We use Groovy (actually our own Groovy DSL interpreter) extensively so it looks like Groovy is not on the PATH that Galaxy is using. Can you log in to the Docker instance and run Groovy scripts? What does Galaxy think its $PATH is?
Keith > On Dec 26, 2016, at 3:23 AM, Anshul Tak <anshul....@gmail.com> wrote: > > Hi, > I have a question regarding galaxy. Can I execute groovy scipts using galaxy? > I installed groovy in galaxy docker image and all the dependencies. However, > when I try to execute a tool which require groovy engine it says > "/export/galaxy-central/database/job_working_directory/000/2/tool_script.sh: > line 9: groovy: command not found" > > > So I understood the error that galaxy is not able to find groovy but ideally > it should take the groovy engine as it is installed. > Can you give me some pointers to solve this issue? > -- > With Regards, > > Anshul Tak > ___________________________________________________________ > 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/mailinglists/
___________________________________________________________ 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/mailinglists/
