Did you remember to refresh the history panel after the tool finished?
That caught me out multiple times when testing multiple outputs.

From: galaxy-dev [galaxy-dev-boun...@lists.galaxyproject.org] on behalf of Léo 
Biscassi [leo.bisca...@gmail.com]
Sent: Thursday, September 10, 2015 10:01 PM
To: galaxy-dev@lists.galaxyproject.org
Subject: [galaxy-dev] Tool with multiple outputs.

Good afternoon people!
I am developing a tool that will have multiple outputs where they have to be 
data sets in history.
Read the tutorial [1] and from it developed my [2] [3] tool, however, have only 
the .txt output file, the .mol2 files are not showing up in history, someone 
can tell me why?

[2] https://gist.github.com/leobiscassi/8058b6307d388167866a
[3] https://gist.github.com/leobiscassi/bc54a7df261c4ee81aa9

Léo Biscassi
Facebook - https://pt-br.facebook.com/lbiscassi
Linkedin - https://br.linkedin.com/in/leobiscassi
Skype - biscassi.leo
Twitter - https://twitter.com/leobiscassi


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