We have migrated bowtie tool wrapper from dist to tool-shed using migration script # 7 with install_dependencies option. We removed our locally installed bowtie binaries so that install_dependencies option would work fine. I think an earlier release would skip dependency installation if they were found in PATH. The tool-shed installed bowtie is working fine, however, dist included tophat is broken now as it is failing to find bowtie binaries. Should we install back bowtie outside of tool-shed OR is there a tophat wrapper that can handle this dependency? Any pointers?
-- Thanks, Shantanu ___________________________________________________________ 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/
