Added changes to idea depended files

.idea/compiler.xml

@@ -23,6 +23,8 @@
         <outputRelativeToContentRoot value="true" />
         <processorPath useClasspath="true" />
         <module name="BamMetrics" />
+        <module name="BamToBigWig" />
+        <module name="bamtobigwig" />
         <module name="Basty" />
         <module name="BiopetFramework" />
         <module name="BiopetGatkExtensions" />

.idea/encodings.xml

@@ -9,6 +9,7 @@
     <file url="file://$PROJECT_DIR$/protected/biopet-protected-package" charset="UTF-8" />
     <file url="file://$PROJECT_DIR$/public" charset="UTF-8" />
     <file url="file://$PROJECT_DIR$/public/bammetrics" charset="UTF-8" />
+    <file url="file://$PROJECT_DIR$/public/bamtobigwig" charset="UTF-8" />
     <file url="file://$PROJECT_DIR$/public/biopet-framework" charset="UTF-8" />
     <file url="file://$PROJECT_DIR$/public/biopet-public-package" charset="UTF-8" />
     <file url="file://$PROJECT_DIR$/public/flexiprep" charset="UTF-8" />

.idea/misc.xml

 <?xml version="1.0" encoding="UTF-8"?>
 <project version="4">
+  <component name="EntryPointsManager">
+    <entry_points version="2.0" />
+  </component>
   <component name="MavenProjectsManager">
     <option name="originalFiles">
       <list>

.idea/modules.xml

@@ -3,6 +3,7 @@
   <component name="ProjectModuleManager">
     <modules>
       <module fileurl="file://$PROJECT_DIR$/public/bammetrics/BamMetrics.iml" filepath="$PROJECT_DIR$/public/bammetrics/BamMetrics.iml" />
+      <module fileurl="file://$PROJECT_DIR$/public/bamtobigwig/BamToBigWig.iml" filepath="$PROJECT_DIR$/public/bamtobigwig/BamToBigWig.iml" />
       <module fileurl="file://$PROJECT_DIR$/protected/basty/Basty.iml" filepath="$PROJECT_DIR$/protected/basty/Basty.iml" />
       <module fileurl="file://$PROJECT_DIR$/public/Biopet.iml" filepath="$PROJECT_DIR$/public/Biopet.iml" />
       <module fileurl="file://$PROJECT_DIR$/public/biopet-framework/BiopetFramework.iml" filepath="$PROJECT_DIR$/public/biopet-framework/BiopetFramework.iml" />

.idea/scala_compiler.xml

@@ -20,6 +20,7 @@
       <parameter value="$PROJECT_DIR$/public/flexiprep/target/.scala_dependencies" />
       <parameter value="$PROJECT_DIR$/public/mapping/target/.scala_dependencies" />
       <parameter value="$PROJECT_DIR$/protected/biopet-gatk-extensions/target/.scala_dependencies" />
+      <parameter value="$PROJECT_DIR$/public/bamtobigwig/target/.scala_dependencies" />
     </parameters>
   </component>
 </project>
\ No newline at end of file

protected/biopet-protected-package/BiopetProtectedPackage.iml

@@ -95,7 +95,7 @@
     <orderEntry type="module" module-name="Gentrap" />
     <orderEntry type="module" module-name="Sage" />
     <orderEntry type="module" module-name="Yamsvp" />
-    <orderEntry type="module" module-name="bamtobigwig" />
+    <orderEntry type="module" module-name="BamToBigWig" />
     <orderEntry type="module" module-name="BiopetGatkPipelines" />
     <orderEntry type="module" module-name="BiopetGatkExtensions" />
     <orderEntry type="module" module-name="Basty" />

public/biopet-public-package/BiopetPublicPackage.iml

@@ -94,6 +94,6 @@
     <orderEntry type="module" module-name="Gentrap" />
     <orderEntry type="module" module-name="Sage" />
     <orderEntry type="module" module-name="Yamsvp" />
-    <orderEntry type="module" module-name="bamtobigwig" />
+    <orderEntry type="module" module-name="BamToBigWig" />
   </component>
 </module>
\ No newline at end of file