Hi,
On Sun, Feb 23, 2020 at 07:54:59AM +0100, Lucas Nussbaum wrote:
> During a rebuild of all packages in sid, your package failed to build
> on amd64.
>
> Relevant part (hopefully):
...
> > test _assemble_with_fermilite ... FAIL
I stumbled upon several failures with fermilite in the name of the test.
> > test _assemble_with_spades ... SKIP: Spades assembler is optional and is
> > not configured
> > test _assemble_with_spades handles spades fail ... SKIP: Spades assembler
> > is optional and is not configured
> > test _check_spades_log_file ... Error running SPAdes. Cannot continue. This
> > is the error from the log file
> > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.7_ariba/build/ariba/tests/data/assembly_test_check_spades_log_file.log.bad
> > ...
> > == Error == system call for: "['/foo/bar/SPAdes-3.6.0-Linux/bin/spades',
> > '/spam/eggs/K21/configs/config.info']" finished abnormally, err code: -7
This is the only test that is not affected by my considerations.
> > test _run_fermilite ... FAIL
> > test _run_fermilite when it fails ... ok
Here are other examples.
> > --------------------- >> end captured stdout << ----------------------
> >
> > ----------------------------------------------------------------------
> > Ran 356 tests in 40.055s
> >
> > FAILED (SKIP=2, failures=26)
I did a local build against fermi-lite 0.1-5 from snapshots[1] which left me
with
test _assemble_with_spades ... WARNING: I tried to get the version of spades
with: "/usr/bin/spades.py --version" and the output didn't match this regular
expression: "SPAdes\s+v([0-9\.]+)"
The following command failed with exit code 1
['python3', '/usr/bin/spades.py', '-t', '1', '--pe1-1',
'/home/andreas/debian-maintain/salsa/med-team/build-area/ariba-2.14.4+ds/.pybuild/cpython3_3.7_ariba/build/ariba/tests/data/assembly_test_assemble_with_spa
The output was:
File "/usr/bin/spades.py", line 2
SPADESDIR=/usr/lib/spades/bin
^
SyntaxError: invalid syntax
FAIL
test _assemble_with_spades handles spades fail ... WARNING: I tried to get the
version of spades with: "/usr/bin/spades.py --version" and the output didn't
match this regular expression: "SPAdes\s+v([0-9\.]+)"
The following command failed with exit code 1
['python3', '/usr/bin/spades.py', '-t', '1', '--pe1-1',
'/home/andreas/debian-maintain/salsa/med-team/build-area/ariba-2.14.4+ds/.pybuild/cpython3_3.7_ariba/build/ariba/tests/data/assembly_test_assemble_with_spa
The output was:
File "/usr/bin/spades.py", line 2
SPADESDIR=/usr/lib/spades/bin
^
SyntaxError: invalid syntax
ok
test _check_spades_log_file ... Error running SPAdes. Cannot continue. This is
the error from the log file
/home/andreas/debian-maintain/salsa/med-team/build-area/ariba-2.14.4+ds/.pybuild/cpython3_3.7_ariba/buil
== Error == system call for: "['/foo/bar/SPAdes-3.6.0-Linux/bin/spades',
'/spam/eggs/K21/configs/config.info']" finished abnormally, err code: -7
ok
...
======================================================================
FAIL: test _assemble_with_spades
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/andreas/debian-maintain/salsa/med-team/build-area/ariba-2.14.4+ds/.pybuild/cpython3_3.7_ariba/build/ariba/tests/assembly_test.py",
line 128, in test_assemble_with_spades
self.assertTrue(a.assembled_ok)
AssertionError: False is not true
----------------------------------------------------------------------
Ran 356 tests in 75.642s
FAILED (failures=1)
I need to inspect the spades issue (may be my local environment is not
totally clean regarding spades!) but it seems that changes in fermi-lite
between 0.1-5 and latest fermi-lite are responsible for most of the test
suite errors. There might be a chance to "bisect" fermi-lite package
uploads (= checking 0.1-7 and depending from the result 0.1-6 or 0.1-8)
to find out what actual change might have caused the failures. But
may be Michael or Sascha (both in CC have a more direct idea about the
changes that might affect the test.
Kind regards
Andreas.
PS: The package is of some specific relevance since it belongs to the
Python 3.8 transition blockers.
[1] https://snapshot.debian.org/package/fermi-lite/0.1-5/
--
http://fam-tille.de
