Hello Lionel,

Please send correspondence like this to the galaxy-dev@lists.bx.psu.edu mailing 
list rather than individual email accounts as doing so will ensure more timely 
and optimal repoonses.

I'm not quite sure what code you are reading, so could you please clarify?  

In general, though, when you write a Galaxy wrapper to integrate a tool into 
Galaxy, you will be able to load the tool into the Galaxy tool panel, and the 
tool UI will display in the main Galaxy panel.  When you execute the tool, a 
Galaxy job will get created which will produce an output in the form of a 
dataset.  This dataset will be displayed in you Galaxy history as the result of 
excuting the tool.  So, in your case, the history item will include the png 
file and, when clicked , it should display in your main Galaxy panel.

There are a lot of details that are calrified in the Galaxy wiki - a good place 
to start is probably:


Greg Von Kuster

On Jan 16, 2014, at 5:56 AM, Lionel Chiron <lionel.chi...@nmrtec.com> wrote:

> Hi Greg,
> I'm trying to make a tool in Galaxy for implementing our algorithm for mass 
> spectrometry treatment but it is a little tricky for me..
> To make run the algorithm in Python is ok, I produce a png with matplotlib .. 
> but after that I 'm a little lost since I don't know where the picture is 
> produced.. reading your code I can't figure out how you indicate where to 
> produce the png file..
> How can I do??
> Thanks
> Lionel

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