[galaxy-dev] How to install Charts in command line ?

2017-07-17 Thread Steven Shen
Hi all, Cytoscape, Bar diagram(NVD3), Horizontal(NVD3) , and other NVD3 visualization tools are working good on my local galaxy except the jqplots, such as Box plot, Discrete Histogram, with error "This visualization requires the 'charts' tool. Please make sure it is installed." It seems i ne

Re: [galaxy-dev] How to install Charts in command line ?

2017-07-17 Thread Aysam Guerler
Hey, There is no documentation for this but it is possible. You need to install R and two R libraries (getopt, Matrix) in order to execute the charts R-script. Once R is configured you can add the charts tool to the tools directory and update your config/tool_conf.xml file accordingly before resta

Re: [galaxy-dev] How to install Charts in command line ?

2017-07-17 Thread James Taylor
Would it make sense to change these tools to conda dependencies? r-getopt and r-getopt are already in conda-forge so should be an easy change. On Mon, Jul 17, 2017 at 12:38 PM, Aysam Guerler wrote: > Hey, > > There is no documentation for this but it is possible. You need to install R > and two R

Re: [galaxy-dev] How to install Charts in command line ?

2017-07-17 Thread Aysam Guerler
I agree, it should be straightforward. I will look into it. ___ 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://