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.c...@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.beaulieu...@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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