Hi, please make sure you have set "install_resolver_dependencies: True"
https://github.com/bgruening/docker-galaxy-ngs-preprocessing/blob/master/ngs_preprocessing.yml#L41 This will install you all conda dependencies. Btw. you can also use Galaxy 17.05. 17.09 will be released soon and also can need some testing :) Cheers, Bjoern On 06.09.2017 03:54, RMSe17 wrote: > Hello, I got a new Galaxy install using 17.01 latest. I wanted to get > the same tools as are in Galaxy main. I installed ephemeris with pip, > used get-tool-list to get a yml file with tools, and then shed-install > to my Galaxy server. After a few hours, 452 tools got successfully > installed, 0 skipped and 0 errored. However, when looking at Galaxy's > "manage installed tools", all of the tools that have dependencies are > in gray state - missing dependencies. (and error out if ran). If I > select a tool, and go to "repository actions", "manage tool > dependencies", I see that dependencies are marked as never installed. > If I select dependencies and click install, they install - really fast > (too fast?), and then that tool works fine... but I'm trying to > avoid manually telling each tool to install dependencies - there are a > lot of them :) > > Any suggestions? > ___________________________________________________________ > 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: > https://lists.galaxyproject.org/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/ > ___________________________________________________________ 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: https://lists.galaxyproject.org/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/
