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 aysam.guerler@gmail.com wrote:

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 restarting your local instance.

Having said this, can you specify in more detail why the tool installation fails. Can you install other tools from the toolshed without problems?

I hope this helps.

Thanks, Sam

On Mon, Jul 17, 2017 at 9:53 AM, Steven Shen ishenweiyan@gmail.com wrote:

...

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 need to install Charts first.

Actually Charts could be installed from the Tool Shed through the Admin Interface, but it failed sometimes as the bad network. so is there any doc about installing Charts/tools through command line?

Thank you. Steven

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Thank you very much. The instability network in our company leads to Charts installation fail, but now it can be installed successfully through Tool Shed.

If someone want to install some tools through command line manually, it may be a few complex for the tool dependents somethimes.

2017-07-18 2:26 GMT+08:00 Aysam Guerler aysam.guerler@gmail.com:

I agree, it should be straightforward. I will look into it.