test/java/org/biojava/nbio/core/search/io/blast/BlastXMLParserTest.java
@@ -71,6 +71,16 @@ public void testSetFile() {
         instance.setFile(f);
     }
 
+    protected  File getFileForResource(String resource){
+        URL resourceURL = this.getClass().getResource(resource);
+        String filepath = resourceURL.getFile();
+        filepath = filepath.replaceAll("%20"," ");
+
+        File file = new File(filepath);
+
+        return file;
+    }
+
     /**
      * Test of createObjects method, of class BlastXMLParser.
      */
@@ -79,8 +89,9 @@ public void testCreateObjects() throws Exception {
         System.out.println("createObjects");
         
         String resource = "/org/biojava/nbio/core/search/io/blast/small-blastreport.blastxml";
-        URL resourceURL = getClass().getResource(resource);
-        File file = new File(resourceURL.getFile());
+
+
+        File file = getFileForResource(resource);
         
         BlastXMLParser instance = new BlastXMLParser();
         instance.setFile(file);
