Hi all,

I've got a relatively fresh installed Galaxy instance running within a locked network, where internet access is allowed only via a proxy. So far, so simple; indeed I get internet access via a terminal (e.g. calling Google with lynx), also wget and mercurial have the chance to access target URL's. The variables $http_proxy, $https_proxy and $ftp_proxy are set.


My problem occurs when I try to execute the automatic tests (using 'run_functional_tests.sh') for the FASTX toolbox, described here right at the end:
http://hannonlab.cshl.edu/fastx_toolkit/download.html

The calls of the scripts generally end up in an error block of the following scheme:

#####
functional_tests.py DEBUG 2013-06-25 14:15:40,406 Attempting to serve app on randomly chosen port: 8720
functional_tests.py INFO 2013-06-25 14:15:40,468 Embedded web server started
base.asserts DEBUG 2013-06-25 14:15:40,506 base.asserts.text
base.asserts DEBUG 2013-06-25 14:15:40,506 base.asserts.tabular
base.asserts DEBUG 2013-06-25 14:15:40,506 base.asserts.xml
functional_tests.py INFO 2013-06-25 14:15:40,506 Functional tests will be run against localhost:8720 nose.plugins.manager DEBUG 2013-06-25 14:15:40,518 DefaultPluginManager load plugin nosetestdiff = nosetestdiff.plugin:NoseTes
tDiff
nose.plugins.manager DEBUG 2013-06-25 14:15:40,520 DefaultPluginManager load plugin nosehtml = nosehtml.plugin:NoseHTML
Uncollapse ( cshl_fastx_uncollapser ) > Test-1 ... ERROR

======================================================================
ERROR: Uncollapse ( cshl_fastx_uncollapser ) > Test-1
----------------------------------------------------------------------
Traceback (most recent call last):
File "/home/galaxy/galaxy-dist/test/base/twilltestcase.py", line 53, in setUp
    self.home()
File "/home/galaxy/galaxy-dist/test/base/twilltestcase.py", line 1141, in home
    self.visit_url( self.url )
File "/home/galaxy/galaxy-dist/test/base/twilltestcase.py", line 1324, in visit_url
    tc.code( 200 )
File "/home/galaxy/galaxy-dist/eggs/twill-0.9-py2.6.egg/twill/commands.py", line 133, in code
    should_be))
TwillAssertionError: code is 403 != 200

----------------------------------------------------------------------
Ran 1 test in 0.011s

FAILED (errors=1)
#####

For me it reads like there is problem while testing to call the URL in self.url, which resolves to 'localhost:9441'. URL and port are drawn from the environment in the script ".../galaxy-dist/test/base/twilltestcase.py":

#####
class TwillTestCase( unittest.TestCase ):

    def setUp( self ):
        [...]
        self.host = os.environ.get( 'GALAXY_TEST_HOST' )
        self.port = os.environ.get( 'GALAXY_TEST_PORT )
        self.url = "http://%s:%s"; % ( self.host, self.port )
        [...]

#####

I could neither observe any process listening to port 9441 during the test script execution, nor any of the text files within the galaxy root dir contained '9441' as part of a configuration option.

Finally I'm a bit confused what that means to me, beyond just not to be able to use the test suite. Anyone an idea what could and/or should be fixed or checked?

Thanks in advance,

Sebastian



--
Sebastian Schaaf, M.Sc. Bioinformatics
Department of Medical Informatics,
 Biometry and Epidemiology (IBE)
University of Munich

___________________________________________________________
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:
 http://lists.bx.psu.edu/

To search Galaxy mailing lists use the unified search at:
 http://galaxyproject.org/search/mailinglists/

Reply via email to