[galaxy-user] MACS failed because of lambdaset options

Hi, I am trying to use MACS and I get the following error when the job fails : Usage: macs <-t tfile> [-n name] [-g genomesize] [options] Example: macs -t ChIP.bam -c Control.bam -f BAM -g h -n test -w --call-subpeaks macs: error: no such option: --lambdaset I am not really familiar to MACS

Re: [galaxy-user] Barcode splitting

Hi, How comes the barcode not be at 5' or 3' end, do you have primer sequences or stuff like that ? The barcode you show cannot be found in the sequence you show... I know that FastqMCF is an alternative tool that can be found in the toolshed and that deals with barcode. Philippe 2012/12/3 Rajar

Re: [galaxy-user] GATK Not running

Hi, I have encountered the same kind of errors. When I update the loc files link to GATK, some of the tools display the reference genomes I added and some not. It seems that the galaxy wrapper for GATK 1.6 is not very functional. GATK don't really care because they are not supporting it any more,