Adding versions

public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/Gzip.scala

@@ -29,6 +29,9 @@ class Gzip(val root: Configurable) extends BiopetCommandLineFunction {
 
   executable = config("exe", default = "gzip")
 
+  override val versionRegex = """gzip (.*)""".r
+  override def versionCommand = executable + " --version"
+
   def cmdLine = required(executable) + " -c " + repeat(input) + " > " + required(output)
 }
 

public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/Md5sum.scala

@@ -33,6 +33,9 @@ class Md5sum(val root: Configurable) extends BiopetCommandLineFunction {
 
   executable = config("exe", default = "md5sum")
 
+  override val versionRegex = """md5sum \(GNU coreutils\) (.*)""".r
+  override def versionCommand = executable + " --version"
+
   /** return commandline to execute */
   def cmdLine = required(executable) + required(input) + " > " + required(output)
 }

public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/extensions/Zcat.scala

@@ -30,6 +30,9 @@ class Zcat(val root: Configurable) extends BiopetCommandLineFunction {
 
   executable = config("exe", default = "zcat")
 
+  override val versionRegex = """zcat \(gzip\) (.*)""".r
+  override def versionCommand = executable + " --version"
+
   /** Returns command to execute */
   def cmdLine = required(executable) + required(input) + " > " + required(output)
 }