Hi, I've created a java app tested it from the command line and put it in the shared/jars folder. It runs for a while and then the history item turns red. If I view the dataset output though, everything is as should be, i.e. the expected output from the tool is seen. If I click on the view error 'bug' this is what I see: "Tool execution generated the following error message: 21-Dec-2011 17:08:14 org.biojava3.genome.parsers.gff.GFF3Reader read INFO: Gff.read(): Reading /home/galaxy/software/galaxy-central/database/files/012/dataset_12450.dat" This is the output from org.biojava3.genome.parsers.gff and I have no way of switching that off. Can anyone suggest a way to handle this output so that it doesn't throw an error. I need the output from this tool to use as input to other tools. Many thanks, Graham Dr. Graham Etherington Bioinformatics Support Officer, The Sainsbury Laboratory, Norwich Research Park, Norwich NR4 7UH. UK Tel: +44 (0)1603 450601