We need to do a better job in the way we handle resources. For instance, changing my working branch from release/scala-ide-2.0.x to master (Scala IDE project), resulted in lots of exceptions reported in the Error Log similar to the following one

org.eclipse.core.runtime.CoreException: File not found: /Users/mirco/Projects/ide/codebase/org.scala-ide.sdt.core/src/scala/tools/eclipse/properties/SyntaxColouringPreferencePage.scala.
	at org.eclipse.core.internal.filesystem.Policy.error(Policy.java:55)
	at org.eclipse.core.internal.filesystem.local.LocalFile.openInputStream(LocalFile.java:371)
	at org.eclipse.core.internal.localstore.FileSystemResourceManager.read(FileSystemResourceManager.java:797)
	at org.eclipse.core.internal.resources.File.getContents(File.java:289)
	at org.eclipse.jdt.internal.core.util.Util.getResourceContentsAsCharArray(Util.java:1187)
	at org.eclipse.jdt.internal.core.CompilationUnit.getContents(CompilationUnit.java:649)
	at scala.tools.eclipse.javaelements.ScalaSourceFile.getContents(ScalaSourceFile.scala:109)
	at scala.tools.eclipse.javaelements.ScalaCompilationUnit$class.createSourceFile(ScalaCompilationUnit.scala:63)
	at scala.tools.eclipse.javaelements.ScalaSourceFile.createSourceFile(ScalaSourceFile.scala:38)
	at scala.tools.eclipse.ScalaPresentationCompiler$$anon$1.default(ScalaPresentationCompiler.scala:49)
	at scala.tools.eclipse.ScalaPresentationCompiler$$anon$1.default(ScalaPresentationCompiler.scala:47)
	at scala.collection.MapLike$class.apply(MapLike.scala:135)
	at scala.collection.mutable.HashMap.apply(HashMap.scala:45)
	at scala.tools.eclipse.ScalaPresentationCompiler.withSourceFile(ScalaPresentationCompiler.scala:90)
	at scala.tools.eclipse.ScalaProject$$anonfun$withSourceFile$1.apply(ScalaProject.scala:488)
	at scala.tools.eclipse.ScalaProject$$anonfun$withSourceFile$1.apply(ScalaProject.scala:487)
	at scala.tools.eclipse.ScalaProject$$anonfun$withPresentationCompiler$1.apply(ScalaProject.scala:481)
	at scala.tools.eclipse.ScalaProject$$anonfun$withPresentationCompiler$1.apply(ScalaProject.scala:480)
	at scala.tools.eclipse.util.Cached$class.apply(Cached.scala:41)
	at scala.tools.eclipse.ScalaProject$$anon$1.apply(ScalaProject.scala:67)
	at scala.tools.eclipse.ScalaProject.withPresentationCompiler(ScalaProject.scala:480)
	at scala.tools.eclipse.ScalaProject.withSourceFile(ScalaProject.scala:489)
	at scala.tools.eclipse.javaelements.ScalaCompilationUnit$class.doWithSourceFile(ScalaCompilationUnit.scala:48)
	at scala.tools.eclipse.javaelements.ScalaSourceFile.doWithSourceFile(ScalaSourceFile.scala:38)
	at scala.tools.eclipse.javaelements.ScalaCompilationUnit$class.addToIndexer(ScalaCompilationUnit.scala:130)
	at scala.tools.eclipse.javaelements.ScalaSourceFile.addToIndexer(ScalaSourceFile.scala:38)
	at scala.tools.eclipse.ScalaSourceIndexer$$anonfun$indexDocument$2.apply(ScalaSourceIndexer.scala:23)
	at scala.tools.eclipse.ScalaSourceIndexer$$anonfun$indexDocument$2.apply(ScalaSourceIndexer.scala:23)
	at scala.Option.map(Option.scala:133)
	at scala.tools.eclipse.ScalaSourceIndexer.indexDocument(ScalaSourceIndexer.scala:23)
	at scala.tools.eclipse.contribution.weaving.jdt.indexerprovider.IndexerProviderAspect.ajc$around$scala_tools_eclipse_contribution_weaving_jdt_indexerprovider_IndexerProviderAspect$1$16276a3c(IndexerProviderAspect.aj:30)
	at org.eclipse.jdt.internal.core.search.JavaSearchParticipant.indexDocument(JavaSearchParticipant.java:68)
	at org.eclipse.jdt.internal.core.search.indexing.IndexManager.indexDocument(IndexManager.java:453)
	at org.eclipse.jdt.internal.core.search.indexing.IndexManager$1.execute(IndexManager.java:853)
	at org.eclipse.jdt.internal.core.search.processing.JobManager.run(JobManager.java:405)
	at java.lang.Thread.run(Thread.java:680)
Caused by: java.io.FileNotFoundException: /Users/mirco/Projects/ide/codebase/org.scala-ide.sdt.core/src/scala/tools/eclipse/properties/SyntaxColouringPreferencePage.scala (No such file or directory)
	at java.io.FileInputStream.open(Native Method)
	at java.io.FileInputStream.<init>(FileInputStream.java:120)
	at org.eclipse.core.internal.filesystem.local.LocalFile.openInputStream(LocalFile.java:362)