Re: [galaxy-dev] Auto detection of output format Galaxy custom tool
Hi Peter, I ending up finding a solution to my problem using this forum
post:
https://lists.galaxyproject.org/pipermail/galaxy-dev/2014-August/020361.html.
I just ended up using the really specific file output path and it started
auto-detecting the file format. Thanks for your help it was much
appreciated.
On Thu, Jun 30, 2016 at 1:01 PM, Peter Cock <p.j.a.cock(a)googlemail.com>
wrote:
Maybe sharing your tool XML file would be best - is it on GitHub?
Peter
On Wed, Jun 29, 2016 at 7:43 PM, Katherine Beaulieu
<katherine.beaulieu014(a)gmail.com> wrote:
> Ok, so I don't give the user the option to select the correct data type
to
> reduce the amount of stuff the user has to know when using the tool.
>
> I do leave the format as auto and Galaxy just leaves it as the generic
data
> type 'data'.
>
> As for how the format is defined in Galaxy, I'm not quite sure what the
> answer to this question is because I am just testing the tool with really
> simple text files, with extension .txt. and it can't seem to pick it up,
it
> just leaves it as 'data'. Also not quite sure how to test the Python
code in
> the sniff function outside of Galaxy... (only starting working with
Galaxy 3
> weeks ago).
>
> Let me know if I should provide you with the tool config file if that
would
> be a little more useful. It's quite straightforward
> Thanks for helping with this.
>
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