Re: [galaxy-dev] GalaxyAdmins online meetup this Thursday: Dynamic Job expansion: Experiences using Makeflow in Galaxy

2016-08-18 Thread Dave Clements
Hi All, Just a reminder that the meetup starts in 30 minutes. If you are planning on participating, please start connecting a few

[galaxy-dev] ansible install tools: tools not in section

2016-08-18 Thread Tamir,Ido
Hi, I am trying to install tools with the galaxy-tools-playbook, but my tools don’t end up in the sections. I added section test in tool_conf.xml and test2 in shed_tool_conf.xml, and after a restart they are together in integrated_tool_panel.xml. Then I started the ansible playbook with

Re: [galaxy-dev] liftOver output database error

2016-08-18 Thread Nicola Soranzo
Hi Sarah, this problem has been fixed yesterday in release_16.04 and following with https://github.com/galaxyproject/galaxy/pull/2800 . Cheers, Nicola On 18/08/16 14:24, Sarah DIEHL wrote: Dear all, I just ran the liftOver tool that comes with Galaxy

[galaxy-dev] liftOver output database error

2016-08-18 Thread Sarah DIEHL
Dear all, I just ran the liftOver tool that comes with Galaxy (https://github.com/galaxyproject/galaxy/blob/dev/tools/extract/liftOver_wrapper.xml) and for the "mapped coordinates" output dataset the database shows as "" (see attached screenshot). It seems that some of the code that

Re: [galaxy-dev] ansible install tools: tools not in section

2016-08-18 Thread Marius van den Beek
Hi Ido, if you are using tool_panel_section_id, the panel section has to exist, otherwise, as you have seen, tools will install outside of the tool panel. Now you mentioned that using tool_panel_section_label also installs tools outside of the tool panel, this should not happen. If you specify