Hi Alex, there is a difference in http://toolshed.g2.bx.psu.edu/view/devteam/package_bowtie2_2_1_0 and http://toolshed.g2.bx.psu.edu/view/devteam/bowtie_wrappers The package_* is installing the binary for you and can be used by other programs as well. bowtie_wrappers contains the actual wrappers and is depending on package_*. To make it short. You need to install http://toolshed.g2.bx.psu.edu/view/devteam/bowtie_wrappers and both packages will be installed and you should see your wrapper.
Ciao, Bjoern 2014-01-31 Alexander Kurze <alexander.ku...@bioch.ox.ac.uk>: > Hi there, > > I have a local copy of galaxy and I am trying to install bowtie2 2.1.0 > onto the system via the toolshed. However it just doesn't work. I always > get a Server Error message. I have checked if the dependencies are > installed and they are all installed in the toolshed depenencies folders. > However, the actual repos only contains the tool_dependency.xml. (eg > galaxy/shed_tools/ > testtoolshed.g2.bx.psu.edu/repos/jjohnson/package_bowtie_2_1_0/38652b57e057/package_bowtie_2_1_0/tool_dependencies.xml > ) > > I thought that there should be a bowtie2.xml file in the repos of > package_bowtie_2_1_0 but there isn't... > > Also, looking at the shed_tool_config.xml I cannot see any entry for > bowtie2. > > Is there a way to add bowtie2 manually? > > Best wishes, > > Alex > > > > > > ___________________________________________________________ > 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/ >
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