On Fri Jan 30 2015 at 12:18:10 PM Nicola Soranzo <nsoranzo@tiscali.it> wrote:

Hi Peter,
I was also getting "Exception: History in error state" errors with BioBlend continuous integration testing, but those seem to be fixed with latest Dannon's commit 3618b7a91e23096ecf7ce5842c1e16c749251a4d .

Nicola

Il 30.01.2015 17:36 Peter Cock ha scritto:
Retitling thread,

On Thu, Nov 6, 2014 at 11:08 AM, Peter Cock <p.j.a.cock@googlemail.com> wrote:
Thanks Dave, The good news is yes, the tests are running again on the Test Tool Shed (although not the main Tool Shed yet), and many of my tools now have successful test results from last night. e.g. My new basic mummer tool which now has a full set of dependency packages thanks to Bjoern: https://testtoolshed.g2.bx.psu.edu/view/peterjc/mummer The bad news is there are many unexpected failures with: "Exception: History in error state." I'm sure you'll learn more once you look over the logs, Thank you, Peter
Right now the mummer example given above is passing,
but I am still getting this error on some of my tools, e.g.

https://testtoolshed.g2.bx.psu.edu/view/peterjc/blast2go
tested 2015-01-25 11:21:12

https://testtoolshed.g2.bx.psu.edu/view/peterjc/get_orfs_or_cdss
tested 2015-01-25 10:52:03

(Many of my other tools are also currently listed with
different unexpected failures, some of which include
the "Exception: History in error state." traceback.)

Interestingly, I've just got what appears to be the same
exception from a TravisCI test run (following a trivial
change to README files):

https://travis-ci.org/peterjc/galaxy_blast/builds/48893916

e.g. (one of many similar failing tests in this log)
======================================================================
ERROR: test_tool_000000
(functional.test_toolbox.TestForTool_blastxml_to_top_descr)
BLAST top hit descriptions ( blastxml_to_top_descr ) > Test-1
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/functional/test_toolbox.py",
line 268, in test_tool
    self.do_it( td )
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/functional/test_toolbox.py",
line 37, in do_it
    stage_data_in_history( galaxy_interactor, testdef.test_data(),
test_history, shed_tool_id )
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/base/interactor.py",
line 42, in stage_data_in_history
    upload_wait()
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/base/interactor.py",
line 279, in wait
    while not self.__history_ready( history_id ):
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/base/interactor.py",
line 297, in __history_ready
    return self._state_ready( state, error_msg="History in error state." )
  File "/home/travis/build/peterjc/galaxy_blast/galaxy-central-master/test/base/interactor.py",
line 356, in _state_ready
    raise Exception( error_msg )
Exception: History in error state.


I do not recall seeing this problem locally when using my
development instllation of galaxy-central.

The TravisCI failure suggests this could be a stochastic
resource contention (I can re-run the TravisCI build and
see if this works second time round?), which is more prone
to fail under the Tool Shed framework?

Peter
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