Makefile | 21 21 + 0 - 0 !
1 file changed, 21 insertions(+)

 simplyfy installation by creating a makefile

fastqc | 13 6 + 7 - 0 !
1 file changed, 6 insertions(+), 7 deletions(-)

 ensure proper classpath according to location of debian jars

uk/ac/babraham/FastQC/FastQCMenuBar.java | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 the original way to open help text ends up in an exception
 Setting the explicite file name as well as avoiding the call to
   ClassLoader.getSystemResource
 helps fixing this.  Specifically the later is important, see
   https://lists.debian.org/debian-med/2012/11/msg00073.html

uk/ac/babraham/FastQC/Modules/AdapterContent.java | 6 4 + 2 - 0 !
uk/ac/babraham/FastQC/Modules/ModuleConfig.java | 4 3 + 1 - 0 !
uk/ac/babraham/FastQC/Sequence/Contaminant/ContaminentFinder.java | 6 4 + 2 - 0 !
3 files changed, 11 insertions(+), 5 deletions(-)

 use config in debian etc dirs instead of embedding data in jar