[Debian-med-packaging] upload for snakemake

[Andreas Tille]

Hi Kevin,

On Sun, Dec 11, 2016 at 11:30:30AM +1100, Kevin Murray wrote:
> I can't remember if I asked already, but I've prepared the package for the
> latest version for snakemake (and pushed to git). This version should fix an RC
> bug, so could I get a review and upload please?

I tried to build after upgrading to debhelper 10 which should be fine
since --parallel was given anyway.  I also tried with explicit
--no-parallel but in both cases I was running into an error in the
build time tests when building in pbuilder:

======================================================================
FAIL: tests.tests.test_symlink_time_handling
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/usr/lib/python3/dist-packages/nose/case.py", line 198, in runTest
    self.test(*self.arg)
  File "/build/snakemake-3.9.0+dfsg/.pybuild/pythonX.Y_3.5/build/tests/tests.py", line 345, in test_symlink_time_handling
    run(dpath("test_symlink_time_handling"))
  File "/build/snakemake-3.9.0+dfsg/.pybuild/pythonX.Y_3.5/build/tests/tests.py", line 89, in run
    assert success, "expected successful execution"
AssertionError: expected successful execution
-------------------- >> begin captured logging << --------------------
snakemake.logging: WARNING: Provided cores: 3
snakemake.logging: WARNING: Rules claiming more threads will be scaled down.
snakemake.logging: WARNING: Job counts:
        count   jobs
        1       main
        1       make_output
        2
snakemake.logging: INFO: rule make_output:
    input: input_link
    output: output_link
snakemake.logging: INFO: 
snakemake.logging: WARNING: Removing output files of failed job make_output since they might be corrupted:
output_link
snakemake.logging: WARNING: Will exit after finishing currently running jobs.
snakemake.logging: ERROR: Exiting because a job execution failed. Look above for error message
--------------------- >> end captured logging << ---------------------

----------------------------------------------------------------------


Any idea what might went wrong here?

Kind regards

        Andreas.

-- 
http://fam-tille.de