failing tests when building Cantera 2.3.0 from source

[boegel]

Cantera version

2.3.0

Operating System

CentOS 7.3

Python/MATLAB version

• Python 2.7.12 (own installation)
• no MATLAB

Expected Behavior

tests pass

Actual Behavior

7 failing tests

• one with Argument list too long
• others with missing input files

I'm not sure why either of these problems occur at all, I'm not seeing an obvious potential cause...

Steps to reproduce

1. build Cantera 2.3.0 from source using scons install env_vars=all CC="icc" CXX="icpc" blas_lapack_libs=mkl_rt blas_lapack_dir=$BLAS_LAPACK_LIB_DIR sundials_include=$EBROOTSUNDIALS/include sundials_libdir=$EBROOTSUNDIALS/lib prefix=$PREFIX
2. try to run tests with scons test env_vars=all CC="icc" CXX="icpc" blas_lapack_libs=mkl_rt blas_lapack_dir=$BLAS_LAPACK_LIB_DIR sundials_include=$EBROOTSUNDIALS/include sundials_libdir=$EBROOTSUNDIALS/lib

======================================================================
FAIL: test_long_source_input (cantera.test.test_convert.CtmlConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 474, in test_long_source_input
    gas2 = ct.Solution(source=data_size_2048kB)
  File "interfaces/cython/cantera/base.pyx", line 29, in cantera._cantera._SolutionBase.__cinit__ (interfaces/cython/cantera/_cantera.cpp:7629)
  File "interfaces/cython/cantera/base.pyx", line 52, in cantera._cantera._SolutionBase._init_cti_xml (interfaces/cython/cantera/_cantera.cpp:8046)
CanteraError: 
***********************************************************************
CanteraError thrown by ct2ctml_string:
Error executing python while converting input file:
Python command was: '/tmp/vsc40023/software/Python/2.7.12-intel-2016b/bin/python'
exec_stream_t::start: error in child process.exec_stream_t::start: exec in child process failed. /tmp/vsc40023/software/Python/2.7.12-intel-2016b/bin/python
Argument list too long
[code 0x0007 (7)]
***********************************************************************


======================================================================
FAIL: test_gri30 (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 69, in test_gri30
    outName=pjoin(self.test_work_dir, 'gri30_test.cti'), quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/gri30.inp'

======================================================================
FAIL: test_transport_bad_geometry (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 349, in test_transport_bad_geometry
    quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/h2o2.inp'

======================================================================
FAIL: test_transport_duplicate_species (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 336, in test_transport_duplicate_species
    quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/h2o2.inp'

======================================================================
FAIL: test_transport_extra_column_entries (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 329, in test_transport_extra_column_entries
    quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/h2o2.inp'

======================================================================
FAIL: test_transport_missing_species (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 322, in test_transport_missing_species
    quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/h2o2.inp'

======================================================================
FAIL: test_transport_normal (cantera.test.test_convert.chemkinConverterTest)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 301, in test_transport_normal
    outName=pjoin(self.test_work_dir, 'h2o2_transport_normal.cti'), quiet=True)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/test_convert.py", line 14, in convertMech
    parser.convertMech(inputFile, outName=outName, **kwargs)
  File "/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/ck2cti.py", line 2166, in convertMech
    raise IOError('Missing input file: {0!r}'.format(inputFile))
IOError: Missing input file: '/tmp/vsc40023/easybuild_build/Cantera/2.3.0/intel-2016b-Python-2.7.12/cantera-2.3.0/build/python2/cantera/test/data/h2o2.inp'

----------------------------------------------------------------------
Ran 507 tests in 52.130s

FAILED (failures=7, expected failures=3)

[bryanwweber]

The first of those errors was fixed by 0a1257d that got pushed the other day. I'm not sure when we'll be making a point release to fix this, but in the meantime you can cherry-pick that commit onto your 2.3 branch, hopefully it will apply without conflicts. I suspect that will also solve the rest of the errors.

[speth]

Regarding the other errors, please provide the full log from scons build (after running scons clean). Those input files should be copied to the specified folder as part of the build process.

[boegel]

@speth Hmm, I'm not running scons build, only scons install followed by scons test (in a build directory that is a clean unpacked source tarball). Could that be my problem? This approach worked fine with Cantera 2.2.1 (cfr. discussion in #433).

Full output is available at https://gist.github.com/boegel/4ae58f8f64bda8e7ab6e09b9b54722e0.

There's quite a bit of EasyBuild log messages in there too, so look for scons install

[speth]

Yes, I think not running scons build is the source of the problem. I think there are implicit dependencies for the install and test targets that SCons doesn't know about. I'm looking into a proper fix for this, but just running scons build before the other commands should have the same effect (given that build-test-install is the expected sequence of SCons commands).

[boegel]

for what it's worth: I can confirm that running scons build first fixes the 2nd problem I had, so in combination with backporting 0a1257d all tests now pass on my end too (except for the one covered in #433)