Merge branch 'fix-scalariform' into 'develop'

Scalariform needs a non empty src dir

This should fix the building again

See merge request !229

public/src/src/test/resources/log4j.properties

+#
+# Due to the license issue with GATK, this part of Biopet can only be used inside the
+# LUMC. Please refer to https://git.lumc.nl/biopet/biopet/wikis/home for instructions
+# on how to use this protected part of biopet or contact us at sasc@lumc.nl
+#
+
+# Set root logger level to DEBUG and its only appender to A1.
+log4j.rootLogger=ERROR, A1
+
+# A1 is set to be a ConsoleAppender.
+log4j.appender.A1=org.apache.log4j.ConsoleAppender
+
+# A1 uses PatternLayout.
+log4j.appender.A1.layout=org.apache.log4j.PatternLayout
+log4j.appender.A1.layout.ConversionPattern=%-5p [%d] [%C{1}] - %m%n
\ No newline at end of file