Hi Peter,

On Feb 3, 2014, at 7:01 PM, Peter Cock <p.j.a.cock@googlemail.com> wrote:

Moreover there is a similar problem with the matching repository
on the Test Tool Shed,

http://testtoolshed.g2.bx.psu.edu/view/peterjc/blastxml_to_top_descr
2014-01-04 showing failed tests for proteomics_search_tandem_1
2013-12-20 showing failed tests for proteomics_search_tandem_1
2013-12-18 tests for blastxml_to_top_descr passed
2013-12-17 tests for blastxml_to_top_descr passed

Like the same repository on the main tool shed, the above issue were fixed for the blastxml_to_top_descr on the test tool shed in https://bitbucket.org/galaxy/galaxy-central/commits/e3a4d4d813fdb8a34cfd6d596e0f4bbdb2d9e211

--

Returning to the MIRA4 problem, I got a meaningful test
failure which I fixed (I hadn't set an environment variable
in the install script), but I now get only partial test output:

http://testtoolshed.g2.bx.psu.edu/view/peterjc/mira4_assembler
...
That's all fine, but where are the test results for mira_bait which
I would expect to pass?

It looks lie the mira_bait tests results are being populated, bu 

the tests are failing, not passing.  This doesn't look like an 

issue with the Tool Shed's install and test framework.