Galaxy Devs, I've been following this documentation to write auto tests for my tools: https://wiki.galaxyproject.org/Admin/Tools/WritingTests?action=show&redirect=Admin%2FTools%2FWriting+Tests Straightforward enough, but I am not sure how to incorporate input parameters from data tables into this. My tools currently use as input parameters entries/files from a data table. These files were installed using a data manager. Ideally, the tests should also reference the same data table files as the tools do. How can I do this? Thanks, Jeremy Liu jeremy.liu@yale.edu
Hey Jeremy, I have just updated the planemo tool development tutorial with an answer to this question (I am trying to assemble something of a tool development FAQ at the end of that tutorial): http://planemo.readthedocs.org/en/latest/writing_standalone.html#test-index-... tl;dr - You can define such tests but they will only work with planemo at this time unfortunately. -John On Wed, Apr 15, 2015 at 12:24 AM, Jeremy Liu <jeremy.liu@yale.edu> wrote:
Galaxy Devs,
I've been following this documentation to write auto tests for my tools: https://wiki.galaxyproject.org/Admin/Tools/WritingTests?action=show&redirect=Admin%2FTools%2FWriting+Tests
Straightforward enough, but I am not sure how to incorporate input parameters from data tables into this. My tools currently use as input parameters entries/files from a data table. These files were installed using a data manager. Ideally, the tests should also reference the same data table files as the tools do. How can I do this?
Thanks, Jeremy Liu jeremy.liu@yale.edu
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Thanks John, Jeremy, for another example see: https://github.com/peterjc/galaxy_blast/issues/53 We have working tests using *.loc files, but they are currently commented out for upload to the Tool Shed because they fail there :( As far as I know, there isn't yet a Trello issue for fixing this on the Tool Shed. Peter On Wed, Apr 15, 2015 at 3:29 PM, John Chilton <jmchilton@gmail.com> wrote:
Hey Jeremy,
I have just updated the planemo tool development tutorial with an answer to this question (I am trying to assemble something of a tool development FAQ at the end of that tutorial):
http://planemo.readthedocs.org/en/latest/writing_standalone.html#test-index-...
tl;dr - You can define such tests but they will only work with planemo at this time unfortunately.
-John
On Wed, Apr 15, 2015 at 12:24 AM, Jeremy Liu <jeremy.liu@yale.edu> wrote:
Galaxy Devs,
I've been following this documentation to write auto tests for my tools: https://wiki.galaxyproject.org/Admin/Tools/WritingTests?action=show&redirect=Admin%2FTools%2FWriting+Tests
Straightforward enough, but I am not sure how to incorporate input parameters from data tables into this. My tools currently use as input parameters entries/files from a data table. These files were installed using a data manager. Ideally, the tests should also reference the same data table files as the tools do. How can I do this?
Thanks, Jeremy Liu jeremy.liu@yale.edu
participants (3)
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Jeremy Liu -
John Chilton -
Peter Cock