Hello Frank, see my inline comments. On Feb 20, 2012, at 6:56 AM, Frank Sørensen wrote:

Hi Guys,

Sorry if this is a stupid question, but in order to find out which external reference files (.loc - list files etc.) we need for our newly installed Galaxy server, and to get an overview of which tools are in working order, I have tried for a couple of days now, to run the script "run_functional_tests.sh".

What is the exact command line that you are using to attempt to execute the functional tests? Are you using the following? %sh run_functional_test.sh

I have copied tool_conf.xml over tool_conf.xml.sample,

The functional tests use tool_conf.xml.sample, so what are the contents of that file in your environment?

and I've tried to run all scripts mentioned in http://wiki.g2.bx.psu.edu/Main/Tests/Framework.

I assume by the above you mean this link: http://wiki.g2.bx.psu.edu/Main/Tests%20Framework Here is another link that provide additional information for testing: http://wiki.g2.bx.psu.edu/Admin/Running%20Tests

I have tried to stop the server and run run_functional_tests.sh and all I get is the message saying "Ran 0 tests in 0.000s", and an empty run_functional_tests.html - file. I haven't been able to find any documentation to clarify this matter. Can anyone give me a pointer please?

We'll need more information about your environment, but we'll get this figured out.

Our Galaxy server is installed using Mercurial on an Ubuntu server. I have written tool-wrappers for some of our own programs, and they all work fine.

Regards

- Frank

-- Frank Sørensen, B.Sc., Programmer Molecular Diagnostic Laboratory (MDL) Molekylær Medicinsk Afdeling (MOMA) Århus Universitetshospital Skejby, Brendstrupgårdsvej, 8200 Århus N Tlf. +45 7845 5363 ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at:

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