> bedtools genomecov -bg -split -i stdin -g > /usr/local/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/hg19.len > > However this crashes. After looking in my computer, I find that bedtools do > not contain the file genomecov. Is this an erroneous assumption of mine or > have I installed something wrong?
genomecov is not a file, it is a parameter that indicates what operation to run. My guess is that you may have an old version of BEDtools installed; in this case, you'll need to update BEDtools. At minimum, BEDtools versions 2.15+ will work fine with Trackster/Galaxy. You can type this into your terminal to see the BEDtools version: bedtools --version Good luck, J. ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
