Oppps, duh sorry I thought condel_input.tabular was a datatype not a file. That makes sense. I'll look some more.
-John
On Thu, Apr 17, 2014 at 7:45 AM, Saket Choudhary saketkc@gmail.com wrote:
Hi John,
My tool's input datatype is tabular. I do not have any custom datatypes defined.
Saket
On 17 April 2014 18:10, John Chilton jmchilton@gmail.com wrote:
I don't see anywhere in your Travis YAML file where you are modifying Galaxy's datatypes (like Peter does for instance on these lines https://github.com/peterjc/pico_galaxy/blob/master/.travis.yml#L166). If those datatypes are not defined you cannot upload a tool with a specific type. Am I missing something?
-John
On Thu, Apr 17, 2014 at 7:33 AM, Saket Choudhary saketkc@gmail.com wrote:
On 17 April 2014 15:34, Peter Cock p.j.a.cock@googlemail.com wrote:
On Thu, Apr 17, 2014 at 12:59 AM, Saket Choudhary saketkc@gmail.com wrote:
I happened to copy Peter's .travis.yml for running tests for some of my packages.
Background information: http://blastedbio.blogspot.co.uk/2013/09/using-travis-ci-for-testing-galaxy-...
However the process has not been smooth at all. See : https://travis-ci.org/saketkc/galaxy_tools/jobs/23166678#L908
AssertionError: Attempting to set field 'input' to value '['condel_input.tabular']' in form 'tool_form' threw exception: cannot find value/label "condel_input.tabular" in list control
I am already passing it the correct ftype : https://github.com/saketkc/galaxy_tools/blob/travis-test/condel_web/condel_w...
Is there something I am missing?
This is similar to (but different) to the error message I recently reported as being unclear when a datatype was not defined: http://lists.bx.psu.edu/pipermail/galaxy-dev/2014-April/019090.html
In your case, this is an input file which seems to be missing, test-data/condel_input.tabular - but I see the line copying the tool's test-data into the main Galaxy test-data folder is there in the .travis.yml file.
I am puzzled too.
The key question I would ask you is: do your tests work locally? If so, are they installed via a (local) Tool Shed, or manually along the same lines of the attempted TravisCI tool installation?
Unfortunately No.
TwillAssertionError: code is 500 != 200
I am running Galaxy under virtualenv. Unfortunately I get the same error irrespective of whther my input/output files exits inside test-data/ directory. I forgot to link them to test-data path earlier, but I get the same error even otherwise.
Regards,
Peter
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